RagnarGrootKoerkamp / minimizers
Reference implementations of minimizer schemes to go with the mod-minimizers paper.
☆23Updated this week
Alternatives and similar repositories for minimizers:
Users that are interested in minimizers are comparing it to the libraries listed below
- Iterate over minimizers of a DNA sequence☆27Updated 7 months ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 10 months ago
- ☆17Updated last year
- Wavefront alignment algorithm (WFA) in Golang☆30Updated 3 months ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 8 months ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated this week
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- convert variation graph alignments to coverage maps over nodes☆23Updated 3 weeks ago
- FMSI is a highly memory efficient exact k-mer set based on masked superstrings and the masked Burrows-Wheeler transform☆18Updated 3 weeks ago
- Long-read aligner to pangenome graphs☆26Updated 9 months ago
- Optimal distance lower bound k-mer sampling.☆12Updated 8 months ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆44Updated 4 months ago
- Optimal sequence-to-graph alignment with recombinations☆28Updated this week
- Differential k-mer analysis☆34Updated last year
- ☆13Updated last week
- Fast and exact gap-affine partial order alignment☆47Updated 2 months ago
- ☆14Updated 4 years ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆21Updated last year
- A k-mer search engine for all Sequence Read Archive public accessions☆20Updated 3 months ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated this week
- ☆17Updated 4 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆26Updated 2 years ago
- recompute GFA link overlaps☆25Updated 2 years ago
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆24Updated 2 months ago
- A FASTA/FASTQ format parser library☆20Updated 11 months ago
- A long read simulator based on badread idea☆20Updated 2 years ago
- Fast and cache-efficient full-text pangenome index☆27Updated 3 weeks ago
- Sketch-based surveillance platform☆13Updated 2 months ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆19Updated 3 months ago