getModuleGenes: Get list of module genes

In NMikolajewicz/scMiko: scRNAseq analysis functions. Developed using Seurat framework.

Get list of module genes

Description

Map module membership to gene list and return module gene list.

Usage

getModuleGenes(module.colors, genes, add.prefix = T)

Arguments

module.colors	Vector of module membership (usually colors). Must be same length as gene list.
genes	Vector of genes.
add.prefix	Logical specifying whether to add "M#." prefix to each module name.

Value

Named list, where names are module names and entries are module genes.

Author(s)

Nicholas Mikolajewicz

Examples

module.list.1 <- getModuleGenes(modules.1, SubGeneNames, add.prefix = F)
module.list.2 <- getModuleGenes(modules.2_new, SubGeneNames, add.prefix = F)

# get genes that are common to both network modules
module.union.list <- list()
common.modules <- intersect(modules.1, modules.2_new)
for (i in 1:length(common.modules)){
  common.genes <- intersect(module.list.1[[common.modules[i]]], module.list.2[[common.modules[i]]])
  module.union.list[[common.modules[i]]] <- common.genes
}

NMikolajewicz/scMiko documentation built on June 28, 2023, 1:41 p.m.