RagnarGrootKoerkamp / minimizers
Reference implementations of minimizer schemes to go with the mod-minimizers paper.
☆22Updated 2 weeks ago
Related projects ⓘ
Alternatives and complementary repositories for minimizers
- Iterate over minimizers of a DNA sequence☆26Updated 4 months ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- ☆17Updated last year
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆44Updated this week
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 6 months ago
- Fast and exact gap-affine partial order alignment☆40Updated 3 weeks ago
- recompute GFA link overlaps☆25Updated 2 years ago
- Wavefront alignment algorithm (WFA) in Golang☆30Updated 3 weeks ago
- Rust wrapper for the next generation (still currently in C++)☆20Updated this week
- ☆16Updated 3 years ago
- convert variation graph alignments to coverage maps over nodes☆21Updated this week
- Extracting paths from assembly graphs☆22Updated 6 months ago
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆23Updated 3 months ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆34Updated 9 months ago
- Differential k-mer analysis☆33Updated 9 months ago
- Long read aligner for cyclic and acyclic pangenome graphs☆35Updated 11 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 7 months ago
- GFA insert into GenomicSQLite☆48Updated 3 years ago
- A long read simulator based on badread idea☆20Updated 2 years ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆44Updated last month
- Optimal sequence-to-graph alignment with recombinations☆25Updated 2 weeks ago
- A k-mer search engine for all Sequence Read Archive public accessions☆18Updated 3 weeks ago
- Optimal distance lower bound k-mer sampling.☆12Updated 5 months ago
- A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring☆14Updated last year
- Statistics and analysis for variation graphs☆31Updated this week
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 4 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Benchmarking pairwise aligners☆36Updated 8 months ago
- Python wrapper for wavefront alignment using WFA2-lib☆35Updated this week