Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.
☆129Dec 30, 2020Updated 5 years ago
Alternatives and similar repositories for cute-nucleotides
Users that are interested in cute-nucleotides are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Apr 24, 2025Updated 11 months ago
- ☆14Oct 14, 2020Updated 5 years ago
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- A SIMD-accelerated library to compute random minimizers☆39Mar 1, 2026Updated 3 weeks ago
- SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using …☆139Jun 23, 2024Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Parallel Construction of Suffix Arrays in Rust☆26May 2, 2025Updated 10 months ago
- String algorithm visualizations☆13Feb 7, 2023Updated 3 years ago
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Jul 27, 2023Updated 2 years ago
- Fast FASTX parsing and k-mer methods in Rust☆210Updated this week
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆20Nov 24, 2024Updated last year
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- Rust bindings to minimap2 library☆109Mar 2, 2026Updated 3 weeks ago
- Minimum plain text representation of kmer sets☆16Jan 30, 2025Updated last year
- Contains the description of a file format to store kmers and associated values☆34Aug 17, 2022Updated 3 years ago
- 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.
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- A very fast interval tree data structure☆131Feb 3, 2025Updated last year
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50May 22, 2024Updated last year
- Simple and transparent support for compressed files.☆81Feb 27, 2026Updated last month
- Bioinformatics I/O libraries in Rust☆665Updated this week
- A pairwise sequence aligner written in Rust☆152Jan 27, 2026Updated 2 months ago
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 2 years ago
- Rust edit distance routines accelerated using SIMD. Supports fast Hamming, Levenshtein, restricted Damerau-Levenshtein, etc. distance cal…☆109Mar 13, 2023Updated 3 years ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆44Nov 18, 2023Updated 2 years ago
- Wordpress hosting with auto-scaling on Cloudways • AdFully Managed hosting built for WordPress-powered businesses that need reliable, auto-scalable hosting. Cloudways SafeUpdates now available.
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆38Mar 9, 2026Updated 3 weeks ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21Dec 3, 2025Updated 3 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆52Mar 13, 2025Updated last year
- A minimal copy fastq and fasta reader built for parallel support and paired end processing☆42Updated this week
- bedtools-like functionality for interval sets in rust☆55Aug 5, 2025Updated 7 months ago
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated last year
- A Rust library for building modular, fast and compact indexes over genomic data☆12Nov 22, 2023Updated 2 years ago
- 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.
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- Fast DNA search and [host] depletion using minimizers☆106Mar 13, 2026Updated 2 weeks ago
- Compacted and colored de Bruijn graph construction and querying☆95Mar 6, 2026Updated 3 weeks ago
- minimizer-space de Bruijn graphs (mdBG) for whole genome assembly☆184Sep 19, 2024Updated last year
- Rust bindings to the wavefront algorithm C implementation☆17Sep 20, 2022Updated 3 years ago
- A genomic minhashing implementation in Rust☆103Jun 17, 2025Updated 9 months ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Jun 26, 2024Updated last year