pathogens

2019 Wuhan Coronavirus data (COVID-19 / 2019-nCoV)

Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding

A pipeline to identify pathogenic microorganisms from scRNA-seq raw data.

Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data

Materials and presentation for the 2023 ISB Microbiome course.

The Visualization Multitool for Molecular Epidemiology and Bioinformatics

Model to simulate the population dynamics of four Aedes mosquito species.

Systematic assessment of the impacts of climate change on human pathogenic diseases

This is APRANK, an Antigenic Protein and Peptide Ranker.

Code repository for the publication: "Whole-genome sequencing of Schistosoma mansoni reveals extensive diversity with limited selection despite mass drug administration"

PathoGFAIR: Galaxy FAIR Workflows for Pathogen Detection and Samples Comparison

Curated data and source articles for microbial strains (Strain Tagger) and human microbial pathogens (Pathogen Identifier) datasets. Over 3,500 tagged entities from hundreds of full-length articles.

Multiplexed SSR marker analysis of Diplocarpon coronariae reveals clonality within samples from Middle Europe and genetic distance from Asian and North American isolates

Tracking the movement of cereal blast caused by Pyricularia

Untangling the pea root rot complex leads to the identification of microbial markers for plant health

Hugo pathogens portal theme

Course on bioinformatics (linux intro + DNA sequencing pipeline) for the Fighting Malaria Across Borders training programme by the Institute of Tropical Medicine and VLIR-UOS (Belgium)

Code repository for the manuscript: Extensive transmission and variation in a functional receptor for praziquantel resistance in endemic Schistosoma mansoni

PathoPore - Longer Sequences and NextFlow Faster Analysis

🇨🇭🦠 Service for pathogens and threats identification in hospital environments - SOPHiA Genetics