pathogen.vim: manage your runtimepath
Pathogen NGS Documentary
Web app for visualizing pathogen evolution
Swedish pathogens portal
A Go bundle for Vundle or Pathogen
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.
Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, especially SARS-CoV-2
Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation
Antimicrobial Resistance Identification By Assembly
Finds SNP sites from a multi-FASTA alignment file
Takes a VCF and applies annotations from a GFF using SnpEff
OpenABM-Covid19: an agent-based model for modelling the spread of SARS-CoV-2 (coronavirus) and control interventions for the Covid-19 epidemic