htslib

C library for high-throughput sequencing data formats

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.

SeqAn's official repository.

cython + htslib == fast VCF and BCF processing

Graph realignment tools for structural variants

nim wrapper for htslib for parsing genomics data files

C++ htslib/bwa-mem/fermi interface for interrogating sequence data

pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)

BigWig manpulation tools using libBigWig and htslib

a C++ API of htslib to be easily integrated and safely used. More importantly, it can be callled seamlessly in R/Python/Julia etc.

ziglang + htslib

The fastest VCF/BCF parser in R https://doi.org/10.1093/bioinformatics/btae049

Collection of simple C scripts for parsing vcf or bam files using the htslib C library. These scripts can be used as the starting point for more complex scripts

HTSlib bindings for Ruby

R Bindings for htslib/bcf

HTSlib bindings for Crystal

Process Illumina instrument data into SAM/BAM/CRAM files.

Use simple expressions to filter a BAM/CRAM file

X11 related utilities for hts

htslib for the zig build system