User:Burri

Olivier BURRI


Olivier Burri is a participant of the EMBO practical course Light sheet microscopy 2014.

His work mostly involves the creation of macros and ActionBars for users of the BioImaging & Optics Platform at the Ecole Polytechnique Federale de Lausanne (EPFL) ‎

The work he commonly does has lead him to work with the following tools:


 * ImageJ Macros
 * Java ImageJ Plugins
 * Matlab
 * LabView
 * Python (Not much experience)
 * GIT
 * Redmine
 * PHP / HTML /CSS / JavaScipt

He provides support to users of the facility (Mainly PhDs and Postdocs from the Life Sciences department) in the field of light microscopy. Things he tends to help with involve design of experiment, image acquisition and analysis, quantification and data analysis.

Some Contributions
A simple ActionBar with the shortcuts to the SPIM Registration tools. You can find it under Oli's update site. http://sites.imagej.net/Oburri/

You can see how to Add update sites on the Fiji Wiki

It makes use of the Excellent ActionBar Plugin by Jerome Mutterer:

Project Description
Dr. Romain Guiet, a colleague, has grown spheroids for imaging on the light sheet system. They express GFP on microtubules and H2B-RFP.

Though the samples will not be as big as expected (or alive), we hope to be able to image them in full and in the long run follow their development over time.

The light sheet microscope would help us limit bleaching all the while managing the acquisition of 3D stacks. The challenges lie in sample preparation as well as managing the data generated (channels, time, orientations) and having a fast enough imaging pipeline to analyze the data (Cell tracking).

The samples that I will bring and have available will be fixed and will only need mounting. This limits the amount of possible experiments for the workshop but Oli will be more than happy to join a team and provide image processing help.

Extra Info
I am currently involved in the Fablab Renens/Fablab Chene 20 creation. If you are interested, feel free to have a look at our FaceBook page or website

He often has some Swiss chocolate in his bag, so if you want some and have used all your "3 free items" bonus, feel free to ask him :)