get_diff_ASE_count_barplot: Generate a barplot of diff ASE counts.

In cparsania/parcutils: Utility Functions To Deal Day To Day Bioinformatics Tasks.

Generate a barplot of diff ASE counts.

Description

Generate a barplot of diff ASE counts.

Usage

get_diff_ASE_count_barplot(
  x,
  col_up = "#a40000",
  col_down = "#16317d",
  font_size = 12,
  event_type = NULL,
  sample_comparisons = NULL,
  show_counts = TRUE,
  ...
)

Arguments

x	an object of class parcutils_ase.
col_up	a character string, default ⁠#a40000⁠, denoting valid a color name for "Up" regulated genes.
col_down	a character string, default ⁠#16317d⁠, denoting valid a color name "Down" regulated genes.
font_size	a numeric, default 12, denoting font size in the plot.
event_type	a character vector or a string denoting type of events to plot. Default NULL, includes all.
sample_comparisons	a character vector or a string denoting sample comparisons to plot. Default NULL, includes all.
show_counts	a logical, default TRUE, denoting whether to show counts on each bar.
...	Other arguments pass to the function ggplot2::facet_grid()

Value

a bar plot.

Examples

se <- SpliceWiz::SpliceWiz_example_NxtSE(novelSplicing = TRUE)
SpliceWiz::colData(se)$treatment <- rep(c("A", "B"), each = 3)
res <- run_ase_diff_analysis(x = se, test_factor = "treatment", test_nom = "A" ,test_denom = "B",  IRmode ="annotated",  cutoff_lfc = 0.6, cutoff_padj = 1, regul_based_upon = 2)
SpliceWiz::colData(se)$replicate <- rep(c("P","Q","R"), 2)
get_diff_ASE_count_barplot(res, event_type = c("IR") )

cparsania/parcutils documentation built on Oct. 27, 2024, 4:55 a.m.