pairtools phase works by removing the suffixes from chromosome names in the pairs and adding new columns for phases. However typically this would make the names of chromosomes in the body of the file different than those in the header, which still contain the suffixes. I think that doesn't make sense, should we also rename them in the header?
pairtools phaseworks by removing the suffixes from chromosome names in the pairs and adding new columns for phases. However typically this would make the names of chromosomes in the body of the file different than those in the header, which still contain the suffixes. I think that doesn't make sense, should we also rename them in the header?