tabixRetrieve: Read from tabix-indexed bed file to list objects

In trichelab/biscuitEater: Convenience Functions for Biscuit

Read from tabix-indexed bed file to list objects

Description

Read from tabix-indexed bed file to list objects

Usage

tabixRetrieve(
  paths,
  chr,
  start = 1,
  end = 2^28,
  sample_names = NULL,
  is.epibed = FALSE,
  BPPARAM = SerialParam()
)

Arguments

paths	path(s) to the bed files
chr	chromosome name
start	start coordinate of region of interest
end	end coordinate of region of interest
sample_names	sample names, just use paths if not specified
is.epibed	whether the input is epibed format
BPPARAM	how to parallelize

Value

a list object with DNA methylation level and depth

trichelab/biscuitEater documentation built on March 2, 2024, 6:57 p.m.