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.
Resoource for the VQSR
Hi, I am following through the best practice pipeline and I am confused of which files I should use as the resource to run VQSR.
I have downloaded 4 files and I just want to make sure which file is which database.
1000G_omni2.5.b37.vcf.gz = omni,vcf
1000G_phase1.snps.high_confidence.b37.vcf.gz = 1000G.vcf
dbsnp_138.b37.vcf.gz = snp.vcf
hapmap_3.3.b37.vcf.gz = hapmap.vcf
I am planning to unzipped them and run VQSR. Did I download the correct files? If not, could you tell me which files I need to use?