BIAFLOWS

Jun 1, 2020
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BIAFLOWS is a web platform centralizing Bio Image Analysis (BIA) workflows to automatically extract biological objects annotations from microscopy images. The workflows can be launched online on a predefined set of annotated images illustrating classical BIA problems (e.g. Nuclei segmentation), and the results visualized or quantitatively compared from documented benchmark metrics. To ensure full reproducibility, the workflows are packaged with their execution environments as versioned Docker images compiled from open source code repositories.

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Ulysse Rubens
Ulysse Rubens
Software engineer

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BIAFLOWS: A collaborative framework to reproducibly deploy and benchmark bioimage analysis workflows

Image analysis is currently one of the major hurdles in the bioimaging chain, especially for large datasets. BIAFLOWS seeds the ground …
Ulysse Rubens, Romain Mormont, Lassi Paavolainen, Volker Bäcker, Benjamin Pavie, Leandro A Scholz, Gino Michiels, Martin Maška, Devrim Ünay, Graeme Ball, Renaud Hoyoux, Rémy Vandaele, Ofra Golani, Stefan G Stanciu, Natasa Sladoje, Perrine Paul-Gilloteaux, Raphaël Marée, Sébastien Tosi
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