Merges DNase or ATAC-seq counts from multiple replicates, then normalizes merged counts.

Source: R/process_dnase_atac_data.R

Merges DNase or ATAC-seq read counts from multiple replicate samples, and normalizes the read counts by scaling to the reference library size.

merge_normalize_counts(counts_files, idxstats_files, ref_size = 1e+08)

Arguments

counts_files

DNase or ATAC-seq read counts matrix files.

idxstats_files

The idxstats files generated by samtools.

ref_size

Scales to reference library size. (Default: 1e8 for DNase-seq and 5e7 for ATAC-seq).

Value

A matrix of merged and normalized counts.