👋 I'm the director of software engineering at the Harvard Medical School Laboratory of Systems Pharmacology. We do whole-slide IF imaging, especially our own CyCIF multiplexing method. We got into Nextflow to build our mcmicro pipeline for processing this type of image data from individual tiled microscope fields through stitching and registration, segmentation, quantification, and various downstream processing methods. We're currently working on porting our ad hoc Nextflow code to nf-core, including contributing shared modules for all of our key tools. https://labsyspharm.org/ https://mcmicro.org/