Posts

Beyond the Pipeline: Advancing Diversity in Challenging Times

Last Friday, I had the chance to join a panel discussion on advancing diversity in challenging times. I was lucky to be joined by two brilliant next-gen scientists, Francince Camacho and Saba Nafees.
May 20, 2025 4 min read

Showcase: My Quick Dive into Pipeline Automation with Seqera AI

Example of automation with miniaml investment but good results
Nov 21, 2024 2 min read

Perspective: Note directed to leadership in Biology, Translational, Chemistry and Technology.

Talk to a computational biologist scientist from the idea not the data
Aug 15, 2024 2 min read

My Learning Experience with Computational Infrastructure in Biotech/Industry

The mistakes and the success of building as fastest as possible the infrastructure
Feb 28, 2024 5 min read

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.
Dec 9, 2023 1 min read

My story with cancer - Jimmy fund walk Oct 1st

My personal experience with cancer and how much work still to do
Last updated on Sep 30, 2023 6 min read

My transition to biotech

My personal experience giving up on academia to bet on industry
Oct 3, 2019 5 min read

How to set up cellranger to make your hpc admin happy

I found myself to force to use cellranger. Meanwhile it helps a lot to run from bcl files to single cell counts matrixes, I discovered that is quite difficult to control many options related to optimization.
Jul 11, 2019 5 min read

How to set up public dataset analysis with bcbio-nextgen

We use bcbio-nextgen for the analysis of sequencing data, mainly, (sc)RNAseq, smallRNAseq, DNASeq and ChIPSeq. It is not rare that we get collaborators who wants to re-analyze public data-set. Inside bcbio, we have bcbio_prepare_samples.
Apr 5, 2019 2 min read

Get colors for your heatmap annotation

This post will show how to configure quickly the colors for the annotation of rows/columns that go on top or on the side of a heatmap. I normally use pheatmap a lot.
Sep 21, 2018 5 min read