From R Shiny to Production: How We Built a Clinical Calculator for a Nature Medicine Paper
How we rebuilt PANGEA-SMM's R Shiny prototype into a production React + R Plumber web app — deployed on Netlify and GCP — for a Nature Medicine publication.
Posts
Thoughts on bioinformatics, data visualization, computational biology, and life.
2026
What the Cancer Data Isn't Telling You
Cancer charts show similar numbers for colon and breast cancer. But adding one variable—sex—reveals a completely different story about who is actually affected.
Multi-Lab Genomics Data Sharing with IGV, S3, and GitHub Actions
How to build collaborative research infrastructure using IGV, format conversion, and GitHub Actions automation—without a dedicated development team.
Why I Built My Own Running Dashboard
Fitness apps show weekly summaries but miss the real story. I built a dashboard to track months of running data and discovered what actually drives progress.
Systematic Paper Reviews with Claude Custom Commands
Custom AI commands ensure consistent scientific paper reviews. Learn to automate any repeated workflow while maintaining quality and thoroughness through systematic evaluation.
Bringing IGV webapp to Your Cloud Workspace in Seqera
Run IGV directly in your cloud workspace with automatic track discovery. Eliminate downloads and view genomic data where it lives. Open source proof of concept for Seqera Platform users.
What Your Running Watch Isn't Telling You About Cadence
Garmin's cadence color zones are percentile rankings, not personal optimization. Here's what those orange and red zones actually mean—and when you should worry.
2025
2024
Showcase: My Quick Dive into Pipeline Automation with Seqera AI
Example of automation with miniaml investment but good results
Perspective: Note directed to leadership in Biology, Translational, Chemistry and Technology.
Talk to a computational biologist scientist from the idea not the data
My Learning Experience with Computational Infrastructure in Biotech/Industry
The mistakes and the success of building as fastest as possible the infrastructure
2023
3D-printer WALL-E toilet paper holder
Finally tired of the broken TP holder and how to make a trip to Home Depot a 2 months project.
My story with cancer - Jimmy fund walk Oct 1st
My personal experience with cancer and how much work still to do
2019
My transition to biotech
My personal experience giving up on academia to bet on industry