guides2genes: CRISPR Screen Scoring

In christensensm/COMPOSE: Calculation and Visualization of Phenotypic CRISPR Screens

Description

Creates array containing log2 fold-change input, CRISPR scores, and CRISPR screen scores (similar to z-scores)

Usage

guides2genes(
  L2FC,
  neg.controls,
  essential.genes,
  save.plots = FALSE,
  print.plots = TRUE,
  save.tables = FALSE,
  split = "_"
)

Arguments

L2FC	input matrix containing log2 fold-change data with gRNA ids as row names
neg.controls	input vector containing gRNA ids for negative controls
essential.genes	input vector containing gRNA ids for essential genes
save.plots	save the plots to pdf (logical, default = FALSE)
print.plots	print the plots (logical, default = TRUE)
save.tables	save the CS and CSS tables (logical, default = FALSE)
split	defines the regex used to split the guide RNA id to extract the gene name

Value

array containing additional object of a gene score table

See Also

L2FC.violin, ggplot2, ggbiplot

Examples

test.array <- create.CSS(L2FC.filtered, neg.controls = neg.controls,
essential.genes = essential.genes)
...

christensensm/COMPOSE documentation built on Dec. 22, 2020, 3:43 a.m.