This is an end-to-end workflow that walks through analyzing CosMx® whole transcriptome single-slide dataset – from loading flat files to quality processing to performing pathway analysis – using open-source tools in a blend of R and Python. Here you will find best practices, interactive visualizations to show what effects certain processing parameters have on the data, and applications of cutting-edge tools that have been described in our blog, like HieraType.
Evelyn Metzger 