bingmann / cobsLinks
COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)
☆88Updated 2 years ago
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.☆93Updated last week
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆85Updated last year
- Wavelet tree based on a fixed block boosting technique☆16Updated 4 years ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated 2 years ago
- An optimal space run-length Burrows-Wheeler transform full-text index☆67Updated 2 years ago
- A tool for merging large BWTs☆24Updated 5 years ago
- Implementation of a Backpack Quotient Filter☆13Updated 7 months ago
- Implicit Interval Tree with Interpolation Index☆42Updated 3 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 2 months ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated last year
- modular k-mer count matrix and Bloom filter construction for large read collections☆86Updated last month
- C++ Implementations of sketch data structures with SIMD Parallelism, including Python bindings☆158Updated last year
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆36Updated 3 months ago
- FM-index representation of a de Bruijn graph☆26Updated 8 years ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆36Updated last year
- An experimental tool to find approximate max-cuts in a large graph☆10Updated 4 years ago
- Bit packed vector of integral values☆28Updated last year
- ☆20Updated 5 years ago
- ProbMinHash – A Class of Locality-Sensitive Hash Algorithms for the (Probability) Jaccard Similarity☆44Updated 5 years ago
- BWT Text Indexing Library: a set of tools to work with BWT-based text indexes☆25Updated 3 years ago
- SetSketch: Filling the Gap between MinHash and HyperLogLog☆48Updated 4 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Updated 5 years ago
- Smith-Waterman database searches with inter-sequence SIMD parallelisation☆61Updated 2 years ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Updated 11 months ago
- ☆24Updated 4 years ago
- Parallel Block GZIP☆50Updated 9 years ago
- Refinements of the WFA alignment algorithm with better complexity☆26Updated 3 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Updated 7 years ago
- Practical Dynamic de Bruijn Graphs☆18Updated 5 years ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆57Updated last year