Closed sotaro-kanematsu closed 3 years ago
Hi- The genome version in the vcf header is taken from the command line argument --gbuild/-g
where the default is hg38. If you are working with hg19, you should use cnv_facets.R --gbuild hg19 ...
Does it make sense? If not can you post the command line you used and perhaps the header of the VCF output?
Hi I would like to ask the genome version of output vcf file via cnv_facets.R (maybe named *.vcf). I used snp vcf file named common_all_20170710.vcf.gz (hg19) as input, however, when I check the output vcf file, the reference version was hg38. Does cnv_facets convert genome version automatically? or I do wrong something ?