#67 variant calling using samtools mpileup

[Malena Serrano]

I am using samtools mpileup and bcf tools to make a variant calling in RNAseq data. In the vcf file I can see genotypes 1/1 1/0 2/0 2/2 ....etc but the homozygous for the reference allele does not appear (0/0).
Someone can help me with this topic?