# Executive Summary

# Maternal Preconception Study

## Pup Retrieval

# Introduction

The results of the analysis are presented using the following structure:

1. Searchable High‑Level Summary: Provides a brief overview of the key findings from our analysis with a table of effects
2. Visualisation, Descriptive Statistics and Diagnostics by Variable: Exploratory data analysis and model diagnostics for each behavioral measure
3. Searchable ROPE Analysis Table: Model diagnostics to check the fit of the models

# Effects of Interest

- CRA dams were more likely to retrieve all their pups than Control dams.

Note: Pup numbers were not included in the analysis due to lack of variance in the data.

# Searchable High‑Level Summary

### Enter search terms in the column headers to filter the table below

Note: TD in the Higher column indicates a Trend Difference for the continuous variable.

# Visualisation, Descriptive Statistics and Diagnostics by Variable

### Bar Plot

$data list() attr(,“class”) [1] “waiver”

\(layers\)layers[[1]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, fill = ~group_interaction, group = ~y_group geom_boxplot: outliers = TRUE, outlier.colour = NULL, outlier.fill = NULL, outlier.shape = NA, outlier.size = 1.5, outlier.stroke = 0.5, outlier.alpha = NULL, notch = FALSE, notchwidth = 0.5, staplewidth = 0, varwidth = FALSE, na.rm = FALSE, orientation = y, width = 0.5, fatten = 8.2 stat_boxplot: na.rm = FALSE, orientation = y, width = 0.5 position_dodge2

$layers[[2]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, group = ~y_group geom_point: na.rm = FALSE stat_identity: na.rm = FALSE position_beeswarm

$layers[[3]] mapping: x = ~label_x, y = ~y_group, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

$mapping named list() attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 14

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

$axis.title.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 3.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 3.5points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 3.5points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.8points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 3.5points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 7points 7points 7points 7points

$legend.spacing [1] 14points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 7points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 14points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 7points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 7points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 7points 7points 7points 7points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 5.6points 5.6points 5.6points 5.6points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 3.5points

$strip.switch.pad.wrap [1] 3.5points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84c7aca50>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “Retrieved All Pups (Y/N)”

\(labels\)y [1] “”

\(labels\)colour [1] “group_interaction”

\(labels\)fill [1] “group_interaction”

\(labels\)group [1] “y_group”

\(labels\)label [1] “label_text”

attr(,“class”) [1] “gg” “ggplot”

### Density Plot

$data # A tibble: 45 × 6 ID ID2 Diet value group_interaction color
1 1 356 Control 0 Control #2E2E2E 2 2 357 Control 0 Control #2E2E2E 3 3 358 Control 0 Control #2E2E2E 4 4 359 Control 1 Control #2E2E2E 5 5 360 Control 0 Control #2E2E2E 6 6 361 Control 0 Control #2E2E2E 7 25 328 Control 0 Control #2E2E2E 8 26 329 Control 0 Control #2E2E2E 9 27 336 Control 0 Control #2E2E2E 10 28 337 Control 1 Control #2E2E2E # ℹ 35 more rows

\(layers\)layers[[1]] mapping: colour = ~group_interaction, fill = ~group_interaction geom_density_ridges: na.rm = FALSE, panel_scaling = TRUE stat_density_ridges: na.rm = FALSE, jittered_points = TRUE, quantile_lines = TRUE, quantiles = 2 position_points_sina

$layers[[2]] mapping: x = ~label_x_position, y = ~group_interaction, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^value env: 0x000001b84e17f120

$y expr: ^group_interaction env: 0x000001b84e17f120

$fill expr: ^group_interaction env: 0x000001b84e17f120

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

$axis.text.y list() attr(,“class”) [1] “element_blank” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.minor.x NULL

$panel.grid.minor.y list() attr(,“class”) [1] “element_blank” “element”

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: TRUE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84e17f120>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “Retrieved All Pups (Y/N)”

\(labels\)y [1] “”

\(labels\)fill [1] “group_interaction”

\(labels\)colour [1] “group_interaction”

\(labels\)label [1] “label_text”

\(labels\)height [1] “density” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

Retrieved All Pups by Grouping Variables
Diet | n | Mean | SD | Min | Max | % of Zeros | Zero Flag
--- | --- | --- | --- | --- | --- | --- | ---
Control | 12.0 | 0.2 | 0.4 | 0.0 | 1.0 | 83.3 | *
CR25 | 11.0 | 0.5 | 0.5 | 0.0 | 1.0 | 54.5 | *
CRA | 10.0 | 0.7 | 0.5 | 0.0 | 1.0 | 30.0 | !
CRV | 12.0 | 0.4 | 0.5 | 0.0 | 1.0 | 58.3 | *
Warning symbols: * = >40% zeros in this group, ! = >20% zeros in entire sample Either flag triggers the use of a binary choice model.

### Summary Table

Model Summary
Family: bernoulli
Parameter | Estimate | Std. Error | 2.5% CI | 97.5% CI | Type
--- | --- | --- | --- | --- | ---
Fixed Effects
Intercept | −0.767 | 0.456 | −1.674 | 0.114 | Fixed Effects
DietCR25 | 0.416 | 0.628 | −0.822 | 1.650 | Fixed Effects
DietCRA | 1.139 | 0.637 | −0.098 | 2.404 | Fixed Effects
DietCRV | 0.305 | 0.615 | −0.892 | 1.495 | Fixed Effects

### Posterior Check

$data # A tibble: 495 × 7 y_id y_name rep_id rep_label is_y is_y_label value 1 1 1 1 italic(y)[rep] ( 1 ) FALSE italic(y)[rep] 0 2 1 1 2 italic(y)[rep] ( 2 ) FALSE italic(y)[rep] 1 3 1 1 3 italic(y)[rep] ( 3 ) FALSE italic(y)[rep] 0 4 1 1 4 italic(y)[rep] ( 4 ) FALSE italic(y)[rep] 0 5 1 1 5 italic(y)[rep] ( 5 ) FALSE italic(y)[rep] 1 6 1 1 6 italic(y)[rep] ( 6 ) FALSE italic(y)[rep] 1 7 1 1 7 italic(y)[rep] ( 7 ) FALSE italic(y)[rep] 1 8 1 1 8 italic(y)[rep] ( 8 ) FALSE italic(y)[rep] 0 9 1 1 9 italic(y)[rep] ( 9 ) FALSE italic(y)[rep] 0 10 1 1 10 italic(y)[rep] ( 10 ) FALSE italic(y)[rep] 0 # ℹ 485 more rows

\(layers\)layers[[1]] mapping: group = ~.data$rep_id, colour = yrep geom_line: na.rm = FALSE, orientation = NA stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$layers[[2]] mapping: colour = y geom_line: na.rm = FALSE, orientation = NA, lineend = round stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^.data$value env: 0x000001b8ddb803f0

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “right”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: FALSE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b8ddb803f0>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$title [1] “Posterior Predictive Check”

\(labels\)x NULL

\(labels\)y NULL

\(labels\)group [1] “rep_id”

\(labels\)colour [1] “colour”

\(labels\)fill [1] “fill” attr(,“fallback”) [1] TRUE

\(labels\)weight [1] “weight” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

### Convergence

Effect | Median | [95% HDI] | Direction Prob. | ROPE %
--- | --- | --- | --- | ---
Diet: Control vs CR25
Diet: Control vs CR25 | -0.41 | [-1.67, 0.78] | 75.25 | 18.45
Diet: Control vs CRA
Diet: Control vs CRA | -1.14 | [-2.36, 0.11] | 96.75 | 4.35
Diet: Control vs CRV
Diet: Control vs CRV | -0.30 | [-1.55, 0.89] | 68.90 | 19.35
Diet: CR25 vs CRA
Diet: CR25 vs CRA | -0.73 | [-2.35, 0.66] | 83.90 | 13.70
Diet: CR25 vs CRV
Diet: CR25 vs CRV | 0.10 | [-1.29, 1.58] | 55.35 | 19.10
Diet: CRA vs CRV
Diet: CRA vs CRV | 0.85 | [-0.72, 2.39] | 86.65 | 10.45

No continuous ROPE effects available.

### Bar Plot

$data list() attr(,“class”) [1] “waiver”

\(layers\)layers[[1]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, fill = ~group_interaction, group = ~y_group geom_boxplot: outliers = TRUE, outlier.colour = NULL, outlier.fill = NULL, outlier.shape = NA, outlier.size = 1.5, outlier.stroke = 0.5, outlier.alpha = NULL, notch = FALSE, notchwidth = 0.5, staplewidth = 0, varwidth = FALSE, na.rm = FALSE, orientation = y, width = 0.5, fatten = 8.2 stat_boxplot: na.rm = FALSE, orientation = y, width = 0.5 position_dodge2

$layers[[2]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, group = ~y_group geom_point: na.rm = FALSE stat_identity: na.rm = FALSE position_beeswarm

$layers[[3]] mapping: x = ~label_x, y = ~y_group, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

$mapping named list() attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 14

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

$axis.title.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 3.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 3.5points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 3.5points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.8points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 3.5points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 7points 7points 7points 7points

$legend.spacing [1] 14points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 7points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 14points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 7points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 7points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 7points 7points 7points 7points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 5.6points 5.6points 5.6points 5.6points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 3.5points

$strip.switch.pad.wrap [1] 3.5points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84cf7ff20>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “All Pups Latency (s)”

\(labels\)y [1] “”

\(labels\)colour [1] “group_interaction”

\(labels\)fill [1] “group_interaction”

\(labels\)group [1] “y_group”

\(labels\)label [1] “label_text”

attr(,“class”) [1] “gg” “ggplot”

### Density Plot

$data # A tibble: 45 × 6 ID ID2 Diet value group_interaction color
1 1 356 Control 0 Control #2E2E2E 2 2 357 Control 0 Control #2E2E2E 3 3 358 Control 0 Control #2E2E2E 4 4 359 Control 125. Control #2E2E2E 5 5 360 Control 0 Control #2E2E2E 6 6 361 Control 0 Control #2E2E2E 7 25 328 Control 0 Control #2E2E2E 8 26 329 Control 0 Control #2E2E2E 9 27 336 Control 0 Control #2E2E2E 10 28 337 Control 105. Control #2E2E2E # ℹ 35 more rows

\(layers\)layers[[1]] mapping: colour = ~group_interaction, fill = ~group_interaction geom_density_ridges: na.rm = FALSE, panel_scaling = TRUE stat_density_ridges: na.rm = FALSE, jittered_points = TRUE, quantile_lines = TRUE, quantiles = 2 position_points_sina

$layers[[2]] mapping: x = ~label_x_position, y = ~group_interaction, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^value env: 0x000001b84ef82ea8

$y expr: ^group_interaction env: 0x000001b84ef82ea8

$fill expr: ^group_interaction env: 0x000001b84ef82ea8

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

$axis.text.y list() attr(,“class”) [1] “element_blank” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.minor.x NULL

$panel.grid.minor.y list() attr(,“class”) [1] “element_blank” “element”

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: TRUE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84ef82ea8>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “All Pups Latency (s)”

\(labels\)y [1] “”

\(labels\)fill [1] “group_interaction”

\(labels\)colour [1] “group_interaction”

\(labels\)label [1] “label_text”

\(labels\)height [1] “density” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

All Pups Latency by Grouping Variables
Diet | n | Mean | SD | Min | Max | % of Zeros | Zero Flag
--- | --- | --- | --- | --- | --- | --- | ---
Control | 12.0 | 19.2 | 45.0 | 0.0 | 125.2 | 83.3 | *
CR25 | 11.0 | 111.6 | 178.1 | 0.0 | 591.4 | 54.5 | *
CRA | 10.0 | 180.2 | 172.6 | 0.0 | 557.1 | 30.0 | !
CRV | 12.0 | 133.4 | 192.4 | 0.0 | 485.5 | 58.3 | *
Warning symbols: * = >40% zeros in this group, ! = >20% zeros in entire sample Either flag triggers the use of a binary choice model.

### Summary Table

Model Summary
Family: bernoulli
Parameter | Estimate | Std. Error | 2.5% CI | 97.5% CI | Type
--- | --- | --- | --- | --- | ---
Fixed Effects
Intercept | −0.767 | 0.456 | −1.674 | 0.114 | Fixed Effects
DietCR25 | 0.416 | 0.628 | −0.822 | 1.650 | Fixed Effects
DietCRA | 1.139 | 0.637 | −0.098 | 2.404 | Fixed Effects
DietCRV | 0.305 | 0.615 | −0.892 | 1.495 | Fixed Effects

### Posterior Check

$data # A tibble: 495 × 7 y_id y_name rep_id rep_label is_y is_y_label value 1 1 1 1 italic(y)[rep] ( 1 ) FALSE italic(y)[rep] 0 2 1 1 2 italic(y)[rep] ( 2 ) FALSE italic(y)[rep] 1 3 1 1 3 italic(y)[rep] ( 3 ) FALSE italic(y)[rep] 0 4 1 1 4 italic(y)[rep] ( 4 ) FALSE italic(y)[rep] 1 5 1 1 5 italic(y)[rep] ( 5 ) FALSE italic(y)[rep] 0 6 1 1 6 italic(y)[rep] ( 6 ) FALSE italic(y)[rep] 0 7 1 1 7 italic(y)[rep] ( 7 ) FALSE italic(y)[rep] 0 8 1 1 8 italic(y)[rep] ( 8 ) FALSE italic(y)[rep] 1 9 1 1 9 italic(y)[rep] ( 9 ) FALSE italic(y)[rep] 1 10 1 1 10 italic(y)[rep] ( 10 ) FALSE italic(y)[rep] 0 # ℹ 485 more rows

\(layers\)layers[[1]] mapping: group = ~.data$rep_id, colour = yrep geom_line: na.rm = FALSE, orientation = NA stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$layers[[2]] mapping: colour = y geom_line: na.rm = FALSE, orientation = NA, lineend = round stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^.data$value env: 0x000001b8e1047ba0

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “right”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: FALSE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b8e1047ba0>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$title [1] “Posterior Predictive Check”

\(labels\)x NULL

\(labels\)y NULL

\(labels\)group [1] “rep_id”

\(labels\)colour [1] “colour”

\(labels\)fill [1] “fill” attr(,“fallback”) [1] TRUE

\(labels\)weight [1] “weight” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

### Convergence

Effect | Median | [95% HDI] | Direction Prob. | ROPE %
--- | --- | --- | --- | ---
Diet: Control vs CR25
Diet: Control vs CR25 | -0.42 | [-1.60, 0.86] | 74.60 | 18.65
Diet: Control vs CRA
Diet: Control vs CRA | -1.14 | [-2.36, 0.04] | 96.65 | 4.35
Diet: Control vs CRV
Diet: Control vs CRV | -0.30 | [-1.49, 1.00] | 67.95 | 20.80
Diet: CR25 vs CRA
Diet: CR25 vs CRA | -0.74 | [-2.43, 0.68] | 83.60 | 12.15
Diet: CR25 vs CRV
Diet: CR25 vs CRV | 0.10 | [-1.31, 1.50] | 55.35 | 18.30
Diet: CRA vs CRV
Diet: CRA vs CRV | 0.83 | [-0.60, 2.40] | 87.45 | 10.75

No continuous ROPE effects available.

### Bar Plot

$data list() attr(,“class”) [1] “waiver”

\(layers\)layers[[1]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, fill = ~group_interaction, group = ~y_group geom_boxplot: outliers = TRUE, outlier.colour = NULL, outlier.fill = NULL, outlier.shape = NA, outlier.size = 1.5, outlier.stroke = 0.5, outlier.alpha = NULL, notch = FALSE, notchwidth = 0.5, staplewidth = 0, varwidth = FALSE, na.rm = FALSE, orientation = y, width = 0.5, fatten = 8.2 stat_boxplot: na.rm = FALSE, orientation = y, width = 0.5 position_dodge2

$layers[[2]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, group = ~y_group geom_point: na.rm = FALSE stat_identity: na.rm = FALSE position_beeswarm

$layers[[3]] mapping: x = ~label_x, y = ~y_group, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

$mapping named list() attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 14

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

$axis.title.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 3.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 3.5points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 3.5points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.8points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 3.5points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 7points 7points 7points 7points

$legend.spacing [1] 14points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 7points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 14points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 7points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 7points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 7points 7points 7points 7points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 5.6points 5.6points 5.6points 5.6points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 3.5points

$strip.switch.pad.wrap [1] 3.5points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84c141c78>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “Retrieved First Pup (Y/N)”

\(labels\)y [1] “”

\(labels\)colour [1] “group_interaction”

\(labels\)fill [1] “group_interaction”

\(labels\)group [1] “y_group”

\(labels\)label [1] “label_text”

attr(,“class”) [1] “gg” “ggplot”

### Density Plot

$data # A tibble: 45 × 6 ID ID2 Diet value group_interaction color
1 1 356 Control 1 Control #2E2E2E 2 2 357 Control 0 Control #2E2E2E 3 3 358 Control 0 Control #2E2E2E 4 4 359 Control 1 Control #2E2E2E 5 5 360 Control 1 Control #2E2E2E 6 6 361 Control 0 Control #2E2E2E 7 25 328 Control 0 Control #2E2E2E 8 26 329 Control 1 Control #2E2E2E 9 27 336 Control 1 Control #2E2E2E 10 28 337 Control 1 Control #2E2E2E # ℹ 35 more rows

\(layers\)layers[[1]] mapping: colour = ~group_interaction, fill = ~group_interaction geom_density_ridges: na.rm = FALSE, panel_scaling = TRUE stat_density_ridges: na.rm = FALSE, jittered_points = TRUE, quantile_lines = TRUE, quantiles = 2 position_points_sina

$layers[[2]] mapping: x = ~label_x_position, y = ~group_interaction, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^value env: 0x000001b84d38e200

$y expr: ^group_interaction env: 0x000001b84d38e200

$fill expr: ^group_interaction env: 0x000001b84d38e200

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

$axis.text.y list() attr(,“class”) [1] “element_blank” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.minor.x NULL

$panel.grid.minor.y list() attr(,“class”) [1] “element_blank” “element”

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: TRUE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84d38e200>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “Retrieved First Pup (Y/N)”

\(labels\)y [1] “”

\(labels\)fill [1] “group_interaction”

\(labels\)colour [1] “group_interaction”

\(labels\)label [1] “label_text”

\(labels\)height [1] “density” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

Retrieved First Pup by Grouping Variables
Diet | n | Mean | SD | Min | Max | % of Zeros | Zero Flag
--- | --- | --- | --- | --- | --- | --- | ---
Control | 12.0 | 0.6 | 0.5 | 0.0 | 1.0 | 41.7 | *
CR25 | 11.0 | 0.7 | 0.5 | 0.0 | 1.0 | 27.3 | !
CRA | 10.0 | 0.9 | 0.3 | 0.0 | 1.0 | 10.0 | !
CRV | 12.0 | 0.9 | 0.3 | 0.0 | 1.0 | 8.3 | !
Warning symbols: * = >40% zeros in this group, ! = >20% zeros in entire sample Either flag triggers the use of a binary choice model.

### Summary Table

Model Summary
Family: bernoulli
Parameter | Estimate | Std. Error | 2.5% CI | 97.5% CI | Type
--- | --- | --- | --- | --- | ---
Fixed Effects
Intercept | 0.953 | 0.478 | 0.049 | 1.921 | Fixed Effects
DietCR25 | 0.049 | 0.657 | −1.211 | 1.366 | Fixed Effects
DietCRA | 0.723 | 0.709 | −0.630 | 2.164 | Fixed Effects
DietCRV | 0.851 | 0.693 | −0.478 | 2.249 | Fixed Effects

### Posterior Check

$data # A tibble: 495 × 7 y_id y_name rep_id rep_label is_y is_y_label value 1 1 1 1 italic(y)[rep] ( 1 ) FALSE italic(y)[rep] 1 2 1 1 2 italic(y)[rep] ( 2 ) FALSE italic(y)[rep] 1 3 1 1 3 italic(y)[rep] ( 3 ) FALSE italic(y)[rep] 0 4 1 1 4 italic(y)[rep] ( 4 ) FALSE italic(y)[rep] 1 5 1 1 5 italic(y)[rep] ( 5 ) FALSE italic(y)[rep] 0 6 1 1 6 italic(y)[rep] ( 6 ) FALSE italic(y)[rep] 1 7 1 1 7 italic(y)[rep] ( 7 ) FALSE italic(y)[rep] 1 8 1 1 8 italic(y)[rep] ( 8 ) FALSE italic(y)[rep] 1 9 1 1 9 italic(y)[rep] ( 9 ) FALSE italic(y)[rep] 1 10 1 1 10 italic(y)[rep] ( 10 ) FALSE italic(y)[rep] 1 # ℹ 485 more rows

\(layers\)layers[[1]] mapping: group = ~.data$rep_id, colour = yrep geom_line: na.rm = FALSE, orientation = NA stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$layers[[2]] mapping: colour = y geom_line: na.rm = FALSE, orientation = NA, lineend = round stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^.data$value env: 0x000001b847116af8

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “right”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: FALSE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b847116af8>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$title [1] “Posterior Predictive Check”

\(labels\)x NULL

\(labels\)y NULL

\(labels\)group [1] “rep_id”

\(labels\)colour [1] “colour”

\(labels\)fill [1] “fill” attr(,“fallback”) [1] TRUE

\(labels\)weight [1] “weight” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

### Convergence

Effect | Median | [95% HDI] | Direction Prob. | ROPE %
--- | --- | --- | --- | ---
Diet: Control vs CR25
Diet: Control vs CR25 | -0.08 | [-1.37, 1.18] | 54.65 | 20.60
Diet: Control vs CRA
Diet: Control vs CRA | -0.72 | [-2.11, 0.74] | 85.20 | 12.10
Diet: Control vs CRV
Diet: Control vs CRV | -0.85 | [-2.07, 0.51] | 90.30 | 10.65
Diet: CR25 vs CRA
Diet: CR25 vs CRA | -0.65 | [-2.35, 1.07] | 77.20 | 12.55
Diet: CR25 vs CRV
Diet: CR25 vs CRV | -0.80 | [-2.44, 0.96] | 81.55 | 11.35
Diet: CRA vs CRV
Diet: CRA vs CRV | -0.14 | [-1.90, 1.58] | 55.90 | 15.10

No continuous ROPE effects available.

### Bar Plot

$data list() attr(,“class”) [1] “waiver”

\(layers\)layers[[1]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, fill = ~group_interaction, group = ~y_group geom_boxplot: outliers = TRUE, outlier.colour = NULL, outlier.fill = NULL, outlier.shape = NA, outlier.size = 1.5, outlier.stroke = 0.5, outlier.alpha = NULL, notch = FALSE, notchwidth = 0.5, staplewidth = 0, varwidth = FALSE, na.rm = FALSE, orientation = y, width = 0.5, fatten = 8.2 stat_boxplot: na.rm = FALSE, orientation = y, width = 0.5 position_dodge2

$layers[[2]] mapping: x = ~value, y = ~y_group, colour = ~group_interaction, group = ~y_group geom_point: na.rm = FALSE stat_identity: na.rm = FALSE position_beeswarm

$layers[[3]] mapping: x = ~label_x, y = ~y_group, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

$mapping named list() attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.6363636

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 14

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

$axis.title.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 3.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 3.5points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 3.5points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x list() attr(,“class”) [1] “element_blank” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.8points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.8points 0points 2.8points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 3.5points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 7points 7points 7points 7points

$legend.spacing [1] 14points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 7points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 14points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 7points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 7points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 7points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 7points 7points 7points 7points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 5.6points 5.6points 5.6points 5.6points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 3.5points

$strip.switch.pad.wrap [1] 3.5points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordFlip, CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84cbad7a8>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “First Pup Latency (s)”

\(labels\)y [1] “”

\(labels\)colour [1] “group_interaction”

\(labels\)fill [1] “group_interaction”

\(labels\)group [1] “y_group”

\(labels\)label [1] “label_text”

attr(,“class”) [1] “gg” “ggplot”

### Density Plot

$data # A tibble: 45 × 6 ID ID2 Diet value group_interaction color
1 1 356 Control 479. Control #2E2E2E 2 2 357 Control 0 Control #2E2E2E 3 3 358 Control 0 Control #2E2E2E 4 4 359 Control 24.3 Control #2E2E2E 5 5 360 Control 35.1 Control #2E2E2E 6 6 361 Control 0 Control #2E2E2E 7 25 328 Control 0 Control #2E2E2E 8 26 329 Control 267. Control #2E2E2E 9 27 336 Control 537. Control #2E2E2E 10 28 337 Control 22.7 Control #2E2E2E # ℹ 35 more rows

\(layers\)layers[[1]] mapping: colour = ~group_interaction, fill = ~group_interaction geom_density_ridges: na.rm = FALSE, panel_scaling = TRUE stat_density_ridges: na.rm = FALSE, jittered_points = TRUE, quantile_lines = TRUE, quantiles = 2 position_points_sina

$layers[[2]] mapping: x = ~label_x_position, y = ~group_interaction, label = ~label_text, fill = ~group_interaction, colour = ~group_interaction geom_label: parse = FALSE, label.padding = 0.25, label.r = 0.15, label.size = 0, size.unit = mm, na.rm = FALSE stat_identity: na.rm = FALSE position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^value env: 0x000001b84e85e2a0

$y expr: ^group_interaction env: 0x000001b84e85e2a0

$fill expr: ^group_interaction env: 0x000001b84e85e2a0

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

$axis.text.y list() attr(,“class”) [1] “element_blank” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “none”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y list() attr(,“class”) [1] “element_blank” “element”

$panel.grid.minor.x NULL

$panel.grid.minor.y list() attr(,“class”) [1] “element_blank” “element”

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: TRUE distance: function draw_panel: function expand: TRUE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b84e85e2a0>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$x [1] “First Pup Latency (s)”

\(labels\)y [1] “”

\(labels\)fill [1] “group_interaction”

\(labels\)colour [1] “group_interaction”

\(labels\)label [1] “label_text”

\(labels\)height [1] “density” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

First Pup Latency by Grouping Variables
Diet | n | Mean | SD | Min | Max | % of Zeros | Zero Flag
--- | --- | --- | --- | --- | --- | --- | ---
Control | 12.0 | 125.1 | 195.9 | 0.0 | 536.9 | 41.7 | *
CR25 | 11.0 | 72.6 | 104.5 | 0.0 | 275.8 | 27.3 | !
CRA | 10.0 | 41.3 | 46.9 | 0.0 | 122.5 | 10.0 | !
CRV | 12.0 | 73.2 | 84.5 | 0.0 | 281.7 | 8.3 | !
Warning symbols: * = >40% zeros in this group, ! = >20% zeros in entire sample Either flag triggers the use of a binary choice model.

### Summary Table

Model Summary
Family: lognormal
Parameter | Estimate | Std. Error | 2.5% CI | 97.5% CI | Type
--- | --- | --- | --- | --- | ---
Fixed Effects
Intercept | 1.076 | 0.814 | −0.563 | 2.665 | Fixed Effects
DietCR25 | −0.162 | 0.862 | −1.864 | 1.510 | Fixed Effects
DietCRA | 0.321 | 0.881 | −1.416 | 2.038 | Fixed Effects
DietCRV | 0.556 | 0.848 | −1.111 | 2.224 | Fixed Effects

### Posterior Check

$data # A tibble: 385 × 7 y_id y_name rep_id rep_label is_y is_y_label value 1 1 1 1 italic(y)[rep] ( 1 ) FALSE italic(y)[rep] 0.0598 2 1 1 2 italic(y)[rep] ( 2 ) FALSE italic(y)[rep] 11.6
3 1 1 3 italic(y)[rep] ( 3 ) FALSE italic(y)[rep] 3.53
4 1 1 4 italic(y)[rep] ( 4 ) FALSE italic(y)[rep] 0.112
5 1 1 5 italic(y)[rep] ( 5 ) FALSE italic(y)[rep] 891643.
6 1 1 6 italic(y)[rep] ( 6 ) FALSE italic(y)[rep] 9.25
7 1 1 7 italic(y)[rep] ( 7 ) FALSE italic(y)[rep] 0.00439 8 1 1 8 italic(y)[rep] ( 8 ) FALSE italic(y)[rep] 1620.
9 1 1 9 italic(y)[rep] ( 9 ) FALSE italic(y)[rep] 546.
10 1 1 10 italic(y)[rep] ( 10 ) FALSE italic(y)[rep] 180.
# ℹ 375 more rows

\(layers\)layers[[1]] mapping: group = ~.data$rep_id, colour = yrep geom_line: na.rm = FALSE, orientation = NA stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$layers[[2]] mapping: colour = y geom_line: na.rm = FALSE, orientation = NA, lineend = round stat_density: bw = nrd0, adjust = 1, kernel = gaussian, n = 1024, trim = FALSE, na.rm = FALSE, bounds = c(-Inf, Inf), orientation = NA position_identity

$scales <ggproto object: Class ScalesList, gg> add: function add_defaults: function add_missing: function backtransform_df: function clone: function find: function get_scales: function has_scale: function input: function map_df: function n: function non_position_scales: function scales: list set_palettes: function train_df: function transform_df: function super: <ggproto object: Class ScalesList, gg>

$guides <Guides[0] ggproto object>

\(mapping\)x expr: ^.data$value env: 0x000001b8df6af348

attr(,“class”) [1] “uneval”

\(theme\)line $colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$lineend [1] “butt”

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

\(rect\)fill [1] “white”

$colour [1] “black”

$linewidth [1] 0.5

$linetype [1] 1

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_rect” “element”

\(text\)family [1] “”

$face [1] “plain”

$colour [1] “black”

$size [1] 11

$hjust [1] 0.5

$vjust [1] 0.5

$angle [1] 0

$lineheight [1] 0.9

$margin [1] 0points 0points 0points 0points

$debug [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$title NULL

$aspect.ratio NULL

$axis.title NULL

\(axis.title.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.75points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.title.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.75points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.x.bottom NULL

\(axis.title.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] 90

$lineheight NULL

$margin [1] 0points 2.75points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.title.y.left NULL

\(axis.title.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle [1] -90

$lineheight NULL

$margin [1] 0points 0points 0points 2.75points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text\)family NULL

$face NULL

$colour [1] “grey30”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 2.2points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(axis.text.x.top\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust [1] 0

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 2.2points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.x.bottom NULL

\(axis.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 1

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.y.left NULL

\(axis.text.y.right\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.text.theta NULL

\(axis.text.r\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0.5

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 0points 2.2points 0points 2.2points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$axis.ticks list() attr(,“class”) [1] “element_blank” “element”

$axis.ticks.x NULL

$axis.ticks.x.top NULL

$axis.ticks.x.bottom NULL

$axis.ticks.y NULL

$axis.ticks.y.left NULL

$axis.ticks.y.right NULL

$axis.ticks.theta NULL

$axis.ticks.r NULL

$axis.minor.ticks.x.top NULL

$axis.minor.ticks.x.bottom NULL

$axis.minor.ticks.y.left NULL

$axis.minor.ticks.y.right NULL

$axis.minor.ticks.theta NULL

$axis.minor.ticks.r NULL

$axis.ticks.length [1] 2.75points

$axis.ticks.length.x NULL

$axis.ticks.length.x.top NULL

$axis.ticks.length.x.bottom NULL

$axis.ticks.length.y NULL

$axis.ticks.length.y.left NULL

$axis.ticks.length.y.right NULL

$axis.ticks.length.theta NULL

$axis.ticks.length.r NULL

$axis.minor.ticks.length [1] 0.75 *

$axis.minor.ticks.length.x NULL

$axis.minor.ticks.length.x.top NULL

$axis.minor.ticks.length.x.bottom NULL

$axis.minor.ticks.length.y NULL

$axis.minor.ticks.length.y.left NULL

$axis.minor.ticks.length.y.right NULL

$axis.minor.ticks.length.theta NULL

$axis.minor.ticks.length.r NULL

$axis.line list() attr(,“class”) [1] “element_blank” “element”

$axis.line.x NULL

$axis.line.x.top NULL

$axis.line.x.bottom NULL

$axis.line.y NULL

$axis.line.y.left NULL

$axis.line.y.right NULL

$axis.line.theta NULL

$axis.line.r NULL

$legend.background list() attr(,“class”) [1] “element_blank” “element”

$legend.margin [1] 5.5points 5.5points 5.5points 5.5points

$legend.spacing [1] 11points

$legend.spacing.x NULL

$legend.spacing.y NULL

$legend.key list() attr(,“class”) [1] “element_blank” “element”

$legend.key.size [1] 1.2lines

$legend.key.height NULL

$legend.key.width NULL

$legend.key.spacing [1] 5.5points

$legend.key.spacing.x NULL

$legend.key.spacing.y NULL

$legend.frame NULL

$legend.ticks NULL

$legend.ticks.length [1] 0.2 *

$legend.axis.line NULL

\(legend.text\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.text.position NULL

\(legend.title\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust NULL

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$legend.title.position NULL

$legend.position [1] “right”

$legend.position.inside NULL

$legend.direction NULL

$legend.byrow NULL

$legend.justification [1] “center”

$legend.justification.top NULL

$legend.justification.bottom NULL

$legend.justification.left NULL

$legend.justification.right NULL

$legend.justification.inside NULL

$legend.location NULL

$legend.box NULL

$legend.box.just NULL

$legend.box.margin [1] 0cm 0cm 0cm 0cm

$legend.box.background list() attr(,“class”) [1] “element_blank” “element”

$legend.box.spacing [1] 11points

$panel.background list() attr(,“class”) [1] “element_blank” “element”

$panel.border list() attr(,“class”) [1] “element_blank” “element”

$panel.spacing [1] 5.5points

$panel.spacing.x NULL

$panel.spacing.y NULL

\(panel.grid\)colour [1] “grey92”

$linewidth NULL

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major NULL

\(panel.grid.minor\)colour NULL

$linewidth [1] 0.5 *

$linetype NULL

$lineend NULL

$arrow [1] FALSE

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_line” “element”

$panel.grid.major.x NULL

$panel.grid.major.y NULL

$panel.grid.minor.x NULL

$panel.grid.minor.y NULL

$panel.ontop [1] FALSE

$plot.background list() attr(,“class”) [1] “element_blank” “element”

\(plot.title\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] FALSE

attr(,“class”) [1] “element_text” “element”

$plot.title.position [1] “panel”

\(plot.subtitle\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust [1] 0

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 0points 0points 5.5points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(plot.caption\)family NULL

$face NULL

$colour NULL

$size [1] 0.8 *

$hjust [1] 1

$vjust [1] 1

$angle NULL

$lineheight NULL

$margin [1] 5.5points 0points 0points 0points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.caption.position [1] “panel”

\(plot.tag\)family NULL

$face NULL

$colour NULL

$size [1] 1.2 *

$hjust [1] 0.5

$vjust [1] 0.5

$angle NULL

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$plot.tag.position [1] “topleft”

$plot.tag.location NULL

$plot.margin [1] 5.5points 5.5points 5.5points 5.5points

$strip.background list() attr(,“class”) [1] “element_blank” “element”

$strip.background.x NULL

$strip.background.y NULL

$strip.clip [1] “inherit”

$strip.placement [1] “inside”

\(strip.text\)family NULL

$face NULL

$colour [1] “grey10”

$size [1] 0.8 *

$hjust NULL

$vjust NULL

$angle NULL

$lineheight NULL

$margin [1] 4.4points 4.4points 4.4points 4.4points

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.x NULL

$strip.text.x.bottom NULL

$strip.text.x.top NULL

\(strip.text.y\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] -90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

\(strip.text.y.left\)family NULL

$face NULL

$colour NULL

$size NULL

$hjust NULL

$vjust NULL

$angle [1] 90

$lineheight NULL

$margin NULL

$debug NULL

$inherit.blank [1] TRUE

attr(,“class”) [1] “element_text” “element”

$strip.text.y.right NULL

$strip.switch.pad.grid [1] 2.75points

$strip.switch.pad.wrap [1] 2.75points

attr(,“class”) [1] “theme” “gg”
attr(,“complete”) [1] TRUE attr(,“validate”) [1] TRUE

$coordinates <ggproto object: Class CoordCartesian, Coord, gg> aspect: function backtransform_range: function clip: on default: FALSE distance: function draw_panel: function expand: FALSE is_free: function is_linear: function labels: function limits: list modify_scales: function range: function render_axis_h: function render_axis_v: function render_bg: function render_fg: function reverse: none setup_data: function setup_layout: function setup_panel_guides: function setup_panel_params: function setup_params: function train_panel_guides: function transform: function super: <ggproto object: Class CoordCartesian, Coord, gg>

$facet <ggproto object: Class FacetNull, Facet, gg> attach_axes: function attach_strips: function compute_layout: function draw_back: function draw_front: function draw_labels: function draw_panel_content: function draw_panels: function finish_data: function format_strip_labels: function init_gtable: function init_scales: function map_data: function params: list set_panel_size: function setup_data: function setup_panel_params: function setup_params: function shrink: TRUE train_scales: function vars: function super: <ggproto object: Class FacetNull, Facet, gg>

$plot_env <environment: 0x000001b8df6af348>

$layout <ggproto object: Class Layout, gg> coord: NULL coord_params: list facet: NULL facet_params: list finish_data: function get_scales: function layout: NULL map_position: function panel_params: NULL panel_scales_x: NULL panel_scales_y: NULL render: function render_labels: function reset_scales: function resolve_label: function setup: function setup_panel_guides: function setup_panel_params: function train_position: function super: <ggproto object: Class Layout, gg>

\(labels\)labels$title [1] “Posterior Predictive Check”

\(labels\)x NULL

\(labels\)y NULL

\(labels\)group [1] “rep_id”

\(labels\)colour [1] “colour”

\(labels\)fill [1] “fill” attr(,“fallback”) [1] TRUE

\(labels\)weight [1] “weight” attr(,“fallback”) [1] TRUE

attr(,“class”) [1] “gg” “ggplot”

### Convergence

Effect | Median | [95% HDI] | Direction Prob. | ROPE %
--- | --- | --- | --- | ---
Diet: Control vs CR25
Diet: Control vs CR25 | 0.16 | [-1.41, 2.00] | 57.55 | 13.15
Diet: Control vs CRA
Diet: Control vs CRA | -0.29 | [-2.00, 1.48] | 62.30 | 12.95
Diet: Control vs CRV
Diet: Control vs CRV | -0.54 | [-2.28, 1.04] | 74.35 | 12.05
Diet: CR25 vs CRA
Diet: CR25 vs CRA | -0.49 | [-2.80, 1.88] | 65.90 | 8.90
Diet: CR25 vs CRV
Diet: CR25 vs CRV | -0.71 | [-3.14, 1.47] | 73.70 | 8.70
Diet: CRA vs CRV
Diet: CRA vs CRV | -0.23 | [-2.47, 1.97] | 58.60 | 10.30

No continuous ROPE effects available.

# End of Document