jeizenga / wfalm
Refinements of the WFA alignment algorithm with better complexity
☆26Updated 2 years ago
Related projects ⓘ
Alternatives and complementary repositories for wfalm
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 4 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 5 months ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆43Updated this week
- Benchmarking pairwise aligners☆36Updated 7 months ago
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.☆22Updated this week
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- C implementation of the Landau-Vishkin algorithm☆35Updated 2 years ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆43Updated last month
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 5 months ago
- Parallel Sequence to Graph Alignment☆35Updated last year
- ☆17Updated last year
- Bidirectional WFA (Paper)☆41Updated 5 months ago
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆56Updated 5 months ago
- genome variation graphs constructed from HLA GRCh38 ALTs☆22Updated 2 years ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Updated 4 months ago
- Space-efficient pseudoalignment with a colored de Bruijn graph☆50Updated last month
- Optimized sequence graph implementations for graph genomics☆33Updated last week
- ☆28Updated last year
- Pairwise nucleotide alignment benchmark of Rust bindings☆31Updated last year
- convert variation graph alignments to coverage maps over nodes☆21Updated this week
- Optimal distance lower bound k-mer sampling.☆12Updated 4 months ago
- ☆25Updated 3 years ago
- Fast and exact gap-affine partial order alignment☆40Updated last week
- GFA insert into GenomicSQLite☆48Updated 3 years ago
- Iterate over minimizers of a DNA sequence☆26Updated 3 months ago
- Rust wrapper for the next generation (still currently in C++)☆20Updated last week
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆51Updated 2 years ago
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)☆23Updated 2 months ago
- Contains the description of a file format to store kmers and associated values☆31Updated 2 years ago