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  1. broadinstitute/gatk broadinstitute/gatk Public

    Official code repository for GATK versions 4 and up

    Java 1.7k 594

  2. samtools/htsjdk samtools/htsjdk Public

    A Java API for high-throughput sequencing data (HTS) formats.

    Java 285 245

  3. 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 988 370

  4. googleapis/google-cloud-java googleapis/google-cloud-java Public

    Google Cloud Client Library for Java

    Java 1.9k 1.1k