Profiling Cellular Ecosystems at Single-Cell Resolution and at Scale with EcoTyper.Tissues are composed of diverse cell types and cellular states that organize into distinct ecosystems with specialized functions.  EcoTyper is a collection of machine learning tools for the large-scale delineation of cellular ecosystems and their constituent cell states from bulk, single-cell, and spatially resolved gene expression data.  In this chapter, we provide a primer on EcoTyper and demonstrate its use for the discovery and recovery of cell states and ecosystems from healthy and diseased tissue specimens.
EcoTyper