FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

TAXnomic Profile Aggregation and STAndardisation

Accurate, resource-frugal and deterministic DNA sequence classifier.

Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets

This repository contains all CWL descriptions of the MGnify pipeline version 5.0.

🐴 CLinically Okay Metagenomic Pipeline 🐴

Genestrip - Efficient read classification, filtering and k-mer counting for selected groups of species

XGBoost implementation for bacteria family identification

subset and spaced seed design tool

Accurate taxonomic classification and abundance profiling using locality-sensitive hashing.

discover-virome: identify and quantify viruses from metagenomic assemblies

Code associated with Werbin et al. 2022, F1000 Research

A selection of databases for Genestrip

The Genome Taxonomy Network for assigning microbial taxonomy to DNA sequences

The impact of transitive annotation on the training of taxonomic classifiers

Contains all the code and data related to the CS6024 - Algorithmic Approaches to Computational Biology in the topic: Disease detection using metagenomic dataset