Samples argument for vcf2bam
jcoliver opened this issue · 3 comments
jcoliver commented
@ajo2995 Could we get more info on the --samples argument in scripts/gg-wrapper-bam2vcf.pl? It sounds like a flat text file with assembly names? Is that right? Is there an example available?
jcoliver commented
Is it list_of_assemblies.txt ? This file seems to be working!
ajo2995 commented
yes, but I'm sure you've tried that by now...
ajo2995 commented
It might be a good idea to increase the window size to 1000000 so the vcf-concat command line doesn't exceed some limit (there will be thousands otherwise)