I'm Silvia, a PhD in Microbiology specializing in Bioinformatics and Microbial Ecology. I recently defended my thesis on microbial community assembly at the Autonomous University of Madrid (UAM), Spain
- Developing and maintaining bioinformatic workflows for microbial community analysis 🧬
- Integrating tools for functional annotation (e.g. eggNOG-mapper, FunctionInk) 🔎
- Metabolic modeling using FBA-based tools (ReFramed, CarveMe, Smetana, MISO) ⚙️
- Designing reproducible pipelines and simulation tools (dilgrowth package) 🧪
- Studying microbial community assembly through identification of phylogenetic core groups, functional annotation, and metabolic modeling (FBA).
- Managing HPC environments (CBM, CCC-UAM clusters) and workflow optimization using SLURM.
- Programming for automated lab platforms (Opentrons OT-2).
- Collaborating with national and international research teams (Spain 🇪🇸, Norway 🇳🇴, Japan 🇯🇵).
- Supporting researchers in metagenomic and metatranscriptomic data processing.
- Development and integration of open-source bioinformatic tools 🔧 - 📧 [email protected] - 🗣️ You can talk to me in Spanish, English, French, or Japanese, and I can speak a bit of Norwegian.
This package includes command line scripts and standalone R/c++ functions for simulating growth-dilution experiments. These simulations include neutral drift and optionally functional groups with different group fitness.
Based on Goyal et al.'s (2018) method for inferring statistically significant correlations between OTUs.
A few rudimentary functions to generate metabolite graphs from SBML models. Uses ReFramed and one CarveMe function.
Opentrons OT2 robot functions or custom labware definitions that we feel other people might find useful
Este repositorio recoge los scripts desarrollados para automatizar los análisis correspondientes al Trabajo de Fin de Máster "Modelización metabólica de comunidades microbianas estables crecidas con fuentes de carbono y energía únicas y simples" (Máster en Bioinformática y Biología Computacional, Universidad Autónoma de Madrid)
Japanese adaptation of Josh Wardle's Wordle
Last update: February 2026