gpatterns.get_fragment_cov: Get fragment coverage

In tanaylab/gpatterns: Single Molecule Methylation Patterns Analysis Suite

Get fragment coverage

Description

get number of molecules per each fragment for a track. This can give us some upper bound of the number of methylation patterns per fragment.

Usage

gpatterns.get_fragment_cov(
  track,
  intervals = NULL,
  save_track = FALSE,
  parallel = getOption("gpatterns.parallel"),
  ...
)

Arguments

track	track
intervals	fragment intervals. if NULL - fragments would be based chrom,start,end positions of tidy_cpgs, assuming gpatterns.adjust_read_pos was called before (as in any run of gpatterns.import_* with frag_intervs parameter).
parallel	parallel
...	other parameters of gpatterns.adjust_read_pos

Value

data frame with fragmets coordinates (chrom,start,end) and 'frag_cov' field with the fragment coverage

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