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Hi , I try to run the new version of CaVEMan on hg38 reference genome.
##vcfProcessLog=<InputVCF=<.>,InputVCFSource=,InpuVCFVer=<"1.15.1">,InputVCFParam=<NORMAL_CONTAMINATION=0.1,REF_BIAS=0.95,PRIOR_MUT_RATE=6e-06,PRIOR_SNP_RATE=0.0001,SNP_CUTOFF=0.95,MUT_CUTOFF=0.8>>
##cavemanVersion=1.15.1
When I ran CaVEMan, I obtained a VCF with a lot of SNV but all SNV had a "." filter column. There wasn't any error during the run. I ran CaVEMan has explained in the github.
Any ideas what I might be missing in order to get the PASS filter?
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