I want to extract the SNPs that have fourfold degenerate codons in a VCF file annotated by SNPEff. does anyone have an idea? I am new in VCF files.
Please only use "Forum" type posts for open-ended discussion. I've edited your question to a question type post, but please bear it in mind for the future.
Hello and welcome to biostars crippa.to ,
could you please show some example lines of your vcf and what do you expect in your output?