C library for high-throughput sequencing data formats
☆931Jun 24, 2026Updated this week
Alternatives and similar repositories for htslib
Users that are interested in htslib are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Tools (written in C using htslib) for manipulating next-generation sequencing data☆1,917Jun 18, 2026Updated last week
- This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.gith…☆874Updated this week
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,752Jun 20, 2026Updated last week
- Specifications of SAM/BAM and related high-throughput sequencing file formats☆706Jun 4, 2026Updated 3 weeks ago
- 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…☆896Jun 23, 2026Updated last week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,067Jun 13, 2026Updated 2 weeks ago
- bedtools - the swiss army knife for genome arithmetic☆1,040Jun 10, 2026Updated 2 weeks ago
- C++ API & command-line toolkit for working with BAM data☆430May 18, 2025Updated last year
- This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.☆366Jan 29, 2026Updated 5 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,204May 19, 2026Updated last month
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆871Apr 20, 2026Updated 2 months ago
- Official code repository for GATK versions 4 and up☆1,968Updated this week
- The next version of bwa-mem☆844Oct 15, 2025Updated 8 months ago
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data☆139Apr 27, 2026Updated 2 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆681Mar 20, 2026Updated 3 months ago
- A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.☆559May 15, 2025Updated last year
- Tools for working with SAM/BAM data☆611Dec 22, 2024Updated last year
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,384Updated this week
- Graph-based alignment (Hierarchical Graph FM index)☆539Jan 27, 2026Updated 5 months ago
- SeqAn's official repository.☆503Jun 22, 2026Updated last week
- Cutadapt removes adapter sequences from sequencing reads☆582Jun 22, 2026Updated last week
- lumpy: a general probabilistic framework for structural variant discovery☆343Feb 22, 2026Updated 4 months ago
- annotate a VCF with other VCFs/BEDs/tabixed files