The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
☆463Sep 21, 2026Updated this week
Alternatives and similar repositories for seqan3
Users that are interested in seqan3 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- SeqAn's official repository.☆502Aug 11, 2026Updated last month
- BioC++ core library (alphabet, meta, ranges)☆21Jul 21, 2023Updated 3 years ago
- Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.☆607May 13, 2025Updated last year
- WFA-lib: Wavefront alignment algorithm library v2☆228Aug 7, 2026Updated last month
- The modern argument parser for c++ tools☆11Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- Pairwise Sequence Alignment Library☆289Aug 27, 2025Updated last year
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆57Mar 4, 2024Updated 2 years ago
- SIMD partial order alignment tool/library☆185Sep 21, 2025Updated last year
- C library for high-throughput sequencing data formats☆951Updated this week
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data☆139Apr 27, 2026Updated 4 months ago
- Incremental construction of FM-index for DNA sequences☆72Jun 12, 2024Updated 2 years ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,249May 19, 2026Updated 4 months ago
- This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementat…☆1,838Updated this week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- LAMBDA – the Local Aligner for Massive Biological DatA☆85Aug 26, 2024Updated 2 years ago
- Code examples of fast and simple k-mer counters for tutorial purposes☆175Mar 10, 2020Updated 6 years ago
- vector illustrations of BWT based searching on small strings☆16Apr 29, 2019Updated 7 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆229Aug 11, 2026Updated last month
- ☆322Jan 15, 2026Updated 8 months ago
- C++ API & command-line toolkit for working with BAM data☆432May 18, 2025Updated last year
- Long read / genome alignment software☆331Dec 16, 2025Updated 9 months ago
- A tool for merging large BWTs☆23Nov 26, 2020Updated 5 years ago
- A fast approximate aligner for long DNA sequences☆291Oct 11, 2024Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 6 years ago
- Assembled Genomes Compressor☆187Jul 22, 2026Updated 2 months ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆56May 17, 2022Updated 4 years ago
- The next version of bwa-mem☆864Oct 15, 2025Updated 11 months ago
- Fast and frugal disk based k-mer counter: counts 55-mers in 36 gzipped FASTQ files totaling 614 GB (WGS paired-end reads of NA12878, Illu…☆341Jul 7, 2026Updated 2 months ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆224Updated this week
- Tools for manipulating sequence graphs in the GFA and rGFA formats☆253Dec 16, 2025Updated 9 months ago
- C++ library for parsing several formats in bioinformatics☆10May 18, 2023Updated 3 years ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆90Updated this week
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- ☆290Dec 29, 2025Updated 8 months ago
- tools for working with genome variation graphs☆1,337Updated this week
- Scalable annotated de Bruijn graphs for DNA indexing, alignment, and assembly☆230Sep 1, 2026Updated 3 weeks ago
- A fast multi-threaded k-mer counter☆553Mar 20, 2024Updated 2 years ago
- Fast and accurate set similarity estimation via containment min hash☆42Jul 19, 2024Updated 2 years ago
- A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)☆170May 28, 2024Updated 2 years ago
- Plot structural variant signals from many BAMs and CRAMs☆573Jul 13, 2024Updated 2 years ago