We could think about splitting BAMs as DeDup/MarkDup takes quite some time normally and use a file.size>2GB (or similar operator) to speed up things significantly. A subsequent merge would be a matter of minutes, automatically creating the same output for downstream analysis as before.
We could think about splitting BAMs as DeDup/MarkDup takes quite some time normally and use a
file.size>2GB(or similar operator) to speed up things significantly. A subsequent merge would be a matter of minutes, automatically creating the same output for downstream analysis as before.