In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
-
Updated
Feb 17, 2024 - Python
In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
ultrafast genome querying and taxonomic profiling for metagenomic samples by abundance-corrected minhash.
SEER, reimplemented in python 🐍🔮
Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)
A compressed, associative, exact, and weighted dictionary for k-mers.
Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).
a versatile toolkit for k-mers with taxonomic information
A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
Learn interpretable computational phenotyping models from k-merized genomic data
Remove contaminated contigs from genomes using k-mers and taxonomies.
counts k-mers, written in rust
interactive Multi Objective K-mer Analysis
k-mer similarity analysis pipeline
An RNA virus strain-level identification tool for short reads.
Add a description, image, and links to the k-mer topic page so that developers can more easily learn about it.
To associate your repository with the k-mer topic, visit your repo's landing page and select "manage topics."