I would like to propose a new option for goleft indexsplit (and would have implemented it myself if my Go was any good): --exclude to be able to exclude chromosomes. A typical use case would be unplaced contigs, decoys etc. They are part of the BAM header, but usually you don't want to call variants on them. Sure, I can always remove them after running indexsplit, but then I cannot control the number of splits N properly.
Hi Brent,
I would like to propose a new option for
goleft indexsplit
(and would have implemented it myself if my Go was any good):--exclude
to be able to exclude chromosomes. A typical use case would be unplaced contigs, decoys etc. They are part of the BAM header, but usually you don't want to call variants on them. Sure, I can always remove them after runningindexsplit
, but then I cannot control the number of splitsN
properly.Thanks, Andreas
PS: Thanks for Goleft!