Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical biologists and wet-lab personnel to do metagenomics/viromics analyses themselves, without bioinformatics expertise.

The Soil Virome Analysis Pipeline (SOVAP) is designed to process, analyze, and annotate viromics and metagenomics data using cutting-edge tools, providing valuable insights into the virome and microbial communities found in complex environments, such as soil ecosystems.

Repository for pan-spefic primers designed for tiled full genome sequencing or qPCR of viral pathogens. Pathogens include amongst others Hepatitis E virus, Hepatitis A virus, Poliovirus and SARS-COV-2. Primers were designed with varVAMP.

A novel ML-based binary classifier to tell viral and non-viral long reads apart in metagenomic samples.

2024 Leipzig Summer School Day 5 Viromics

This project investigates the microbial and viral communities, vertebrate biodiversity, and prevalence of antimicrobial resistance (AMR) genes in 12 European wetlands across Germany, France, and Spain

Comparative viromics pipeline designed to profile gut viral communities in neurodysbiosis and control cohorts. Implements de novo MEGAHIT assembly, geNomad prediction, CheckV quality assessment, and Bowtie2 read recruitment to characterize gut bacteriophage signatures in humanized mouse models.

A Nextflow pipeline for the detection, quality assessment, annotation, and classification of bacteriophages from metagenomically assembled contigs

PostgreSQL analytics warehouse integrating de novo viral metagenome assembly, CheckV quality control, and geNomad taxonomic/functional annotations to profile condition-associated bacteriophage populations in an ASD vs. TD fecal microbiota transplant gnotobiotic mouse model (Sharon et al. 2019).

This repository serves as a permanent, public hosting location for the complete, processed datasets used to benchmark and validate the MetaViralyst ecosystem.