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

Other

samtools

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

bcftools

Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix.

MIT License

pysam

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