import_count_input_files: Import and count input files depending on their format

In vallotlab/ChromSCape: Analysis of single-cell epigenomics datasets with a Shiny App

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

vallotlab/ChromSCape documentation built on Oct. 15, 2023, 1:47 p.m.