Biography

I am a bioinformatician currently at the IBD lab of Azucena Salas. I use R to gather data and answer questions to provide insights and make a more informed decisions. My academic research interests include data integration (my PhD topic) and functional enrichment.

Besides research in biomedicine I use my skills to make data transparency accessible. To be more effective at this I collaborate with some organizations R Foundation, R Consortium and I created some packages deposited in Bioconductor, CRAN, rOpenSci, rOpenSpain and GitHub.
Outside programming I enjoy hiking, jumping rope and diabolo as hobbies.

Interests

  • Functional enrichment
  • Data integration
  • Improving process

Education

  • MSc in Bioinformatics for Health Science, 2017

    Universitat Pompeu Fabra

  • BSc in Biotechnology, 2015

    Universitat Autònoma de Barcelona

Experience

 
 
 
 
 

Bioinformatician/PostDoc

IDIBAPS

July 2022 – Present Barcelona

Responsibilities include:

  • Analysing RNA-seq and microbiome data (16S)
  • Modelling relation between microbiome and mucosal intestine
  • Building reports
  • Assessing design of sequencing experiments
  • Managing the group server
 
 
 
 
 

PhD student

CIBEREHD

April 2018 – June 2022 Barcelona

Responsibilities include:

  • Analysing RNA-seq and microbiome data (16S)
  • Modelling relation between microbiome and mucosal intestine
  • Building reports
  • Assessing design of sequencing experiments
 
 
 
 
 

Intern

Mind the byte

April 2015 – July 2015 Barcelona
Implement a way to download and update data from public databases.
 
 
 
 
 

Intern

FH Campus Wien

September 2013 – June 2014 Vienna
As a visiting Erasmus student I did an internship where I learned about differential gene expression analysis. Implemented topGO into the analysis pipeline. Analyzed Pichia pastoris

Recent Posts

Mainly entries about R and with code. Other content might be on my blog at b101nfo

Exploring CRAN's files: part 2

Introduction In the first post of the series we briefly explored packages available on CRAN. Now I’ll focus on history of the packages and its size using the following files:
Last updated on Sep 3, 2022 7 min read CRAN, r

Exploring CRAN's files: part 1

Exploration of the CRAN archive: First part about packages published on CRAN
Last updated on Jul 25, 2022 13 min read CRAN, r

Upgrading rtweet to 1.0.2

In this post I will provide some examples of what has changed between rtweet 0.7.0 and rtweet 1.0.2. I hope both the changes and this guide will help all users.
Last updated on Jul 23, 2022 10 min read r

Leadership in open source projects

This is the second part of the previous post about concepts around open source/free software. Since last book, I also read Uncurled which recommended “The Making and maintenance of open source software” (I will short it to MMOSS) and “Producing Open Source Software” (POSS), which provide first hand experiences about how those maintainers handled different projects.
Last updated on Jul 7, 2022 4 min read OSS

Writing a thesis with bookdown

Tips and leasons learned while writing a PhD thesis with bookdown.
Last updated on May 10, 2022 11 min read news
See all posts

Last talks

My talks

Releasing packages

Package development, release and maintenance process based on several other posts and presentations on this blog.
Jan 16, 2022 12:00 AM — Jan 29, 2022 12:00 AM online
slides code

Improving (analysis) process: developing packages

I was invited to give this talk shortly after my talk at useR!2021. I was very nervous because I would like to have such a community on Spain and work together with them.
Nov 11, 2021 12:00 AM — Nov 9, 2021 12:06 AM
slides code video

Workshop: Creating packages

I was invited by Francis Mensha on R-devel slack to give this workshop on April 29th for the R User Group Ghana. First time teaching R stats and remote I expected people to follow the workshop and run the code and then ask questions but I was asked to do it myself.
Oct 20, 2021 12:00 AM
slides code

Packages submission and reviews; how does it work?

Description of the submission process to CRAN
Oct 16, 2021 12:00 AM
slides code video