warning_raw_counts_to_feature_count_files: Warning for _raw_counts_to_feature_count_files

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

Description

Warning for _raw_counts_to_feature_count_files

Usage

warning_raw_counts_to_feature_count_files(
  files_dir,
  file_type = c("BAM", "BED", "Index_Peak_Barcode"),
  peak_file = NULL,
  n_bins = NULL,
  bin_width = NULL,
  geneTSS = NULL,
  aroundTSS = 2500,
  verbose = TRUE,
  ref = "hg38"
)

Arguments

files_dir	The directory containing the files
file_type	Input file(s) type(s) ('BAM')
peak_file	A file containing genomic location of peaks (NULL)
n_bins	The number of bins to tile the genome (NULL)
bin_width	The size of bins to tile the genome (NULL)
geneTSS	Use geneTSS regions for annotation ? (NULL)
aroundTSS	Space up and downstream of TSS to use (2500)
verbose	Verbose (TRUE)
ref	reference genome to use (hg38)

Value

Error or warnings if the input are not correct

ChromSCape documentation built on Nov. 8, 2020, 6:57 p.m.