Test-drive the GATK tools and Best Practices pipelines on Terra


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Resoource for the VQSR

sstwins21sstwins21 New ZealandMember

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?
Thank you.

Shane

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