No abstract

Supplementary data are available at Bioinformatics online.

Summary: Reliable deep learning segmentation for microfluidic live-cell imaging requires comprehensive ground truth data. ObiWan-Microbi is a microservice platform combining the strength of state-of-the-art technologies into a unique integrated workflow for data management and efficient ground truth generation for instance segmentation, empowering collaborative semi-automated image annotation in the cloud. Availability and Implementation: ObiWan-Microbi is open-source and available under the MIT license at https://github.com/hip-satomi/ObiWan-Microbi, along documentation and usage examples. Contact: k.noeh@fz-juelich.de Supplementary information: Supplementary data are available online.

Image sequences and Java executables for reproducing the results are available at https://doi.org/10.5281/zenodo.1299526.