getTssEnrichmentBatch-DsATAC-method: getTssEnrichmentBatch-methods

In GreenleafLab/ChrAccR: Analyzing chromatin accessibility data in R

getTssEnrichmentBatch-methods

Description

Get TSS enrichment data and plot

Usage

## S4 method for signature 'DsATAC'
getTssEnrichmentBatch(
  .object,
  tssGr = NULL,
  sampleIds = getSamples(.object),
  tssW = 201L,
  flank = 2000L,
  normTailW = 200L,
  smoothW = 51L
)

Arguments

.object	DsATAC object
tssGr	GRanges object containing TSS coordinates or NULL to get default set from annotation package
sampleIds	sampleIds for which TSS enrichment should be computed
tssW	size of the core TSS window
flank	number of bases flanking each TSS that will be added on each side
normTailW	number of bases on each side whose counts will be used to normalize the data
smoothW	diameter of the window (in bp) that will be used to smooth the data

Value

a list containing TSS enrichment data

Author(s)

Fabian Mueller

GreenleafLab/ChrAccR documentation built on March 22, 2023, 11:42 p.m.