There’s a new marine sample dataset on the BioImage Archive, thanks to Tina Wiegand and her colleagues, part of EMBL’s TREC project. But as Tina explains in the video below, uploading data to the public repository was challenging, due to a diversity of file formats, inconsistent metadata, and more.
Working with EuBI-Bridge, a tool developed by Euro-BioImaging, really helped her with the parallelized conversion of the image collections to OME-Zarr and facilitated the FAIR sharing process. In this short video, Tina explains why EuBI-Bridge was helpful and gives a sneak peek at her new dataset. Check it out!
Image credits: Tina Wiegand, Sophie Baars, Thomas Beavis, Chandni Bhickta, Annemarie Pérez Boerema, Michael Bonadonna, Paulina Cherek, Fabien Chevalier, Johan Decelle, Manon Demulder, Gautam Dey, Omaya Dudin, Eliott Flaum, Serena Flori, Marie Jacobovitz, Caroline Juery, Marine Laporte, Felix Mikus, Kevin Moog, Marine Olivetta, Laurine Planat, Armando Rubio Ramos, Clémence Saint-Donat, Yannick Schwab, Hiral Shah, Gaëlle Toullec, Flora Vincent, Daniel Yee, Aliaksandr Halavatyi, Bugra Oezdemir, Christopher Randolph Rhodes, Charles Girardot, Matej Troják, Kerstin Leberecht, Alexandra Zakieva, Niko Leisch & Rainer Pepperkok (2025). TRaversing European Coastlines (TREC) Live Plankton High-Content Fluorescence Microscopy Dataset. BioStudies, S-BIAD2258. Retrieved from https://www.ebi.ac.uk/biostudies/bioimages/studies/S-BIAD2258
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