I thought the tag ADb was removed from the generated VCF file, before I use the latest version of CRISP and view the content of REMADE. However, there still exists tag ADb in the format column of the VCF. I would like to know what's the difference between ADb and ADf and ADr, and whether summing all of the ADf, ADr and ADb or just summing of the ADf and ADr, when I count the ref alleles or alt alleles for a site per pool. In addition, are the number of reads in tag AD(f,r,b) filterd, such as the mapping quality < 20(default) will be discard?
I thought the tag ADb was removed from the generated VCF file, before I use the latest version of CRISP and view the content of REMADE. However, there still exists tag ADb in the format column of the VCF. I would like to know what's the difference between ADb and ADf and ADr, and whether summing all of the ADf, ADr and ADb or just summing of the ADf and ADr, when I count the ref alleles or alt alleles for a site per pool. In addition, are the number of reads in tag AD(f,r,b) filterd, such as the mapping quality < 20(default) will be discard?