muellan / metacacheLinks
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
☆64Updated 6 months ago
Alternatives and similar repositories for metacache
Users that are interested in metacache are comparing it to the libraries listed below
Sorting:
- modular k-mer count matrix and Bloom filter construction for large read collections☆85Updated 3 months ago
- Histosketching Using Little Kmers☆56Updated 2 years ago
- A repository for generating strobemers and evalaution☆79Updated last year
- Dashing 2 is a fast toolkit for k-mer and minimizer encoding, sketching, comparison, and indexing.☆68Updated last year
- A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.☆53Updated this week
- Index kmtricks bf matrices☆45Updated last month
- Squeakr: An Exact and Approximate k -mer Counting System☆85Updated 9 months ago
- Pan-Genomic Matching Statistics☆54Updated last year
- ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…☆102Updated last week
- ⚡️ 🧬 Fulgor is a fast and space-efficient colored de Bruijn graph index.☆55Updated last week
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Updated this week
- Yet Another Chimeric Read Detector☆81Updated last year
- Self-contained, multi-threaded fasta/q parser☆48Updated last year
- ☆62Updated 2 months ago
- Scalable long read self-correction and assembly polishing with multiple sequence alignment☆53Updated last year
- Efficient, parallel compression for terabyte-scale data☆52Updated 2 months ago
- ☆30Updated last year
- Building the compacted de Bruijn graph efficiently from references or reads.☆90Updated 6 months ago
- Efficient phylogenetic tree inference for massive taxonomic datasets☆135Updated 7 months ago
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆54Updated last year
- C implementation of the Landau-Vishkin algorithm☆35Updated 3 years ago
- Bidirectional WFA (Paper)☆48Updated last year
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Updated 6 years ago
- Slow5tools is a toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format.☆101Updated 3 months ago
- online notebooks for a review of genome sketching☆60Updated 6 years ago
- K-mer substring space decomposition☆44Updated 2 months ago
- Fast and compact locality-preserving minimal perfect hashing for k-mer sets.☆43Updated 2 years ago
- Taxonomic classifier for sequencing reads (bulk and single-cell data, short and long read) using FM-index with run-block compressed BWT.☆76Updated this week
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Updated 4 years ago
- Parallel Sequence to Graph Alignment☆36Updated 3 years ago