gpatterns.screen_by_coverage: screen intervals by coverage in multiple tracks

In tanaylab/gpatterns: Single Molecule Methylation Patterns Analysis Suite

screen intervals by coverage in multiple tracks

Description

screen intervals by coverage in multiple tracks

Usage

gpatterns.screen_by_coverage(
  tracks,
  intervals,
  iterator,
  min_cov,
  min_samples = NULL,
  intervals.set.out = NULL,
  sum_tracks = FALSE
)

Arguments

tracks	methylation tracks
intervals	genomic scope for which the function is applied
iterator	see iterator in gextract. if NULL iterator would be set to CpGs
min_cov	minimal coverage for iterator interval
min_samples	minimal number of samples with cov >= min_cov. if min_cov is NULL it would be set to 1.
intervals.set.out	intervals.set.out
sum_tracks	sum the coverage from all tracks (min_samples parameter is ignored)

tanaylab/gpatterns documentation built on May 15, 2023, 6:23 p.m.