muellan / metacacheLinks
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
☆61Updated 2 months ago
Alternatives and similar repositories for metacache
Users that are interested in metacache are comparing it to the libraries listed below
Sorting:
- A repository for generating strobemers and evalaution☆79Updated last year
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆53Updated this week
- modular k-mer count matrix and Bloom filter construction for large read collections☆84Updated 9 months ago
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆65Updated last year
- Pan-Genomic Matching Statistics☆53Updated last year
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆88Updated 4 years ago
- Histosketching Using Little Kmers☆57Updated 2 years ago
- Yet Another Chimeric Read Detector☆80Updated 9 months ago
- A tool for Racon polishing of miniasm assemblies☆77Updated 2 months ago
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆63Updated 6 months ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆51Updated last year
- ☆62Updated last month
- ✏️ Genome assembly polishing & SNV detection☆69Updated last month
- A fast constructor of the compressed de Bruijn graph from many genomes☆41Updated 6 months ago
- Self-contained, multi-threaded fasta/q parser☆45Updated 10 months ago
- Index kmtricks bf matrices☆45Updated 8 months ago
- Scalable long read self-correction and assembly polishing with multiple sequence alignment☆55Updated last year
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆64Updated this week
- ☆30Updated last year
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- Efficient, parallel compression for terabyte-scale data☆48Updated 3 months ago
- K-mer substring space decomposition☆42Updated last year
- Substring index for paths in a graph☆60Updated 3 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 5 months ago
- Bidirectional WFA (Paper)☆47Updated last year
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated last year
- A reimplementation of the WaveFront Alignment algorithm at low memory☆50Updated last year
- Slow5tools is a toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format.☆100Updated last month
- Recentrifuge: robust comparative analysis and contamination removal for metagenomics☆95Updated 3 months ago
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆52Updated 2 weeks ago