Normalizes DNase or ATAC-seq read counts by library sizes. It first obtains the total mapped reads from the current sample, and then scales the read counts for the current data to a reference library size.
normalize_counts(counts, idxstats_file, ref_size = 1e+08)DNase or ATAC-seq read counts matrix
The idxstats file generated by samtools.
Normalize to reference library size. (Default: 1e8 for DNase-seq and 5e7 for ATAC-seq).
A matrix of normalize read counts.