mapArchRToGenes: Map ArchR peaks to genes

In PFPrzytycki/CellWalkR: An R Package for Integrating and Visualizing Single-Cell and Bulk Data to Resolve Regulatory Elements

Map ArchR peaks to genes

Description

mapArchRToGenes Generates a mapping from genes to peaks per label

Usage

mapArchRToGenes(labelGenes, ArchRproj, whichMat = "TileMatrix", regions)

Arguments

labelGenes	data.frame with genes of interest in first column and corresponding labels in second column
ArchRproj	an ArchR project
whichMat	string determing whether to use "TileMatrix" or "GeneScoreMatrix" from ArchR project
regions	GRanges object of genomic regions associated with genes (only needed for "TileMatrix")

Value

list of genes and corresponding peaks by label

PFPrzytycki/CellWalkR documentation built on Oct. 26, 2023, 1:50 p.m.