txje / c-minhashLinks
Simple and fast MinHash implementation in C with Python wrapper
☆13Updated 4 months ago
Alternatives and similar repositories for c-minhash
Users that are interested in c-minhash are comparing it to the libraries listed below
Sorting:
- A hash map using the BooPHF perfect hash function☆13Updated 9 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated 3 weeks ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated 2 years ago
- Sequence Bloom Trees with All/Some split☆11Updated 7 years ago
- ☆24Updated 3 months ago
- ☆24Updated 4 years ago
- BlastGraph is a new tool for computing intensive approximate pattern matching in a sequence graph or a de-Bruijn graph. Given an oriented…☆12Updated 12 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 4 years ago
- Layout module for raw de novo genome assembly of long uncorrected reads.☆20Updated 4 years ago
- C++ library for analysing and storing large-scale cohorts of sequence variant data☆17Updated 6 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Updated last year
- ☆13Updated 9 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Updated 2 years ago
- Practical Dynamic de Bruijn Graphs☆18Updated 5 years ago
- SAPLING: Suffix Array Piecewise Linear INdex for Genomics☆25Updated 5 years ago
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆35Updated last month
- This repo is deprecated. Please use gfatools instead.☆15Updated 7 years ago
- nimble aligner that will map your reads to the references on a laptop☆11Updated 8 years ago
- Johns Hopkins University student-led genomics paper discussion group☆13Updated 5 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Updated 7 years ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Updated 6 years ago
- Efficient construction of the BWT using string compression☆20Updated 6 months ago
- Pan-genome Seed Index☆20Updated 9 months ago
- ☆18Updated 7 years ago
- Code for the paper Aligning Distant Sequences to Graphs using Long Seed Sketches.☆13Updated 3 years ago
- Next Index to Query Kmer Intersection☆17Updated 2 years ago
- An optimal space run-length Burrows-Wheeler transform full-text index☆27Updated 4 years ago
- An experimental tool to find approximate max-cuts in a large graph☆10Updated 4 years ago
- ☆14Updated 5 years ago