A bit-packed k-mer representation (and relevant utilities) for rust
☆47Jun 26, 2024Updated last year
Alternatives and similar repositories for kmers
Users that are interested in kmers are comparing it to the libraries listed below
Sorting:
- ☆14Oct 14, 2020Updated 5 years ago
- Next Index to Query Kmer Intersection☆17Feb 1, 2023Updated 3 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Apr 8, 2024Updated last year
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Jul 27, 2023Updated 2 years ago
- Rust in bioinformatics and computational biology☆19Oct 22, 2022Updated 3 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
- GBZ file format for pangenome graphs☆46Updated this week
- Space-efficient pseudoalignment with a colored de Bruijn graph☆52Mar 13, 2025Updated last year
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- ☆22Jul 28, 2022Updated 3 years ago
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 2 years ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆29Apr 24, 2025Updated 10 months ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24May 30, 2024Updated last year
- syncmer graphs, and perhaps other sorts of sequence graphs☆30Updated this week
- Rust bindings to minimap2 library☆109Mar 2, 2026Updated 2 weeks ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆47Feb 12, 2026Updated last month
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- ☆21Dec 26, 2025Updated 2 months ago
- Iterate over minimizers of a DNA sequence☆32Jul 12, 2024Updated last year
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- Generate random test data for bioinformatics☆27Jun 17, 2024Updated last year
- De Bruijn graphs in Rust☆71Jul 22, 2024Updated last year
- A very fast interval tree data structure☆131Feb 3, 2025Updated last year
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37May 29, 2025Updated 9 months ago
- Fast FASTX parsing and k-mer methods in Rust☆210Jan 27, 2026Updated last month
- Bioinformatics 101 tool for counting unique k-length substrings in DNA☆33Feb 17, 2026Updated last month
- GFA visualizer, GPU-accelerated using Vulkan☆76Aug 2, 2022Updated 3 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- ☆11Dec 9, 2022Updated 3 years ago
- 🧬 Efficient parallelized peta-scale protein database search☆40Jan 4, 2024Updated 2 years ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56May 29, 2024Updated last year
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- GFA parser in Rust☆30May 26, 2023Updated 2 years ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆25Updated this week
- Single-Cell RNA-seq pseudo-aligner☆52May 6, 2024Updated last year
- String algorithm visualizations☆13Feb 7, 2023Updated 3 years ago
- Fast and exact gap-affine partial order alignment☆59Feb 3, 2026Updated last month
- ☆49Mar 19, 2023Updated 3 years ago