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Nvidia Clara Parabricks dbsnp

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Description
Annotate variants based on a variant database.
Publisher
Nvidia
Latest Tag
4.0.0-1
Modified
March 1, 2024
Compressed Size
89.13 MB
Multinode Support
No
Multi-Arch Support
No
4.0.0-1 (Latest) Security Scan Results

Linux / amd64

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This tool annotates the variant calls within a VCF file using the dbSNP database. The dbSNP database is a public archive of genetic variant information, consisting of known variants and data on whether each of these are considered to be neutral polymorphisms, polymorphisms with associated phenotypes, or regions of no variation.

For further information visit the dbsnp help page.

Quick Start

# This command assumes all the inputs are in <INPUT_DIR> and all the outputs go to <OUTPUT_DIR>.
$ docker run --rm --gpus all --volume <INPUT_DIR>:/workdir --volume <OUTPUT_DIR>:/outputdir
    -w /workdir \
    nvcr.io/nvidia/clara/clara-parabricks:<VERSION-TAG> \
    pbrun dbsnp \
    --in-vcf /workdir/${INPUT_VCF} \
    --out-vcf /outputdir/${OUTPUT_VCF} \
    --in-dbsnp-file /workdir/${DBSNP_DATABASE}