import_count_input_files {ChromSCape}R Documentation

Import and count input files depending on their format

Description

Import and count input files depending on their format

Usage

import_count_input_files(
  files_dir_list,
  file_type,
  which,
  ref,
  verbose,
  progress,
  BPPARAM = BiocParallel::bpparam()
)

Arguments

files_dir_list

A named list of directories containing the input files.

file_type

Input file type.

which

A GRanges object of features.

ref

Reference genome.

verbose

Print ?

progress

A progress object for Shiny.

BPPARAM

BPPARAM object for multiprocessing. See bpparam for more informations. Will take the default BPPARAM set in your R session.

Value

A list with the feature indexes data.frame containing non-zeroes entries in the count matrix and the cell names


[Package ChromSCape version 1.4.0 Index]