bingmann / cobsLinks
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
☆84Updated last year
Alternatives and similar repositories for cobs
Users that are interested in cobs are comparing it to the libraries listed below
Sorting:
- 📖 🧬 SSHash is a compressed, associative, exact, and weighted dictionary for k-mers.☆88Updated this week
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆81Updated last year
- A tool for merging large BWTs☆26Updated 4 years ago
- BWT Text Indexing Library: a set of tools to work with BWT-based text indexes☆25Updated 3 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆25Updated last year
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated last year
- An optimal space run-length Burrows-Wheeler transform full-text index☆65Updated 2 years ago
- Bit packed vector of integral values☆27Updated 5 months ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆41Updated 5 months ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆84Updated 8 months ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆12Updated 6 years ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Updated 5 years ago
- Implementation of a Backpack Quotient Filter☆12Updated this week
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 4 months ago
- deBGR: An Efficient and Near-Exact Representation of the Weighted de Bruijn Graph☆30Updated 4 years ago
- An alignment-free, reference-free and incremental data structure for colored de Bruijn graph with application to pan-genome indexing.☆44Updated 3 years ago
- SetSketch: Filling the Gap between MinHash and HyperLogLog☆49Updated 3 years ago
- An experimental tool to find approximate max-cuts in a large graph☆11Updated 4 years ago
- Wavelet tree based on a fixed block boosting technique☆16Updated 4 years ago
- Run-length compressed BWT with LZ77 sampled suffix array☆10Updated 3 years ago
- A repository for generating strobemers and evalaution☆78Updated last year
- efficient alignment of strings to partially ordered string graphs☆33Updated 3 years ago
- FM-index representation of a de Bruijn graph☆27Updated 7 years ago
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆54Updated 5 years ago
- Relative data structures based on the BWT☆12Updated 7 years ago
- memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping☆59Updated last month
- BWT-based index for graphs☆71Updated 4 months ago
- External memory suffix array construction using inducing☆11Updated 4 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆52Updated last year
- Fast and cache-efficient full-text pangenome index☆29Updated this week