Parallel Construction of Suffix Arrays in Rust
☆26May 2, 2025Updated 9 months ago
Alternatives and similar repositories for sufr
Users that are interested in sufr are comparing it to the libraries listed below
Sorting:
- Just another minhash implementation.☆12Updated this week
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆19Jan 22, 2026Updated last month
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated last year
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆28Apr 24, 2025Updated 10 months ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- A minimal copy fastq and fasta reader built for parallel support and paired end processing☆42Jan 9, 2026Updated last month
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 2 years ago
- Rust implementation of probminhash, superminhash and hyperloglog sketching algorithms☆31Jan 22, 2026Updated last month
- Bitpacked sequence trait and implementation☆16Jan 20, 2026Updated last month
- Rust bindings to minimap2 library☆109Updated this week
- Cute tricks for SIMD vectorized binary encoding and decoding of nucleotides, in Rust.☆129Dec 30, 2020Updated 5 years ago
- A Rust library for parsing, writing and manipulating Genbank sequence files☆22Apr 20, 2025Updated 10 months ago
- Iterate over minimizers of a DNA sequence☆31Jul 12, 2024Updated last year
- Fast Approximate Pattern Matching using Search Schemes☆16Jan 14, 2026Updated last month
- Fast approximate string searching☆100Updated this week
- Python wrapper for wavefront alignment using WFA2-lib☆38Nov 19, 2024Updated last year
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- ntHash implementation in Rust☆36Jul 12, 2024Updated last year
- Improved version of the Oxford Bioinformatics paper template☆18Feb 4, 2026Updated 3 weeks ago
- Fast and exact gap-affine partial order alignment☆59Feb 3, 2026Updated 3 weeks ago
- Simple and transparent support for compressed files.☆81Feb 12, 2025Updated last year
- an API for intersections of genomic data☆143Feb 13, 2026Updated 2 weeks ago
- Host depletion optimised for clinical metagenomic sequencing applications☆16Nov 18, 2024Updated last year
- Single-cell analysis methods in Rust☆30Nov 4, 2025Updated 3 months ago
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Jul 27, 2023Updated 2 years ago
- Mapping sequencing data to De Bruijn graphs, fast☆30Updated this week
- Fast DNA search and [host] depletion using minimizers☆100Feb 4, 2026Updated 3 weeks ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Nov 18, 2023Updated 2 years ago
- Basecalling configuration prediction through FASTQ files☆33Nov 24, 2025Updated 3 months ago
- Cache-friendly, Parallel, and Samplesort-based Constructor for Suffix Arrays and LCP Arrays☆17Jun 23, 2025Updated 8 months ago
- Fast sequence distance estimates☆26Jan 29, 2026Updated last month
- Rust bindings to the wavefront algorithm C implementation☆17Sep 20, 2022Updated 3 years ago
- Efficient low-divergence mapping of long reads in minimizer space☆69Oct 7, 2023Updated 2 years ago
- GFA visualizer, GPU-accelerated using Vulkan☆76Aug 2, 2022Updated 3 years ago
- UMAP (Uniform Manifold Approximation and Projection) in Rust☆19Updated this week
- Rapid and robust analysis of RNA-Seq experiments.☆32Apr 16, 2016Updated 9 years ago
- GFA parser in Rust☆30May 26, 2023Updated 2 years ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆20Dec 3, 2025Updated 2 months ago
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Apr 23, 2021Updated 4 years ago