A general introduction video that provides a high-level overview of the pipeline.
This detailed visual guide takes you through the steps performed by the MCMICRO pipeline as it processes exemplar-002. The guide was developed using the open source Minerva software, developed by the Laboratory of Systems Pharmacology.
This tutorial video walks you through installing Nextflow and MCMICRO, downloading exemplar images, and executing the pipeline on the Google Cloud Platform.
This written guide provides an overview of basic concepts in tissue imaging, including how the data is collected and represented, image format standards, and the mandatory set of initial steps in image processing.