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

In this matrix only contains the total counts in each TAD and its total contacts of all other TADs.

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

Named Arguments

–matrix, -m Path to Hi-C matrix to use
–domains Path to a bed file containing the domains.
–outFile, -o Name for the resulting matrix file.