I am new to bioinformatics and Galaxy so may have a naive question.
I have generated a multi-sample VCF and would like to remove the sites where I am missing data from any of the samples, so I can only compare variants where I have data for all individuals.
This should be possible with vcftools and –max-missing-count
However, I can’t figure out which exact tool I should be using on usegalaxy.org. This doesn’t seem to work for me with VCF filter or VCFtools annotate.
Could anyone please point me in the right direction to the tool I should use?