OndrejSladky / kmercamelLinks
KmerCamelπ« provides implementations of several algorithms for efficiently representing a set of k-mers as a masked superstring.
β16Updated last week
Alternatives and similar repositories for kmercamel
Users that are interested in kmercamel are comparing it to the libraries listed below
Sorting:
- Reference implementations of minimizer schemes to go with the mod-minimizers paper.β24Updated 2 months ago
- β17Updated 2 years ago
- β13Updated 2 months ago
- Alignment algorithm for short Illumina reads to a de Bruijn graphβ16Updated 6 years ago
- β‘οΈ π§¬ Fulgor is a fast and space-efficient colored de Bruijn graph index.β50Updated last week
- Fast and cache-efficient full-text pangenome indexβ29Updated last week
- ProphAsm β a rapid computation of simplitigs directly from k-mer setsβ26Updated 2 years ago
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transformβ20Updated 5 months ago
- Sketch-based surveillance platformβ13Updated 6 months ago
- Contains the description of a file format to store kmers and associated valuesβ32Updated 2 years ago
- Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)β24Updated 3 months ago
- Differential k-mer analysisβ36Updated last year
- Iterate k-min-mers from a DNA sequence in Rustβ13Updated last year
- AlfaPang builds pangenome graphs without alignments or references.β10Updated 2 weeks ago
- A k-mer search engine for all Sequence Read Archive public accessionsβ29Updated 7 months ago
- MONI: A Pangenomic Index for Finding MEMsβ37Updated 3 months ago
- Fast and exact gap-affine partial order alignmentβ51Updated 2 weeks ago
- RabbitMash: an efficient highly optimized implementation of Mash.β21Updated last year
- A reimplementation of the WaveFront Alignment algorithm at low memoryβ49Updated last year
- Wavefront alignment algorithm (WFA) in Golangβ29Updated 7 months ago
- β17Updated 4 years ago
- Iterate over minimizers of a DNA sequenceβ29Updated 11 months ago
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inferenceβ14Updated 8 months ago
- Code to create a PRG from a Multiple Sequence Alignment fileβ25Updated last week
- β15Updated 4 years ago
- Python wrapper for wavefront alignment using WFA2-libβ35Updated 7 months ago
- Extracting paths from assembly graphsβ23Updated last year
- SAPLING: Suffix Array Piecewise Linear INdex for Genomicsβ25Updated 4 years ago
- A Rust library providing fully dynamic sets of k-mers with high localityβ45Updated 8 months ago
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble highβ¦β13Updated last year