jltsiren / gbwt
Substring index for paths in a graph
☆59Updated this week
Alternatives and similar repositories for gbwt:
Users that are interested in gbwt are comparing it to the libraries listed below
- PGR-TK: Pangenome Research Tool Kit☆96Updated 9 months ago
- Parallel Sequence to Graph Alignment☆35Updated 2 years ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Updated 7 months ago
- vcfdist: Accurately benchmarking phased variant calls☆79Updated last week
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆52Updated 2 years ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 6 months ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- A reimplementation of the WaveFront Alignment algorithm at low memory☆49Updated 8 months ago
- linearize and simplify variation graphs using blocked partial order alignment☆58Updated 2 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 11 months ago
- Yet Another Chimeric Read Detector☆74Updated 2 months ago
- Graph based multi genome aligner☆46Updated 3 years ago
- genome variation graphs constructed from HLA GRCh38 ALTs☆22Updated 3 years ago
- A C++ header-only library for reading Oxford Nanopore Fast5 files☆53Updated 2 years ago
- alignment to variation graph inducer☆144Updated 3 months ago
- Adaptive semi-global banded alignment on string graphs☆65Updated 6 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 8 months ago
- Genome inference from a population reference graph☆94Updated 2 years ago
- Estimating k-mer coverage histogram of genomics data☆76Updated last year
- A method for variant graph genotyping based on exact alignment of k-mers☆87Updated 5 years ago
- Efficient, parallel compression for terabyte-scale data☆38Updated last week
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- ☆34Updated 4 years ago
- Scalable long read self-correction and assembly polishing with multiple sequence alignment☆55Updated 11 months ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 3 years ago
- Hybrid error correction of long reads using colored de Bruijn graphs☆100Updated 4 months ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago
- GFA insert into GenomicSQLite☆48Updated 3 years ago
- Benchmarking pairwise aligners☆36Updated 10 months ago
- Python bindings for Bifrost with a NetworkX compatible API☆28Updated last year