addPeakSet: Add a peak set to an ArchRProject

In GreenleafLab/ArchR: Analyzing single-cell regulatory chromatin in R.

Add a peak set to an ArchRProject

Description

This function adds a peak set as a GRanges object to a given ArchRProject.

Usage

addPeakSet(
  ArchRProj = NULL,
  peakSet = NULL,
  genomeAnnotation = getGenomeAnnotation(ArchRProj),
  force = FALSE
)

Arguments

ArchRProj	An ArchRProject object.
peakSet	A GRanges object containing the set of regions that define all peaks in the desired peak set.
genomeAnnotation	The genomeAnnotation (see createGenomeAnnotation()) to be used for generating peak metadata such as nucleotide information (GC content) or chromosome sizes.
force	If a peakSet object has already been added to the given ArchRProject, the value of force determines whether or not to overwrite this peakSet.

Examples

# Get Test ArchR Project
proj <- getTestProject()

# Add PeakSet
addPeakSet(proj, peakSet = getPeakSet(proj), force = TRUE)

GreenleafLab/ArchR documentation built on Feb. 21, 2025, 3:05 p.m.