Has anyone tried using the --outputRealignedBAM option in Dindel?
I would like to try using the realigned BAM files Dindel outputs in SAMtools for SNV calling but I can't work out where to use this option. If someone has done this, any (very new-user-friendly) tips on how to do this and also how to put all the Dindel BAM files back together for use in SAMtools would be greatly appreciated!
lmf.
I would like to try using the realigned BAM files Dindel outputs in SAMtools for SNV calling but I can't work out where to use this option. If someone has done this, any (very new-user-friendly) tips on how to do this and also how to put all the Dindel BAM files back together for use in SAMtools would be greatly appreciated!
lmf.
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