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Using GenomicsDB with GATK
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GenomicsDB is packaged into
`gatk4 <https://software.broadinstitute.org/gatk/documentation/article?id=11091>`__
and benefits qualitatively from a large user base.

GATK tools such as GenomicsDBImport, SelectVariants and GenotypeGVCFs interact with GenomicsDB workspaces. Refer to the `tool index <https://gatk.broadinstitute.org/hc/en-us/categories/360002369672-Tool-Index>`__ for more information on how to use these tools.

The :ref:`GenomicsDB CLI tools <CLI Tools>` can be used to modify or query workspaces created using GATK tools.