Jean-yves Tinevez
Head Of Image Analysis Core Facility at IcyPro
Paris, Ile-de-France
Summary
👤
Senior🎓
Top SchoolJean-Yves Tinevez is a leader in bioimage analysis with 18 years of experience building and running core facilities at Institut Pasteur and the Max Planck Institute, where he founded and grew image processing teams to support cutting-edge life science research. As Head of the Image Analysis Core Facility and CTO of IcyPro, he combines hands-on microscopy and image-processing engineering with client-facing project delivery and startup experience. He directs a team of research engineers, runs dozens of collaborations per year, and has launched multiple R&D software projects that translate research needs into usable tools. An active open-source contributor, he has made substantive backend contributions to widely used projects like Fiji and OME Bio-Formats, improving core image I/O and processing logic. Trained in physics at École normale supérieure de Lyon and experienced in cell biophysics, he brings quantitative rigor and tooling savvy to biological imaging problems. Less obvious: he pairs deep technical refactoring skills with a strong track record of knowledge transmission, turning complex algorithms into accessible facility services and reusable software.
18 years of coding experience
Foundation courses in Maths Physics Chemistry Physics, Foundation courses in Maths Physics Chemistry Physics at Classe préparatoire, lycée Faidherbe LilleMaster Physique, Master Physique at École normale supérieure de Lyon
French, English, German
Github Skills (12)
javas10
data-handling10
biom10
metadata10
xml-parsing10
image-processing10
java10
meta10
algorithms9
visualizations3
visualization3
3d3
Programming languages (11)
Github contributions (5)
fiji/fiji
Apr 2009 - Apr 2014
A "batteries-included" distribution of ImageJ :battery:
Role in this project:
Back-end Developer
Back-end DeveloperContributions:1462 commits, 10 comments, 1 issue in 5 years
Contributions summary:Jean-yves appears to be focused on developing the underlying logic of the "fiji/fiji" project, as demonstrated by the various Java code changes. These changes involved preparing a rewrite of specialized cursors, modifying existing classes to improve usability and performance, and fixing various bugs in the underlying code. The user's work primarily involved refactoring and improving the internal workings of the image processing library, as seen in the edits to classes like EllipsoidNeighborhood, AbstractSpecialCursor, and other related classes.
batteries-includedbatteryimagejbatteriesdocker
ome/bioformats
Oct 2013 - Nov 2013
Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.
Role in this project:Back-end Developer
Back-end DeveloperContributions:19 commits in 29 days
Contributions summary:Jean-yves primarily focused on developing and refining the `CellVoyagerReader` within the `bioformats` library. Their work involved reading and processing metadata from malformed OME XML files and integrating them into the application. Significant contributions included handling single Z-slice images correctly, addressing issues with multiple wells and areas, and updating the code to utilize OME XML metadata for accurate image data handling. The user further improved the code by removing unused methods, fixing incorrect IDs, and generally improving metadata reading.
gnubammetadatabio-formatscommercial
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