Bug Bulletin: we have identified a bug that affects indexing when producing gzipped VCFs. This will be fixed in the upcoming 3.2 release; in the meantime you need to reindex gzipped VCFs using Tabix.

About the GATK resource bundle

HyunminHyunmin Posts: 11Member
edited January 17 in Ask the team

Dear GATK team,

When I annotate the dbsnp id to my vcf, I used the dbsnp 137 vcf file in resource bundle. but, it has some entry in original dbsnp137. This mean it has different entry in dbsnp137 (from UCSC). One example is dbsnp id in MT chromosome. so, I can't get fully annotated dbsnp, when I using the dbsnp 137 in gatk resource bundle.

Post edited by Hyunmin on

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