[MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
☆273Oct 13, 2022Updated 3 years ago
Alternatives and similar repositories for shasta
Users that are interested in shasta are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MarginPolish: Graph based assembly polishing☆47Nov 24, 2020Updated 5 years ago
- H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)☆73Oct 28, 2020Updated 5 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆933Apr 3, 2026Updated last month
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆529Sep 27, 2023Updated 2 years 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.
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 5 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆35Dec 11, 2019Updated 6 years ago
- Long read aligner☆114May 26, 2023Updated 3 years ago
- Long read / genome alignment software☆317Dec 16, 2025Updated 5 months ago
- A fast approximate aligner for long DNA sequences☆288Oct 11, 2024Updated last year
- Segmental Duplication Assembler (SDA).☆44May 7, 2023Updated 3 years ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆297May 9, 2024Updated 2 years ago
- An accurate and ultra-fast hybrid genome assembler☆88Apr 10, 2024Updated 2 years ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆240Dec 29, 2023Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Structural variation caller using third generation sequencing☆658May 18, 2026Updated last week
- De novo genome assembler for long uncorrected reads☆231Nov 15, 2023Updated 2 years ago
- Sequence-to-graph mapper and graph generator☆479Aug 11, 2025Updated 9 months ago
- Long read based human genomic structural variation detection with cuteSV☆287Mar 26, 2026Updated 2 months ago
- Fast and accurate de novo assembler for long reads☆402May 10, 2024Updated 2 years ago
- PEPPER-Margin-DeepVariant☆258Jan 12, 2024Updated 2 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆309Mar 18, 2024Updated 2 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated 2 years ago
- Sequence correction provided by ONT Research☆515May 20, 2026Updated last week
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- base-accurate DNA sequence alignments using WFA and mashmap3☆217Mar 20, 2026Updated 2 months ago
- k-mer based assembly evaluation☆343May 21, 2026Updated last week
- Fast and accurately polish the genome generated by long reads.☆243Jan 9, 2025Updated last year
- ☆120Oct 10, 2025Updated 7 months ago
- Graph based multi genome aligner☆49Sep 17, 2021Updated 4 years ago
- Benchmarking of long-read assembly tools for bacterial whole genomes☆171Mar 15, 2021Updated 5 years ago
- HyPo: Super Fast & Accurate Polisher for Long Read Genome Assemblies☆67Feb 23, 2020Updated 6 years ago
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆353Jul 19, 2025Updated 10 months 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.
- ☆286Dec 29, 2025Updated 5 months ago
- ✏️ Genome assembly polishing & SNV detection☆73May 7, 2026Updated 3 weeks ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,188May 19, 2026Updated last week
- alignment to variation graph inducer☆159Apr 11, 2026Updated last month
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆240Sep 6, 2024Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆210Nov 18, 2022Updated 3 years ago