holtjma / msbwtLinks
A python toolkit for building and querying multi-string BWTs
☆27Updated 8 years ago
Alternatives and similar repositories for msbwt
Users that are interested in msbwt are comparing it to the libraries listed below
Sorting:
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 5 years ago
- Substring index for paths in a graph☆60Updated 2 weeks ago
- C implementation of the Landau-Vishkin algorithm☆35Updated 3 years ago
- De Bruijn graph representation in low memory☆35Updated last year
- Proof-of-concept implementation of GWFA for sequence-to-graph alignment☆55Updated last year
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- Benchmark on adaptive banded algorithm☆20Updated 2 years ago
- Adaptive semi-global banded alignment on string graphs☆67Updated 7 years ago
- GFA parser in Rust☆30Updated 2 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆53Updated last year
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated last week
- Optimized sequence graph implementations for graph genomics☆34Updated last week
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50Updated last year
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated last year
- Pairwise nucleotide alignment benchmark of Rust bindings☆30Updated 2 years ago
- Self-contained, multi-threaded fasta/q parser☆48Updated last year
- Bidirectional WFA (Paper)☆48Updated last year
- Small general purpose library for C and Python with focus on bioinformatics.☆31Updated 3 years ago
- Efficient, parallel compression for terabyte-scale data☆52Updated 2 months ago
- Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"☆63Updated 5 years ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆35Updated 11 months ago
- Population-scale detection of novel sequence insertions☆27Updated 3 years ago
- A succinct colored dBG representation☆12Updated 7 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 3 years ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- genome variation graphs constructed from HLA GRCh38 ALTs☆23Updated 3 years ago
- The Modular Aligner and The Modular SV Caller☆46Updated 2 years ago
- a string to graph aligner☆41Updated 9 years ago
- Incremental construction of FM-index for DNA sequences☆72Updated last year
- Fast & accurate alignment of barcoded short-reads☆32Updated 2 years ago