Daniel Franco-Barranco

HPC System Administrator and PhD Candidate

About Me

Hi, my name’s Daniel and I work as half-time HPC System Administrator at Donostia International Physics Center (DIPC), being part of the management and configuration of the biggest cluster of the Basque Country. The other half of my workday I’m a PhD Candidate at the University of the Basque Country, together with the DIPC, advised by Prof. Ignacio Arganda-Carreras and Prof. Arrate Muñoz-Barrutia.

My general research area is in Biomedical image processing and Computer Vision, focused in the design and development of novel Deep Learning solutions for the segmentation of organelles in large Electron microscope images and across microscope types and modalities.




Deep learning based domain adaptation for mitochondria segmentation on EM volumes

Daniel Franco-Barranco, Julio Pastor-Tronch, Aitor Gonzalez-Marfil, Arrate Muñoz-Barrutia, Ignacio Arganda-Carreras

CMPB arXiv BibTeX PDF Sup. material Code



A quantitative biophysical principle to explain the 3D cellular connectivity in curved epithelia

Pedro Gómez-Gálvez, Pablo Vicente-Munuera, Samira Anbari, Antonio Tagua, Carmen Gordillo-Vázquez, Jesús A. Andrés-San Román, Daniel Franco-Barranco, Ana M. Palacios, Antonio Velasco, Carlos Capitán-Agudo, Clara Grima, Valentina Annese, Ignacio Arganda-Carreras, Rafael Robles, Alberto Márquez, Javier Buceta, Luis M. Escudero

bioRxiv BibTeX PDF Code


Book chapter

Building a Bioimage Analysis Workflow using Deep Learning

Estibaliz Gómez-de-Mariscal, Daniel Franco-Barranco, Arrate Muñoz-Barrutia, Ignacio Arganda-Carreras

Book (NA yet) Github



Stable deep neural network architectures for mitochondria segmentation on electron microscopy volumes

Daniel Franco-Barranco, Arrate Muñoz-Barrutia, Ignacio Arganda-Carreras

Neuroinformatics arXiv BibTeX PDF Code



MitoEM Dataset: Large-scale 3D Mitochondria Instance Segmentation from EM Images

Donglai Wei, Zudi Lin, Daniel Franco-Barranco, Nils Wendt, Xingyu Liu, Wenjie Yin, Xin Huang, Aarush Gupta, Won-Dong Jang, Xueying Wang, Ignacio Arganda-Carreras, Jeff W. Lichtman, Hanspeter Pfister

Details BibTeX PDF Code


This project contains a guide to make Semantic Segmentation in Electron Microscopy images using Deep Learning networks such as U-Net (2D/3D), Residual U-Net (2D/3D), Attention based U-Net, FCN or Tiramisu. See docs for more info.

DIPC Control and Report Application in Bash


DCRAB monitors submitted jobs into a scheduler system and creates a real time report based on its execution. The report displays some statistics and charts, such as CPU usage, memory consumed by all the processes, Infiniband statistics etc, which may help to understand the behavior of the job at anytime.


Master's degree in Computational Engineering and Intelligent Systems

University of the Basque Country

2018 - 2019 (1 year)

Bachelor's degree in Computer Engineering

University of the Basque Country

2011 - 2015 (4 years)

A Little More About Me