warning_raw_counts_to_feature_count_files {ChromSCape}R Documentation

Warning for _raw_counts_to_feature_count_files

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


[Package ChromSCape version 1.0.0 Index]