Uses a BED file of domains or TAD boundaries to merge the bin counts of a Hi-C matrix per TAD.

The output matrix contains the total counts per TAD and the total contacts with all other TADs.

usage: hicMergeTADbins [-h] --matrix MATRIX --domains DOMAINS --outFile
                       OUTFILE [--version]

Named Arguments

--matrix, -m

Path to Hi-C matrix to use.


Path to a bed file containing the domains.

--outFile, -o

Name for the resulting matrix file.


show program’s version number and exit