OmitCommonEssential: Omit common essential genes based on depmap data

In MAGeCKFlute: Integrative Analysis Pipeline for Pooled CRISPR Functional Genetic Screens

Description

Omit common essential genes based on depmap data

Usage

OmitCommonEssential(dd, symbol = "id", lineages = "All", dependency = -0.5)

Arguments

dd	A data frame.
symbol	A character, specifying the column name of gene symbols in the data frame.
lineages	A character vector, specifying the lineages used for common essential gene selection.
dependency	A numeric, specifying the threshold for common essential gene selection.

Value

A data frame.

Author(s)

Wubing Zhang

Examples

file1 = file.path(system.file("extdata", package = "MAGeCKFlute"),
"testdata/rra.gene_summary.txt")
gdata = ReadRRA(file1)
dim(gdata)
## Not run: 
  rra.omit = OmitCommonEssential(gdata)
  dim(rra.omit)

## End(Not run)

MAGeCKFlute documentation built on Nov. 8, 2020, 5:40 p.m.