rust-seq / simd-minimizers
A SIMD-accelerated library to compute random minimizers
☆14Updated this week
Alternatives and similar repositories for simd-minimizers:
Users that are interested in simd-minimizers are comparing it to the libraries listed below
- Optimal sequence-to-graph alignment with recombinations☆32Updated last month
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆24Updated 3 weeks ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆44Updated 6 months ago
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆16Updated 2 weeks ago
- Fast and exact gap-affine partial order alignment☆49Updated 4 months ago
- Iterate over minimizers of a DNA sequence☆28Updated 8 months ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated last month
- ☆17Updated last year
- A k-mer search engine for all Sequence Read Archive public accessions☆20Updated 5 months ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆20Updated 4 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆53Updated 2 weeks ago
- ☆16Updated last month
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 11 months ago
- A FASTA/FASTQ format parser library☆20Updated last year
- ☆14Updated 4 years ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- k-mers and the like☆21Updated this week
- ☆13Updated last week
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆24Updated 2 weeks ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆22Updated this week
- A bioinformatics tool written in Rust to find palindromic sequences in DNA☆34Updated last month
- Minimum plain text representation of kmer sets☆17Updated 2 months ago
- Wavefront alignment algorithm (WFA) in Golang☆30Updated 4 months ago
- Sketch-based surveillance platform☆13Updated 3 months ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆24Updated 6 months ago
- ☆12Updated 3 months ago
- Just another minhash implementation.☆12Updated 3 weeks ago
- Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.☆21Updated last year
- Differential k-mer analysis☆34Updated last year
- Extracts subgraphs or components from a graph in GFA format☆23Updated 4 months ago