Alejandro Bernabeu

bioinformatics engineer

I develop Python tools, NGS workflows and web platforms for genomic surveillance — connecting biological data with reliable software.

▸ working on RELECOV & IMPaCT

pythonnextflowdjangolinuxdockerslurm

Orihuela, Spain · remote opportunities · English C1

explore my work ↓CV · English ↓let's connect ↗

genomic data meets software engineeringpython / nextflow / web

$ ls projects/

all repos ↗

selected work

Explore my projects: relecov-tools, relecov-platform, impact-tools, and APADAC.

$ cat experience.log

Bioinformatics Analyst · Genomic Workflows & Software

Oct 2024 — present

Instituto de Salud Carlos III · RELECOV · CIBER since Jul 2025

Develop, run and troubleshoot viral and bacterial NGS workflows with Nextflow/nf-core, IRMA and Slurm. Build Python tools and Django platforms for metadata validation, analysis orchestration and genomic surveillance.

Improve data ingestion and query performance through bulk operations, transactions, indexes and server-side processing. Develop clinical-data APIs and contribute to secure genomic-data infrastructure with LocalEGA/FEGA.

Computational Biology Intern · Protein Modelling

Jan — Jun 2024

Centro de Investigaciones Biológicas Margarita Salas · CSIC · Madrid

Developed Python workflows for molecular modelling with AlphaFold2/3 and PyRosetta: input preparation, mutation simulation and structural analysis against confidence metrics and experimental evidence.

Python Developer Intern · Genomic Data Analysis

Jan 2022 — Jul 2023

Instituto de Biología Molecular y Celular de Plantas · Valencia

Built Python command-line tools with pandas and NumPy for genomic dataset filtering, feature selection, statistical analysis and structured exports. Automated reporting and implemented information-theory metrics.

$ git log --contributions

all PRs ↗

Selected contributions to shared bioinformatics tools.

buisciii-tools

BU-ISCIII

More reliable analysis workflows: installation fixes, pipeline templates and consistent metadata.

installation & bacass ↗report dates ↗

viralrecon

nf-core

Standardizing variant annotation by replacing the local SnpEff module with its nf-core counterpart.

SnpEff module ↗

bacass

nf-core

Extending bacterial assembly with MEGAHIT and automatic assembly-type detection for mixed samplesheets.

MEGAHIT integration ↗assembly detection ↗

$ cat stack.yml

software: Python · Django / DRF · FastAPI · REST APIs
workflows: Nextflow · nf-core · IRMA · Slurm · Linux/HPC
quality & delivery: nf-test · automated testing · GitHub Actions · code review
reproducibility: Docker · Podman · micromamba / Conda · Git
data: PostgreSQL · MySQL / MariaDB · pandas · NumPy · JSON Schema
web: Next.js · TypeScript · Tailwind CSS · content management

$ cat about.md

I trained in biotechnology and computational biology, and now work where biological analysis meets software engineering: pipelines, command-line tools, APIs and web platforms used in public-health research.

My background spans genomic surveillance, clinical data services and protein modelling. Alongside that work, I designed, developed and deployed the APADAC website for the animal shelter in Callosa de Segura.

MSc Computational Biology Universidad Politécnica de Madrid

BSc Biotechnology Universitat Politècnica de València

Away from the keyboard, I'm usually cycling, running or training for triathlon.

▸ based in Orihuela, Spain · English C1

$ cat contact.txt

to:aberdur7@gmail.com

Working on genomic data, pipelines or Python software?

I'm interested in remote bioinformatics and software engineering opportunities.

email me ↗LinkedIn ↗GitHub ↗CV · English ↓

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