SnpSift: Annotate vcf file using GNOMAD

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Hi,

I am trying to annotate my vcf file (my.vcf.gz) with gnomad using SnpEff/SnpSift. I downloaded gnomad (3.1.1) as given in the instructions GNOMAD download

I now want to annotate my vcf.gz file, containing variants from all chromosomes, with this data. The SnpSift example page SnpSift gives the example:

java -jar SnpSift.jar annotate dbSnp132.vcf variants.vcf > variants_annotated.vcf

However, the vcf file downloaded from gnomad is not a single file, but one file for each chromosome. For example:

gnomad.genomes.v3.1.1.sites.chr10.vcf.bgz.tbi gnomad.genomes.v3.1.1.sites.chr19.vcf.bgz.tbi gnomad.genomes.v3.1.1.sites.chr5.vcf.bgz.tbi

What command do I need so that it uses all the vcfs in the downloaded gnomad directory?

Thanks for your help!


GNOMAD


SnpEff


SnpSift

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