hi all
hope someone can help. The .vcf file generated after SNP calling contains variants with genotypes of 0/1 or 1/0 or 1/1.
does this mean that variants not detected in the vcf are homozygous wildtype.
is there a way to extract all such variants from the bam file an generate a file that has the QC score?
thanks in advance.
ashwin
hope someone can help. The .vcf file generated after SNP calling contains variants with genotypes of 0/1 or 1/0 or 1/1.
does this mean that variants not detected in the vcf are homozygous wildtype.
is there a way to extract all such variants from the bam file an generate a file that has the QC score?
thanks in advance.
ashwin