scgenome.pp.read_bam_bin_counts

scgenome.pp.read_bam_bin_counts(bins, bams, excluded=None, **kwargs)

Count reads in bins from bams

Parameters:

• bins (pyranges.PyRanges) – bins in which to count reads

• bams (Dict[str]) – bam filenames with cell ids as keys

• excluded (PyRanges) – excluded genomic regions to filter reads

Returns:

binned read counts

Return type:

ad.AnnData