algbio / ggcatLinks
Compacted and colored de Bruijn graph construction and querying
☆84Updated this week
Alternatives and similar repositories for ggcat
Users that are interested in ggcat are comparing it to the libraries listed below
Sorting:
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆51Updated this week
- Fast and exact gap-affine partial order alignment☆52Updated last week
- Fast (host) DNA sequence filtering☆66Updated last week
- Optimal sequence-to-graph alignment with recombinations☆36Updated 4 months ago
- Benchmarking pairwise aligners☆36Updated 5 months ago
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Updated last year
- implicit pangenome graph☆66Updated this week
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆25Updated 2 months ago
- Approximate nearest neighbour search for microbial genomes based on hash metric☆56Updated 3 weeks ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆52Updated 4 months ago
- Split k-mer analysis – version 2☆87Updated 5 months ago
- Bidirectional WFA (Paper)☆46Updated last year
- Iterate over minimizers of a DNA sequence☆31Updated last year
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated last year
- A bit-packed k-mer representation (and relevant utilities) for rust☆48Updated last year
- ☆62Updated last month
- A SIMD-accelerated library to compute random minimizers☆30Updated 3 weeks ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated last month
- ☆48Updated 2 years ago
- Detecting multi-genome synteny using minimizer graph mapping☆79Updated 2 months ago
- GBWT in Rust☆43Updated 3 months ago
- Strain resolver for metagenomics☆76Updated 11 months ago
- A repository for generating strobemers and evalaution☆78Updated last year
- Index kmtricks bf matrices☆45Updated 7 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆74Updated last month
- GFA parser in Rust☆31Updated 2 years ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆45Updated 9 months ago
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆61Updated this week
- ntHash implementation in Rust☆36Updated last year
- strange cross-platform, performance-oriented and interactive pangenome and large graph visualization☆39Updated last month