There are few differences from the CWL one and the NexFlow workflow because of how Galaxy handles things, e.g. the BAM files are sorted and indexed by samtools not sambamba.
There is a README that should explain how to make it work and few bits about the implementation.
If you have any suggestion on how to improve it let me know.
There are few differences from the CWL one and the NexFlow workflow because of how Galaxy handles things, e.g. the BAM files are sorted and indexed by samtools not sambamba.
There is a README that should explain how to make it work and few bits about the implementation.
If you have any suggestion on how to improve it let me know.