Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
How can I get a common variant of three samples from multi-sample VCF after joint genotyping?
Hi. I’m studying about sequencing data analysis followed GATK Best practices for Germline SNP & Indel Discovery. Through the series of analysis, finally I get multi-sample VCF file from joint genotyping. After this, I want to get common variants from only three sample. I’ve conducted “Select variant” and using “—sample_name” argument and i get has three sample from vcf file. but this VCF file has not three sample variants, it contains all variant from multi-sample. so I want ask you any methods to get the common variants of three samples from multi-sample. Thank you