algbio / themistoLinks
Space-efficient pseudoalignment with a colored de Bruijn graph
☆52Updated 10 months ago
Alternatives and similar repositories for themisto
Users that are interested in themisto are comparing it to the libraries listed below
Sorting:
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆59Updated last month
- Contains the description of a file format to store kmers and associated values☆34Updated 3 years ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆46Updated last week
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆28Updated 9 months ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆70Updated last year
- Index kmtricks bf matrices☆46Updated last month
- URMAP ultra-fast read mapper☆38Updated 5 years ago
- De Bruijn graph representation in low memory☆35Updated last year
- Iterate over minimizers of a DNA sequence☆31Updated last year
- Fast and exact gap-affine partial order alignment☆57Updated 2 months ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 4 months ago
- Wavefront alignment algorithm (WFA) in Golang☆32Updated 6 months ago
- ☆24Updated 4 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Updated 2 years ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆23Updated 2 months ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50Updated last year
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37Updated 7 months ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated last year
- GBWT-based handle graph☆31Updated this week
- Pan-Genomic Matching Statistics☆55Updated last year
- ☆16Updated 2 years ago
- Efficient, parallel compression for terabyte-scale data☆56Updated 4 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated last year
- ☆24Updated 5 months ago
- REINDEER REad Index for abuNDancE quERy☆56Updated 6 months ago
- Next Index to Query Kmer Intersection☆17Updated 2 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 2 months ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago