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    15 repositories

    • htsjdk

      Public
      A Java API for high-throughput sequencing data (HTS) formats.
      javagenomicsngs
      javagenomicsngssequencingsamvcfdnajava-apifastabam
      Java
      •242•296•276•45•Updated Mar 28, 2026Mar 28, 2026

    • bcftools

      Public
      This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/i…
      C
      •
      Other
      •266•852•341•26•Updated Mar 28, 2026Mar 28, 2026

    • samtools

      Public
      Tools (written in C using htslib) for manipulating next-generation sequencing data
      C
      •
      Other
      •608•1.9k•177•21•Updated Mar 26, 2026Mar 26, 2026

    • htslib

      Public
      C library for high-throughput sequencing data formats
      bioinformaticsngssam
      bioinformaticsngssamvcfbamhtslibbcfcram
      C
      •
      Other
      •461•913•136•24•Updated Mar 26, 2026Mar 26, 2026

    • www.htslib.org

      Public
      The http://www.htslib.org/ web site
      HTML
      •13•8•3•0•Updated Mar 18, 2026Mar 18, 2026

    • hts-specs

      Public
      Specifications of SAM/BAM and related high-throughput sequencing file formats
      TeX
      •179•702•186•35•Updated Mar 17, 2026Mar 17, 2026

    • c-maint

      Public
      Maintenance scripts used with the htslib/samtools/bcftools repositories
      Perl
      •
      Other
      •3•3•0•1•Updated Mar 13, 2026Mar 13, 2026

    • htscodecs

      Public
      Custom compression for CRAM and others.
      C
      •
      Other
      •20•37•0•0•Updated Mar 11, 2026Mar 11, 2026

    • htslib-crypt4gh

      Public
      HTSlib crypt4gh plug-in
      C
      •
      Other
      •2•3•1•0•Updated Sep 22, 2023Sep 22, 2023

    • klib

      Public
      A standalone and lightweight C library
      C
      •
      MIT License
      •587•0•0•0•Updated Jan 17, 2023Jan 17, 2023

    • samtools.github.com

      Public
      The http://samtools.github.io/ (master) and legacy http://samtools.sourceforge.net/ (sf-pages) web sites
      CSS
      •1•4•0•0•Updated Dec 23, 2021Dec 23, 2021

    • tabix

      Public archive
      Note: tabix and bgzip binaries are now part of the HTSlib project.
      C
      •38•90•5•2•Updated Aug 3, 2021Aug 3, 2021

    • htslib-plugins

      Public
      Plugins for use with HTSlib
      C
      •
      Other
      •8•9•3•0•Updated Mar 19, 2021Mar 19, 2021

    • htsjdk-next-beta

      Public
      Staging ground for the development of the next major version of HTSJDK
      Java
      •
      BSD 3-Clause "New" or "Revised" License
      •3•6•21•10•Updated Mar 4, 2019Mar 4, 2019

    • sapi

      Public
      Sequence Alignment Programming Interface
      C
      •0•7•0•0•Updated Mar 9, 2012Mar 9, 2012
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