Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.
☆21Dec 3, 2025Updated 5 months ago
Alternatives and similar repositories for simd-sketch
Users that are interested in simd-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:
- Bitpacked sequence trait and implementation☆18Feb 27, 2026Updated 2 months ago
- A SIMD-accelerated library to compute random minimizers☆42Apr 6, 2026Updated 3 weeks ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆24Nov 20, 2025Updated 5 months ago
- A command line utilty for working with BINSEQ files☆38Mar 31, 2026Updated last month
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Apr 24, 2025Updated last year
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- Robust individual and aggregate checksums for nucleotide sequences☆17Mar 3, 2026Updated 2 months ago
- An efficient CLI to extract sequences from the SRA☆122Mar 4, 2026Updated 2 months ago
- TreeKnit is a package that infers Ancestral Reassortment Graphs for segmented genomes (typically, human influenza).☆14Feb 18, 2025Updated last year
- A small, auxiliary index to massively improve parallel fastq parsing☆32Mar 6, 2026Updated last month
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- Rapidly extract reads from a FASTQ file based on taxonomic classification via Kraken2.☆13Jan 26, 2026Updated 3 months ago
- Fast approximate string searching☆123Apr 11, 2026Updated 3 weeks ago
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Apr 23, 2021Updated 5 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- KmerCamel🐫 provides implementations of several algorithms for efficiently representing a set of k-mers as a masked superstring.☆20Apr 14, 2026Updated 3 weeks ago
- Host depletion optimised for clinical metagenomic sequencing applications☆17Nov 18, 2024Updated last year
- Taxonomy classification of viral sequences / contigs☆12Jul 15, 2025Updated 9 months ago
- A minimal copy fastq and fasta reader built for parallel support and paired end processing☆42Apr 24, 2026Updated last week
- Minimum plain text representation of kmer sets☆18Jan 30, 2025Updated last year
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 3 years ago
- Rust bindings to minimap2 library☆110Mar 30, 2026Updated last month
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆88Jan 25, 2024Updated 2 years ago
- Fast and exact gap-affine partial order alignment☆68Apr 25, 2026Updated last week
- 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.
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated last year
- k-mers and the like☆22Apr 27, 2026Updated last week
- Ultra-rapid detection of viral variants directly from sequencing data☆40Feb 17, 2026Updated 2 months ago
- MetagenOmic read Re-Assigner and abundance quantifier☆20Jan 31, 2025Updated last year
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆20Jan 22, 2026Updated 3 months ago
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆54Apr 14, 2026Updated 3 weeks ago
- Wavefront alignment algorithm (WFA) in Golang☆31Jul 26, 2025Updated 9 months ago
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆41Mar 9, 2026Updated last month
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- 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.
- µbinfie blog☆19Jul 21, 2025Updated 9 months ago
- Quickly generate consensus assemblies for bacterial genomes☆14Sep 12, 2025Updated 7 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆53Mar 13, 2025Updated last year
- Maturin Starter Project w/PyO3 & Poetry☆13Aug 28, 2022Updated 3 years ago
- ☆21Feb 15, 2025Updated last year
- ☆14Oct 14, 2020Updated 5 years ago
- vector illustrations of BWT based searching on small strings☆16Apr 29, 2019Updated 7 years ago