De novo assembler for single molecule sequencing reads using repeat graphs
☆941Apr 3, 2026Updated 3 months ago
Alternatives and similar repositories for Flye
Users that are interested in Flye are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Sequence correction provided by ONT Research☆516May 20, 2026Updated last month
- A single molecule sequence assembler for genomes large and small.☆701Jun 18, 2026Updated 2 weeks ago
- hybrid assembly pipeline for bacterial genomes☆645Jul 25, 2024Updated last year
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,204May 19, 2026Updated last month
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆529Sep 27, 2023Updated 2 years ago
- 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.
- [MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads☆273Oct 13, 2022Updated 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…☆298May 9, 2024Updated 2 years ago
- De novo genome assembler for long uncorrected reads☆231Nov 15, 2023Updated 2 years ago
- quality filtering tool for long reads☆404Sep 17, 2025Updated 9 months ago
- Genome assembly evaluation tool☆515Jun 10, 2026Updated 3 weeks ago
- Pilon is an automated genome assembly improvement and variant detection tool☆382Apr 10, 2022Updated 4 years ago
- Hifiasm: a haplotype-resolved assembler for accurate Hifi reads☆788May 31, 2026Updated last month
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆242Dec 29, 2023Updated 2 years ago
- adapter trimmer for Oxford Nanopore reads☆384May 8, 2024Updated 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 Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆672Dec 3, 2022Updated 3 years ago
- Plotting scripts for long read sequencing data☆556Jun 15, 2026Updated 2 weeks ago
- Fast and accurate de novo assembler for long reads☆404May 10, 2024Updated 2 years ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆344Sep 11, 2025Updated 9 months ago
- Structural variation caller using third generation sequencing☆666Jun 24, 2026Updated last week
- ☆277Jun 26, 2025Updated last year
- Mummer alignment tool☆564Feb 4, 2025Updated last year
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆355Jul 19, 2025Updated 11 months ago
- SPAdes Genome Assembler☆948Jun 16, 2026Updated 2 weeks ago
- 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.
- k-mer based assembly evaluation☆346May 21, 2026Updated last month
- A tool for Racon polishing of miniasm assemblies☆81Mar 2, 2026Updated 4 months 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…☆310Mar 18, 2024Updated 2 years ago
- haplotypic duplication identification tool☆289Oct 30, 2025Updated 8 months ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆212Nov 18, 2022Updated 3 years ago
- Filtering and trimming of long read sequencing data☆218Jan 16, 2023Updated 3 years ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆401Apr 22, 2026Updated 2 months ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆567Feb 14, 2024Updated 2 years ago
- Clair3 - Symphonizing pileup and full-alignment for deep learning-based long-read variant calling☆378Jun 25, 2026Updated last week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- a short-read polishing tool for long-read assemblies☆218Sep 19, 2025Updated 9 months ago
- Signal-level algorithms for MinION data☆597Aug 5, 2023Updated 2 years ago
- Pipeline to convert a haploid assembly into diploid☆111Jan 23, 2025Updated last year
- Synteny and Rearrangement Identifier☆474Jun 20, 2026Updated 2 weeks ago
- Chromosome-level scaffolding using multiple references☆169Sep 8, 2024Updated last year
- Long read / genome alignment software☆328Dec 16, 2025Updated 6 months ago
- A tool to circularize genome assemblies☆257Apr 6, 2024Updated 2 years ago