import_count_input_files {ChromSCape} | R Documentation |
Import and count input files depending on their format
import_count_input_files( files_dir, file_type, which, ref, peak_file_2, barcode_file, index_file, verbose )
files_dir |
Path to the input files |
file_type |
Input file type |
which |
A GRanges object of features |
ref |
Reference genome |
peak_file_2 |
A bed file for peak annotation |
barcode_file |
A file containing barcode names |
index_file |
A file containing indexes of non zero entries |
verbose |
Print ? |
A list with a GRanges object of feature types (which), the feature indexes data.frame containing non-zeroes entries in the count matrix and the cell names