bhattlab/phanta

Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data

ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes

VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies

TaxTriage is a Nextflow workflow designed to agnostically identify and give confidences of microbial organisms within short- or long-read metagenomic NGS data. This flexible tool was developed with various use-cases of mNGS in mind.

A complete pipeline for metagenomic analysis

Microbiome classification pipeline

Kun-peng: an ultra-fast, low-memory footprint and accurate taxonomy classifier for all