OndrejSladky / kmercamel
KmerCamel🐫 provides implementations of several algorithms for efficiently representing a set of k-mers as a masked superstring.
☆13Updated 3 weeks ago
Related projects ⓘ
Alternatives and complementary repositories for kmercamel
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆44Updated this week
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆22Updated 2 weeks ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆26Updated last year
- Iterate over minimizers of a DNA sequence☆26Updated 4 months ago
- convert variation graph alignments to coverage maps over nodes☆21Updated last week
- A k-mer search engine for all Sequence Read Archive public accessions☆18Updated 3 weeks ago
- ☆15Updated 4 years ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Differential k-mer analysis☆33Updated 9 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated 7 months ago
- ☆13Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆22Updated 7 months ago
- ☆21Updated last month
- Python implementation of barrnap (Bacterial ribosomal RNA predictor)☆14Updated 2 months ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆21Updated last year
- recompute GFA link overlaps☆25Updated 2 years ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆16Updated this week
- A Rust library providing fully dynamic sets of k-mers with high locality☆44Updated last month
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆25Updated 7 months ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆34Updated 9 months ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆16Updated 5 years ago
- Next Index to Query Kmer Intersection☆16Updated last year
- A long read simulator based on badread idea☆20Updated 2 years ago
- Rust wrapper for the next generation (still currently in C++)☆20Updated this week
- Wavefront alignment algorithm (WFA) in Golang☆30Updated 3 weeks ago
- Minimum plain text representation of kmer sets☆17Updated 2 months ago
- Extracting paths from assembly graphs☆22Updated 6 months ago
- Python wrapper for wavefront alignment using WFA2-lib☆35Updated this week
- JTK -- a regional diploid genome assembler☆23Updated last month
- Singular Genomics Demultiplexing Tool☆16Updated 8 months ago