strandBinCounts: Perform stranded Bin counts

In vivekbhr/icetea: Integrating Cap Enrichment with Transcript Expression Analysis

Description

Perform stranded Bin counts

Usage

strandBinCounts(
  bam.files,
  restrictChrs,
  bam_param,
  bp_param,
  window_size,
  sliding = FALSE,
  func
)

Arguments

bam.files	character vector. BAM files to use
restrictChrs	character vector. chromosomes to use
bam_param	ScanBAMParams
bp_param	BPPARAM
window_size	integer. size of window to use
sliding	logical. perform sliding window counts?
func	function to preprocess reads

Value

RangedSE object with forward and reverse strand counts

vivekbhr/icetea documentation built on June 8, 2020, 4:45 a.m.