esteinig / scrubbyLinks
Host depletion optimised for clinical metagenomic sequencing applications
☆16Updated 10 months ago
Alternatives and similar repositories for scrubby
Users that are interested in scrubby are comparing it to the libraries listed below
Sorting:
- COBS - Compact Bit-Sliced Signature Index (for Genomic k-Mer Data or q-Grams)☆20Updated 10 months ago
- k-mers and the like☆22Updated last week
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆18Updated 6 months ago
- Shared k-mer content between two genomes☆18Updated 2 years ago
- Fast sequence distance estimates☆15Updated last month
- A taxonomic classifier for shotgun metagenomics reads☆11Updated 6 months ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆25Updated last year
- software to identify primers that can distinguish genomes☆20Updated 8 months ago
- Iterate over minimizers of a DNA sequence☆31Updated last year
- Just another minhash implementation.☆12Updated last month
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Updated last year
- Sketch-based surveillance platform☆13Updated 9 months ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆31Updated last week
- Basecalling configuration prediction through FASTQ files☆23Updated 4 months ago
- ☆12Updated 4 months ago
- ☆13Updated last month
- fast, multithreaded sourmash operations: search, compare, and gather.☆24Updated this week
- A Rust library providing fully dynamic sets of k-mers with high locality☆46Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆18Updated 8 months ago
- A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.☆16Updated 3 weeks ago
- Next Index to Query Kmer Intersection☆16Updated 2 years ago
- A SIMD-accelerated library to compute random minimizers☆33Updated this week
- Minimum plain text representation of kmer sets☆16Updated 8 months ago
- ☆17Updated 8 months ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Updated last year
- A long read simulator based on badread idea☆22Updated 3 years ago
- Rapid estimation of phylogenetic trees using sketching☆12Updated 7 months ago
- Embedding-based indexing for compact storage, rapid querying, and curation of bacterial pan-genomes☆12Updated 2 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆43Updated 2 years ago
- codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the…☆13Updated 3 weeks ago