getTagMatrix.binning.internal: getTagMatrix.binning.internal

In YuLab-SMU/ChIPseeker: ChIPseeker for ChIP peak Annotation, Comparison, and Visualization

getTagMatrix.binning.internal

Description

calculate the tagMatrix by binning the idea was derived from the function of deeptools https://deeptools.readthedocs.io/en/develop/content/tools/computeMatrix.html

Usage

getTagMatrix.binning.internal(
  peak,
  weightCol = NULL,
  windows,
  nbin = 800,
  upstream = NULL,
  downstream = NULL,
  ignore_strand = FALSE
)

Arguments

peak	peak peak file or GRanges object
weightCol	weightCol column name of weight, default is NULL
windows	windows a collection of region with equal or not equal size, eg. promoter region, gene region.
nbin	the amount of nbines needed to be splited and it should not be more than min_body_length
upstream	rel object, NULL or actual number
downstream	rel object, NULL or actual number
ignore_strand	ignore the strand information or not

Value

tagMatrix

YuLab-SMU/ChIPseeker documentation built on Feb. 11, 2024, 5:22 p.m.