Dear image.sc community,
We are thrilled to announce that BIAFLOWS is ready as a web service/platform to reproducibly deploy BioImage Analysis (BIA) workflows, and continuously benchmark these workflows on annotated image datasets illustrating common BIA problems.
Check out BIAFLOWS online instance: https://biaflows.neubias.org where currently 34 workflows* addressing 15 common BIA problems** are available. Workflows coming from any open source platform can be added as long as they check some minimalistic, documented, requirements (http://biaflows-doc.neubias.org).
We would like BIAFLOWS to be represented on image.sc to provide support to interested users and contributors. We will shortly launch calls for contributions both to developers (integrating workflows) and to image producing scientists (integrating annotated datasets).
Looking forward to being part of image.sc!
Raphaël Marée and Sébastien Tosi,
BIAFLOWS project leaders (NEUBIAS WG5).
*Currently represented workflows: ImageJ macros and scripts, Icy protocols, CellProfiler pipelines, Vaa3D plugins, ilastik pipelines, Octave scripts, Jupyter notebooks, and Python scripts leveraging Scikit-learn and Keras/PyTorch.
**Currently supported BIA problem classes: object detection (2D/3D), object counting (2D/3D), object segmentation (2D/3D), pixel classification (2D/3D), particle tracking (2D/3D), object tracking (2D/3D), filament network tracing (3D), filament tree network tracing (3D), landmark detection (2D/3D).