online notebooks for a review of genome sketching
☆60Sep 23, 2019Updated 7 years ago
Alternatives and similar repositories for genome-sketching
Users that are interested in genome-sketching are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆36Aug 4, 2021Updated 5 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆75Apr 1, 2026Updated 7 months ago
- Classify sequencing reads using MinHash.☆47Apr 6, 2020Updated 6 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- the Metagenomic test for Presence Or Absence of Pathways☆13Mar 4, 2019Updated 7 years ago
- A repository for generating strobemers and evalaution☆79Apr 16, 2024Updated 2 years ago
- ☆24Apr 2, 2021Updated 5 years ago
- Fast and accurate genomic distances using HyperLogLog☆162Jan 19, 2023Updated 3 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Lift-over alignments from variant-aware references☆34Mar 4, 2023Updated 3 years ago
- ☆15Dec 8, 2022Updated 3 years ago
- Fast and accurate set similarity estimation via containment min hash☆41Jul 19, 2024Updated 2 years ago
- A resistome profiler for Graphing Resistance Out Of meTagenomes☆66Sep 15, 2026Updated last month
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- This is the codebase for Faucet, described in our manuscript: https://academic.oup.com/bioinformatics/article/34/1/147/4004871, by Roye R…☆19May 21, 2017Updated 9 years ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 5 years ago
- Bacterial Annotation by Learned Representation of Genes☆62Mar 26, 2026Updated 7 months ago
- 雷 - kaminari (thunder/lightning)☆12May 4, 2026Updated 6 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆59Mar 13, 2025Updated last year
- ☆14Jul 30, 2026Updated 3 months ago
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆120Jan 29, 2026Updated 9 months ago
- ☆13Jan 23, 2020Updated 6 years 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.
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 4 years ago
- A genomic minhashing implementation in Rust☆100Jul 8, 2026Updated 3 months ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆123Aug 24, 2023Updated 3 years ago
- A versatile toolkit for k-mers with taxonomic information☆84Oct 20, 2026Updated 2 weeks ago
- Library of sketching functions used by PopPUNK☆29Jun 8, 2026Updated 4 months ago
- Indel-aware consensus for aligned BAM☆22Aug 16, 2025Updated last year
- Fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, comparison): 16 million viral contigs analyzed in less…☆102Sep 10, 2026Updated last month
- extract MSAs from genome variation graphs☆34Mar 24, 2026Updated 7 months ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆20Oct 28, 2023Updated 3 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Sniphles is a read-based phasing approach for phased variant calling of structural variants.☆12Oct 14, 2020Updated 6 years ago
- A database for signatures of public genomic sources☆18Jul 18, 2026Updated 3 months ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆56May 17, 2022Updated 4 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- ntHash implementation in Rust☆36Jul 12, 2024Updated 2 years ago
- ☆15Apr 6, 2016Updated 10 years ago
- Neptune: Genomic Signature Discovery☆22May 1, 2026Updated 6 months ago