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  1. broadinstitute/gatk broadinstitute/gatk Public

    Official code repository for GATK versions 4 and up

    Java 1.7k 597

  2. broadinstitute/picard broadinstitute/picard Public

    A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

    Java 990 371