Hello!
I'm Edmund Miller, a PhD candidate with a broad range of interests, primarily in Functional Genomics. I got into bioinformatics after realizing I didn't have golden hands at the bench during undergrad.
That taste of programming got me dabbling in writing smart contracts and web apps. Through my research experience I acquired a taste for processing data with reproducible, high-throughput workflows.
I saw the light in March 2020 when I found nf-core and tossed aside the reptilian workflow manager for Nextflow. I love a good crossover episode of technologies and I'm always trying to push the envelope.
Start here
If you're here for bioinformatics tooling, reproducible workflows, or Emacs-shaped developer ergonomics, these are the best next steps.
Posts
How I turned a Jupyter notebook into a full-fledged Python package for UpSet plots
nf-core containers automation: how it'll all work behind the curtain
What Seqera Containers is and why we want to move to it.
How to adopt pixi on an HPC cluster near you. Simplify your bioinformatics workflow today, with Pixi!
Learn how to set up snakefmt, the code formatter for Snakemake, in Doom Emacs using the Apheleia package. This post covers installing snakefmt with Nix, configuring it in Doom Emacs, and provides an overview of how Apheleia aims to simplify formatting code across languages in Emacs.
How I hack on Nextflow scripts using Emacs
What's the move for something that gives you feedback and isn't creepy
The beauty of Astro is it's like the Nextflow of web frameworks
Because gpg 2.4.1 borked Emacs's EasyPG, it just hangs on saving.
Or is it like v5 at this point?