plot_rel: Plotting Relative Data Of Normalized Rootdetection Data Set

In PhilippJanitza/rootdetectR: Statistical analysis of rootdetection output with R

Plotting Relative Data Of Normalized Rootdetection Data Set

Description

Relative data is plotted as boxplot or box-jitter-plot combination. If Significances should be illustrated multiple plots are generated. Each Factor2 control Factor2 treatment combination will produce a plot.

Usage

plot_rel(
  root_norm,
  label_delim = ";",
  control = 20,
  type = "jitter",
  size_jitter_dot = 2,
  plot_colours,
  plot_title,
  size_plot_title = 14,
  y_label = "hypocotyl growth [%]",
  x_label = "",
  legend_label = "Label",
  size_legend_title = 12,
  size_legend_text = 10,
  width_lines = 0.5,
  width_axis = 0.5,
  size_x_axes = 9,
  size_y_axes = 9,
  plot_significance = F,
  height_letter = 10,
  size_letter = 5,
  angle_letter = 0
)

Arguments

root_norm	data.frame; LengthMM normalized output from Rootdetection containing NO 10mm values
label_delim	character; define how Factor1 and Factor2 are seperated in Label
control	string; name of the Factor2 control condition
type	string; "box" = will produce Boxplot, 'jitter' = will produce combination of box and jitter plot, 'violin' = will produce violin plot
size_jitter_dot	number; defines the size of the dots in jitter plots
plot_colours	vector; provide colours for the boxplot - colour vector must have the same length than Factor1
plot_title	string; defines the plot title
size_plot_title	numeric; defines size of the plot title
y_label	string; axes description of y-axes
x_label	string; axes description of x-axes
legend_label	string; title of legend
size_legend_title	numeric; defines size of legend title
size_legend_text	numeric; defines size of legend text
width_lines	numeric; defines the line width of boxes or violins
width_axis	numeric; defines the line width of the axis
size_x_axes	numeric; defines size of x-axes labels
size_y_axes	numeric; defines size of y-axes labels
plot_significance	logical; if TRUE significances will be drawn as letters
height_letter	numeric; defines the position of the significance letters
size_letter	numeric; defines size of the significance letters
angle_letter	numeric, defines angle of significance letters

Value

plot or list of plots; box or box-jitter-plot of relative data, if significance = T and multiple Factor2 treatments a list of boxplots will be generated

Examples

# Plot without significance

root_test_norm <- norm_10mm_standard(root_output)
# boxplot
plot_rel(root_test_norm, plot_significance = FALSE, control = "20", type = "box")
# jitterplot
plot_rel(root_test_norm, plot_significance = FALSE, control = "20", type = "jitter")

# Plot with siginficance letters

root_test_norm <- norm_10mm_standard(root_output)
# boxplot with statistics
plot_rel(root_test_norm, plot_significance = TRUE, control = "20", type = "box")

# all customizable plotting parameters have a default value
plot_rel(root_test_norm,
  label_delim = ";",
  control = 20,
  type = "jitter",
  plot_colours = c("blue", "red", "orange", "green"),
  y_label = "% growth",
  x_label = "",
  legend_label = "Label",
  size_legend_title = 12,
  size_legend_text = 10,
  size_x_axes = 9,
  size_y_axes = 9,
  plot_significance = TRUE,
  height_letter = 10,
  size_letter = 5,
  angle_letter = 0
)

PhilippJanitza/rootdetectR documentation built on Feb. 24, 2024, 6:46 a.m.