Assemble large genomes using short reads
☆333Apr 30, 2026Updated 4 months ago
Alternatives and similar repositories for abyss
Users that are interested in abyss are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- de novo assembly of RNA-seq data using ABySS☆33Mar 10, 2026Updated 6 months ago
- Next generation sequencing reads de novo assembler.☆242Sep 20, 2025Updated 11 months ago
- ☆278Jun 26, 2025Updated last year
- ☆133Jul 9, 2023Updated 3 years ago
- Genome assembly evaluation tool☆520Jun 10, 2026Updated 3 months ago
- 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.
- Fast genome analysis from unassembled short reads☆326Apr 8, 2024Updated 2 years ago
- Pilon is an automated genome assembly improvement and variant detection tool☆389Apr 10, 2022Updated 4 years ago
- Mummer alignment tool☆575Feb 4, 2025Updated last year
- SPAdes Genome Assembler☆959Sep 9, 2026Updated last week
- A single molecule sequence assembler for genomes large and small.☆709Sep 10, 2026Updated last week
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆358Jul 19, 2025Updated last year
- Short read de novo assembler using de Bruijn graphs, as published in: D.R. Zerbino and E. Birney. 2008. Velvet: algorithms for de novo sh…☆297Oct 13, 2025Updated 11 months ago
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆30Mar 31, 2015Updated 11 years ago
- Genome annotation with AUGUSTUS☆341May 30, 2026Updated 3 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- 🌈Scaffold genome sequence assemblies using linked or long read sequencing data☆95Apr 1, 2026Updated 5 months ago
- Ultra-fast and memory-efficient (meta-)genome assembler☆727Oct 28, 2025Updated 10 months ago
- Minia is a short-read assembler based on a de Bruijn graph☆81Dec 27, 2024Updated last year
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,249May 19, 2026Updated 4 months ago
- A fast and sensitive gapped read aligner☆811Updated this week
- De novo assembler for single molecule sequencing reads using repeat graphs☆950Apr 3, 2026Updated 5 months ago
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,766Aug 7, 2026Updated last month
- A fast approximate aligner for long DNA sequences☆290Oct 11, 2024Updated last year
- Trinity RNA-Seq de novo transcriptome assembly☆900Apr 23, 2026Updated 4 months ago
- 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.
- Identifying repeats in high-throughput sequencing data☆16Apr 12, 2024Updated 2 years ago
- Chromosome-level scaffolding using multiple references☆170Sep 8, 2024Updated 2 years ago
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆532Sep 27, 2023Updated 2 years ago
- Ultra-fast de novo assembler using long noisy reads☆137Feb 24, 2021Updated 5 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated 2 years ago
- de novo sequence assembler using string graphs☆244Aug 8, 2019Updated 7 years ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆679Jul 7, 2026Updated 2 months ago
- GenomeTools genome analysis system.☆343Nov 10, 2025Updated 10 months ago
- A fast multi-threaded k-mer counter☆552Mar 20, 2024Updated 2 years ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Structural variation and indel detection by local assembly☆258Aug 19, 2026Updated last month
- ✏️ Genome assembly polishing & SNV detection☆74Sep 10, 2026Updated last week
- This repo is DEPRECATED. Please use minimap2, the successor of minimap.☆106Sep 20, 2017Updated 8 years ago
- Scaffolding genomes using synthetic long read clouds☆20Oct 11, 2016Updated 9 years ago
- Program for aligning DNA sequences, a pairwise aligner.☆253May 20, 2026Updated 3 months ago
- FASTA/FASTQ pre-processing programs☆203Mar 4, 2022Updated 4 years ago
- The next version of bwa-mem☆861Oct 15, 2025Updated 11 months ago