plot_reads_qc: Plot read counts for a screen.

In HenryWard/orthrus: Scoring Combinatorial CRISPR Screens

Plot read counts for a screen.

Description

Plots a histogram of read counts for each replicate of all screens. Also plots total reads for all screens.

Usage

plot_reads_qc(
  df,
  screens,
  output_folder,
  log_scale = TRUE,
  pseudocount = 1,
  display_numbers = TRUE,
  plot_type = "png"
)

Arguments

df	Reads dataframe.
screens	List of screens created with add_screens.
output_folder	Folder to output plots to.
log_scale	If true, log-normalizes data.
pseudocount	Pseudocounts to add to log-normalized data if specified (default 1).
display_numbers	Whether or not to include PCC values in heatmap (default TRUE).
plot_type	Type of plot to output, one of "png" or "pdf" (default "png").

HenryWard/orthrus documentation built on June 2, 2023, 10:28 p.m.