modulescore: Calculate a sample-wise module score given a list of genes

In FerrenaAlexander/FerrenaBulkRNAseq: Pipeline for analysis of bulkRNAseq data

Calculate a sample-wise module score given a list of genes

Description

this is inspired by Tirosh et al, Science (2016) and the AddModuleScore function in Seurat

Usage

modulescore(gem, genelist, numbins = NULL, numcontrolgenesperbin = NULL)

Arguments

gem	matrix, a gene expresssion matrix with rows=genes and columns=samples
genelist	character vector, genes for which to calculate module score
numbins	integer, how many bins to split the input genelist into, for selection of control genes
numcontrolgenesperbin	integer, how many control genes to select per bin

Value

a vector of numerics, sample-wise module scores

FerrenaAlexander/FerrenaBulkRNAseq documentation built on Oct. 16, 2022, 8:18 a.m.