C++ Implementations of sketch data structures with SIMD Parallelism, including Python bindings
☆158Jul 23, 2024Updated last year
Alternatives and similar repositories for sketch
Users that are interested in sketch are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆20Aug 18, 2020Updated 5 years ago
- Fast and accurate genomic distances using HyperLogLog☆163Jan 19, 2023Updated 3 years ago
- SetSketch: Filling the Gap between MinHash and HyperLogLog☆49Aug 11, 2021Updated 4 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated 2 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆44Nov 18, 2023Updated 2 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆70Jun 17, 2024Updated last year
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 3 years ago
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated 7 months ago
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- Histosketching Using Little Kmers☆57May 25, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆74Apr 1, 2026Updated last week
- ☆24Apr 2, 2021Updated 5 years ago
- REINDEER REad Index for abuNDancE quERy☆56Jul 6, 2025Updated 9 months ago
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆88Jan 25, 2024Updated 2 years ago
- A succinct colored dBG representation☆12Sep 11, 2018Updated 7 years ago
- Simple succinct data structures (in Rust)☆54Updated this week
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆86Mar 7, 2024Updated 2 years ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆198Mar 8, 2022Updated 4 years ago
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Mar 25, 2025Updated last year
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 3, 2022Updated 3 years ago
- Linear-time, low-memory construction of variation graphs☆20Feb 3, 2020Updated 6 years ago
- DartMinHash: Fast Sketching for Weighted Sets☆12Dec 8, 2025Updated 4 months ago
- vector illustrations of BWT based searching on small strings☆16Apr 29, 2019Updated 6 years ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Dec 16, 2019Updated 6 years ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated 2 years ago
- compacted de Bruijn graph construction in low memory☆100Nov 4, 2025Updated 5 months ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 3 years ago
- Optimal partitioning of Variable-Byte codes for better compression and fast decoding.☆17Nov 10, 2021Updated 4 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- An efficient index for the colored, compacted, de Bruijn graph☆111Mar 11, 2026Updated last month
- A long read simulator based on badread idea☆22Oct 7, 2022Updated 3 years ago
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Feb 23, 2025Updated last year
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆96Mar 28, 2026Updated 2 weeks ago