I was wondering if the NGS: VCF manipulation: VCFfilter function is actually working. I am trying to filter my VCF file for instances that have an Annotation_Impact = HIGH. (Selected filter type: Info filter (-f).
However this returns only 51 header lines, with no results.
In order to see if the filter function is working or if I am typing something wrong, I also tried: DP > 10, DP >100 and DP >1000 these filter only partially. DP>10 and DP>100 give me about the same results, with still DP< 10 or <100 included, whereas DP >1000 gives me over 2900 results, although I am almost sure there is nothing with this sequencing depth in my VCF file. Am I doing something wrong, or is the filter function not functioning? Thanks for your help