algbio / themistoLinks
Space-efficient pseudoalignment with a colored de Bruijn graph
☆52Updated 3 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.☆50Updated last week
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆24Updated 2 months ago
- Fast and exact gap-affine partial order alignment☆51Updated 2 weeks ago
- ☆17Updated 2 years ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated last week
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆24Updated 3 months ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆45Updated 8 months ago
- Iterate over minimizers of a DNA sequence☆29Updated 11 months ago
- Wavefront alignment algorithm (WFA) in Golang☆29Updated 7 months ago
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆16Updated 6 years ago
- GBWT in Rust☆43Updated 2 months ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆64Updated last year
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated 3 weeks ago
- Index kmtricks bf matrices☆44Updated 6 months ago
- Benchmarking pairwise aligners☆36Updated 4 months ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆35Updated last year
- De Bruijn graph representation in low memory☆36Updated 11 months ago
- Iterate k-min-mers from a DNA sequence in Rust☆13Updated last year
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inference☆14Updated 8 months ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆20Updated 5 months ago
- ☆25Updated 4 years ago
- mGEMS Genomic epidemiology with mixed samples☆16Updated 9 months ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 3 years ago
- ☆13Updated 2 months ago
- Pan-Genomic Matching Statistics☆52Updated last year
- A k-mer search engine for all Sequence Read Archive public accessions☆29Updated 7 months ago
- ☆28Updated 2 months ago