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samtools's repositories

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

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htslib

C library for high-throughput sequencing data formats

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bcftools

This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

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hts-specs

Specifications of SAM/BAM and related high-throughput sequencing file formats

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htsjdk

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

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tabix

Note: tabix and bgzip binaries are now part of the HTSlib project.

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htscodecs

Custom compression for CRAM and others.

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htslib-plugins

Plugins for use with HTSlib

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www.htslib.org

The http://www.htslib.org/ web site

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sapi

Sequence Alignment Programming Interface

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htsjdk-next-beta

Staging ground for the development of the next major version of HTSJDK

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samtools.github.com

The http://samtools.github.io/ (master) and legacy http://samtools.sourceforge.net/ (sf-pages) web sites

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c-maint

Maintenance scripts used with the htslib/samtools/bcftools repositories

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htslib-crypt4gh

HTSlib crypt4gh plug-in

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klib

A standalone and lightweight C library

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