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 5 months ago
- A repository for generating strobemers and evalaution☆79Apr 16, 2024Updated 2 years 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.
- ☆15Dec 8, 2022Updated 3 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- ☆24Apr 2, 2021Updated 5 years ago
- Fast and accurate set similarity estimation via containment min hash☆42Jul 19, 2024Updated 2 years ago
- A resistome profiler for Graphing Resistance Out Of meTagenomes☆65Sep 15, 2026Updated last week
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- A database for signatures of public genomic sources☆18Jul 18, 2026Updated 2 months ago
- A genomic minhashing implementation in Rust☆101Jul 8, 2026Updated 2 months 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.
- ☆13Jan 23, 2020Updated 6 years ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆58Mar 13, 2025Updated last year
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆56May 17, 2022Updated 4 years ago
- Fast and accurate genomic distances using HyperLogLog☆162Jan 19, 2023Updated 3 years ago
- ☆32Sep 21, 2023Updated 3 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆120Dec 13, 2024Updated last year
- Iterate over minimizers of a DNA sequence☆33Jul 12, 2024Updated 2 years ago
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated last year
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 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.
- Fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, comparison): 16 million viral contigs analyzed in less…☆103Sep 10, 2026Updated 2 weeks ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 5 years ago
- ☆15Apr 6, 2016Updated 10 years ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆77Jun 17, 2024Updated 2 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Nov 27, 2025Updated 10 months ago
- Long-read aligner to pangenome graphs☆29May 20, 2024Updated 2 years ago
- AStarix: Fast and Optimal Sequence-to-Graph Aligner☆74Dec 25, 2021Updated 4 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆112Jun 19, 2026Updated 3 months ago
- Create Bloom filters for a given reference and then use it to categorize sequences☆78Nov 26, 2024Updated last year
- 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.
- Alternative taxonomic consensus algorithms based on the NCBI taxonomy tree☆16May 29, 2024Updated 2 years ago
- base-accurate DNA sequence alignments using WFA and mashmap3☆224Updated this week
- ASMNGS20 - 2020 Conference Details☆15Jun 10, 2022Updated 4 years ago
- Aligns short reads using dynamic seed size with strobemers☆207Updated this week
- ☆63Sep 15, 2025Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Oct 20, 2023Updated 2 years ago