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Administrative data

Olivier Burri

olivier.burri@epfl.ch https://www.epfl.ch/research/facilities/ptbiop/

Nationality: Swiss / Venezuelan

Expertise

Development of bioimage analysis workflows and algorithms to extract quantitative data from microscopy images
Tools & Software:
ImageJ/Fiji, CellProfiler, ilastik, Imaris, Arivis, Matlab, RStudio, IntelliJ, Eclipse, Jupyter Notebooks
Programming languages:
Java, Groovy, JavaScript, TypeScript, PHP, Python, R, C, C ,
Matlab, Bash

Expertise

Development of bioimage analysis workflows and algorithms to extract quantitative data from microscopy images
Tools & Software:
ImageJ/Fiji, CellProfiler, ilastik, Imaris, Arivis, Matlab, RStudio, IntelliJ, Eclipse, Jupyter Notebooks
Programming languages:
Java, Groovy, JavaScript, TypeScript, PHP, Python, R, C, C ,
Matlab, Bash

Mission

  • Provide bioimage analysis tools and training to EPFL collaborators through the BioImaging and Optics Core Facility (BIOP).
  • Assist in teaching courses on image formation, image acquisition and image analysis.
  • Provide support and advice in the development of meaningful biological experiments where the output relies on image analysis.
  • Develop tools and algorithms using open source tools and promote Open Science whenever possible.
  • Disseminate SOPs on FAIR data practices.
  • Maintain the BIOP's IT infrastructure through software maintenance and backup.
  • Assist in the acquisition of new equipments and services related to IT and image analysis (Website, Servers, GPUs, ...)
  • Provide support to the greater imaging community through activity on the Image.sc forum.

Infoscience

Infoscience

Teaching & PhD

MOOC: Image Processing & Analysis for Life Scienti

Since 2017, Romain Guiet, Nicolas Chiaruttini, Arne Seitz and myself have created and maintain the course Image Processing and Analysis for Life Scientists, which is available on EdX and Courseware for EPFL members.
It is a basic image analysis for life scientists with a non-engineering background. The main goal is to teach how to address and solve scientific questions by state of the art image analysis strategies. It is self-paced and open to everyone!