We previously used hal2maf with the --refTargets flag to extract genomic intervals (bed format) as maf alignments from a hal alignment. However, we suspect this may not have worked well.
Can we do the same thing with cactus-hal2maf? If not, could you add that feature please?
We previously used hal2maf with the --refTargets flag to extract genomic intervals (bed format) as maf alignments from a hal alignment. However, we suspect this may not have worked well.
Can we do the same thing with cactus-hal2maf? If not, could you add that feature please?