Top 10 pathogen open source projects

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

Predict plasmids from uncorrected long read data

Assembling the cause of phenotypes and genotypes from NGS data

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

Minimal colorscheme for vim.

Multilocus sequence typing by blast using the schemes from PubMLST

Improve the quality of a denovo assembly by scaffolding and gap filling

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Finds SNP sites from a multi-FASTA alignment file