I currently manage a small (but powerful) team of imaging experts at The Jackson Laboratory, a biomedical research nonprofit. We work on institution-wide imaging support: think more “how do we get tool X to work in our environment” or “how do we teach people the best way to apply deep learning methods to their images”, less “we will develop a custom tool for your specific research project”. Our team is 100% focused on supporting open-source tools.
What does that mean in practice?
A lot of my time is dedicated to OMERO, the imaging data management platform we use. Our team is responsible for keeping it running, drive adoption and make it easier for folks to use it. A (different) lot of my time is dedicated to training people on how to use open-source image analysis/data management tools. There is also a lot of talking to faculty and researchers about what they need, and how we can support them.
Here are some projects I have been working on:
- ezomero is a convenience-layer library to interact with OMERO servers using Python. I am currently the main developer and maintainer.
- omero-cli-transfer is a utility tool for transfering data between OMERO servers, preserving hierarchies, annotations and regions of interest. I am also the main developer and maintainer.
What else do I do?
- I spend a lot of time on forum.image.sc answering people’s questions and learning from other people’s answers.
- I’m part of the Curriculum Advisory Committee for the Image Processing curriculum at The Carpentries and of the BINA Image Informatics Working Group.
- I co-organize the Northeast (US?) Bioimage Analysis Meeting at The Jackson Laboratory.
