prepareCNMat: Prepare integer valued copy number matrix

In cbg-ethz/slidr: Discovery of mutation-specific synthetic lethal partners from large pan-cancer perturbation screens

Prepare integer valued copy number matrix

Description

The function takes in log2 ratios of copy number as obtained from CCLE, cell lines of interest and top drivers and returns an integer valued copy number matrix

Usage

prepareCNMat(CN_df, samples, driver_genes, x)

Arguments

CN_df	log2 transformed copy number matrix
samples	vector of cell lines of interest
driver_genes	vector of driver or mutated genes of interest
x	primary site. If 'NULL' then ensure that the 'samples' passed match the colnames of data

Value

Integer valued copy number matrix for selected cell lines and drivers

cbg-ethz/slidr documentation built on Feb. 8, 2023, 11:15 p.m.