C++ Implementations of sketch data structures with SIMD Parallelism, including Python bindings
☆155Jul 23, 2024Updated 2 years ago
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 6 years ago
- Fast and accurate genomic distances using HyperLogLog☆162Jan 19, 2023Updated 3 years ago
- SetSketch: Filling the Gap between MinHash and HyperLogLog☆49Aug 11, 2021Updated 5 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☆36Aug 4, 2021Updated 5 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.
- 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
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 4 years ago
- ntHash implementation in Rust☆36Jul 12, 2024Updated 2 years ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆77Jun 17, 2024Updated 2 years ago
- Implicit Interval Tree with Interpolation Index☆43Jul 13, 2022Updated 4 years ago
- Graph-based mapping of long sequences, noisy or HiFi.☆55Oct 5, 2020Updated 5 years ago
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated last year
- Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop☆75Apr 1, 2026Updated 5 months ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- REINDEER REad Index for abuNDancE quERy☆56Jul 6, 2025Updated last year
- ☆24Apr 2, 2021Updated 5 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆89Jan 25, 2024Updated 2 years ago
- A succinct colored dBG representation☆12Sep 11, 2018Updated 7 years ago
- Simple succinct data structures (in Rust)☆54Aug 24, 2026Updated last week
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆88Mar 7, 2024Updated 2 years ago
- Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment☆199Mar 8, 2022Updated 4 years ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆30May 25, 2026Updated 3 months ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Mar 25, 2025Updated last year
- DartMinHash: Fast Sketching for Weighted Sets☆12Dec 8, 2025Updated 8 months ago
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆108Updated this week
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Aug 1, 2026Updated last month
- Linear-time, low-memory construction of variation graphs☆20Updated this week
- vector illustrations of BWT based searching on small strings☆16Apr 29, 2019Updated 7 years ago
- Sequence Distance Graph framework: graph + reads + mapping + analysis☆25Jun 4, 2022Updated 4 years ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated 2 years ago
- compacted de Bruijn graph construction in low memory☆101Nov 4, 2025Updated 9 months ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Optimal partitioning of Variable-Byte codes for better compression and fast decoding.☆17Nov 10, 2021Updated 4 years ago
- An efficient index for the colored, compacted, de Bruijn graph☆112Jun 19, 2026Updated 2 months ago
- A long read simulator based on badread idea