cooler: cooler

In mskilab/GxG: GxG: Genomic matrices and pairwise genomic features based on GenomicRanges and data.table

cooler

Description

Instantiates gMatrix from .cool and/or .mcool file, +/- at specific locations.

To find viable resolutions (e.g. for mcool files) use info = TRUE and you will get a list of info, including seqlengths.

Usage

cooler(
  file,
  gr = NULL,
  res = NULL,
  info = FALSE,
  field = NULL,
  nochr = FALSE,
  mc.cores = 1
)

Arguments

file	path to .cool or m.cool file
gr	optional GRanges of intervals to query
res	optional resolution to pull
info	logical flag (FALSE) specifying whether to return a vector of file info instead of pulling down data, this will include available resolutions (for .mcool format) and fields

Value

gMatrix or list

Author(s)

Marcin Imielinski

mskilab/GxG documentation built on April 12, 2025, 5:32 p.m.