gpatterns.merge_tracks: Merge tracks

In tanaylab/gpatterns: Single Molecule Methylation Patterns Analysis Suite

Merge tracks

Description

Creates a track called new_track that is the sum of the methylation calls in tracks. In addition, if merge_tidy_cpgs is TRUE, creates a union of tidy_cpgs of tracks and generates pattern frequency and pattern coverage for the combined tidy_cpgs. If patterns attributes are present, they will be combined and calculated for the new track.

Usage

gpatterns.merge_tracks(
  tracks,
  new_track,
  description,
  intervals = gintervals.all(),
  iterator = NULL,
  add_var = FALSE,
  merge_tidy_cpgs = TRUE,
  ...
)

Arguments

tracks	tracks to merge
new_track	new track name
description	new track description
intervals	intervals scope. default is all the genome (gintrevals.all())
iterator	new track iterator. if left NULL, the iterator would be the union of all the covered CpGs of tracks
add_var	calculate variance (of tracks '.avg'). Will be created in new_track.var
merge_tidy_cpgs	merge also tidy cpgs and create pattern frequency and pattern coverage track. Does not work for tracks without the single molecule data (e.g. arrays, processed data)
...	additional parameters for gpatterns.import_from_tidy_cpgs

Value

name of the new_track

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