Supporting the Open-Source CellProfiler Codebase

Allen Goodman, a Senior Software Engineer at the Broad Institute of MIT and Harvard, working in the lab of Anne Carpenter, will support the existing open-source CellProfiler codebase as part of contributing to collaborative, open-source projects that will benefit the entire bioimaging software ecosystem. Goodman will focus on the most important collaborative projects needed to transition the bioimaging software ecosystem towards the use of deep learning and web-based applications. This will include a web application for evaluating segmentation algorithms that help analyze images, training a deep learning model to robustly detect nuclei across experimental setups, and creating a deep learning-based tool to classify cell types. Goodman will also assess and improve integration between CellProfiler and other key bioimaging software libraries, such as scikit-image.