My PhD research on plasmid-dependent phages, a rare and fascinating class of viruses that rely on conjugative plasmids. Beyond the intriguing microbiology, it also showcases high-throughput growth curve analysis, and custom comparative genomic visualizations.
sciencepython
Phage sizes vary widely, with genomes spanning several orders of magnitude. I couldn’t find a recent, clear plot to illustrate this, so I made one.
sciencepythondata viz
Panoptes is a great idea for monitoring Snakemake workflows, but it’s missing some critical features. I built a custom branch that helps surface job logs and makes debugging easier, especially when running pipelines on a cluster.
python
A summer internship program in phage discovery! I helped launch the program in 2022, and built the website that hosts protocols and teaching resources.
scienceteaching
A css theme for github.com, that changes icons, diff viewer, and buttons to colorblind-friendly colors. Implemented in Stylus.
fun
Python-generated visualization of Recamán’s sequence, inspired by a Numberphile video. Arcs, loops, and a surprisingly elegant pattern from a simple rule: subtract n if you can, add it if you can’t.
pythonfun
autoRfam is a pipeline that groups ncRNA sequences of unknown function into potential new Rfam families. It was my very first “real” bioinformatics project, built during my internship at EMBL-EBI.
I have a ton of other random projects and little code snippets that need a home.
