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    15 repositories

    • htslib

      Public
      C library for high-throughput sequencing data formats
      bioinformaticsngssamvcfbamhtslibbcfcram
      C
      •
      Other
      •459•895•136•24•Updated Dec 19, 2025Dec 19, 2025

    • samtools

      Public
      Tools (written in C using htslib) for manipulating next-generation sequencing data
      C
      •
      Other
      •604•1.8k•173•19•Updated Dec 18, 2025Dec 18, 2025

    • www.htslib.org

      Public
      The http://www.htslib.org/ web site
      HTML
      •13•8•3•0•Updated Dec 16, 2025Dec 16, 2025

    • bcftools

      Public
      This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html
      C
      •
      Other
      •259•828•334•11•Updated Dec 16, 2025Dec 16, 2025

    • htsjdk

      Public
      A Java API for high-throughput sequencing data (HTS) formats.
      javagenomicsngssequencingsamvcfdnajava-apifastabam
      Java
      •242•291•271•42•Updated Dec 15, 2025Dec 15, 2025

    • htscodecs

      Public
      Custom compression for CRAM and others.
      C
      •
      Other
      •20•35•0•0•Updated Dec 9, 2025Dec 9, 2025

    • c-maint

      Public
      Maintenance scripts used with the htslib/samtools/bcftools repositories
      Perl
      •
      Other
      •3•3•0•1•Updated Dec 9, 2025Dec 9, 2025

    • hts-specs

      Public
      Specifications of SAM/BAM and related high-throughput sequencing file formats
      TeX
      •179•691•183•33•Updated Nov 4, 2025Nov 4, 2025

    • 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
      •584•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•91•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