splatlab / debgr
deBGR: An Efficient and Near-Exact Representation of the Weighted de Bruijn Graph
☆30Updated 4 years ago
Alternatives and similar repositories for debgr:
Users that are interested in debgr are comparing it to the libraries listed below
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Updated 10 months ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆40Updated 2 weeks ago
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 3 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated 8 months ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- An integrated high performance bioinformatics toolkit☆23Updated 5 years ago
- Substring index for paths in a graph☆59Updated 2 weeks ago
- Library for the Handle Graph abstraction☆23Updated 2 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated last year
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated 11 months ago
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆54Updated 5 years ago
- utilities for indexing and sequence extraction from FASTA files☆59Updated 3 years ago
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Updated 3 years ago
- Small general purpose library for C and Python with focus on bioinformatics.☆29Updated 2 years ago
- GBWT-based handle graph☆31Updated last week
- Histosketching Using Little Kmers☆55Updated last year
- ☆28Updated last year
- Classify sequencing reads using MinHash.☆48Updated 4 years ago
- Implicit Interval Tree with Interpolation Index☆41Updated 2 years ago
- Python bindings to minimap2☆16Updated 7 years ago
- Enhanced Artificial Genome Engine: next generation sequencing reads simulator☆32Updated 4 years ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆21Updated 4 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 2 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 2 years ago
- Pan-genome Seed Index☆20Updated 11 months ago
- Fast calculations of linkage-disequilibrium in large-scale human cohorts☆42Updated 5 years ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆48Updated 7 months ago
- Efficient, parallel compression for terabyte-scale data☆39Updated last month