ess: Get a list of essential genes or corresponding indices in the...

In tgac-vumc/CSSA: Analysis and Simulation Tools for CRISPR-Cas9 Pooled Screens

Get a list of essential genes or corresponding indices in the data set

Description

ess couples reported essential genes to a data set. Without arguments, it returns the list of essential genes. Otherwise, it returns the indices corresponding to essential genes.

Usage

ess(guides, genes, trnc = "_.*")

Arguments

guides	Character vector. List of guide names. Names of essential genes are matched to the string before what is specified in the trnc argument.
genes	Character vector. List of gene names. Names of essential genes are matched to the given gene names. Matches must be exact.
trnc	Character. Regular expression pattern to isolate gene name from the guide name. Default = "_.*"

Value

Returns a character vector with names of essential genes, or a numeric vector with indices representing essential genes in the given data set.

Note

The list of essential genes was retrieved from http://hart-lab.org/downloads.

Author(s)

Jos B. Poell

See Also

noness

tgac-vumc/CSSA documentation built on Oct. 10, 2022, 7:27 p.m.