Bioinformatics researcher and software developer specialising in microbial genomics. I build widely used open-source tools, publish peer-reviewed research, and co-host the MicroBinfie podcast. My work is recognised across the bacterial genomics community for its focus on practical, open science.
What's on this site
- Research notes – My technical guides and essays on bioinformatics and microbial genomics, including popular posts on Salmonella serotyping and phylogenetic visualization with R (ggtree)
- MicroBinfie podcast – A searchable catalogue of past episodes. The podcast explores the fast-evolving field of microbial bioinformatics — where computer science meets microbiology — sharing insights, tips, and trends for both newcomers and experts.
- Publications – My peer-reviewed research papers. Searchable, with full PDfs
- Software – Free and open-source tools for genomic analysis I have co-developed
Today's picks
Research Note
Introduction to MLST as it applies to E. coli
4 June 2023
MicroBinfie Podcast
Episode 70: Bacterial Taxonomy: the grand vista is ahead of us
17 December 2021
Publication
The EnteroBase User's Guide, with Case Studies on Salmonella Transmissions, Yersinia Pestis Phylogeny, and Escherichia Core Genomic Diversity
Genome Research (2020)