Methods are disclosed for analyzing representations of one or more in situ structures in the body of a subject (e.g., a human subject or other animal subject) to glean information about the health of the subject. Methods are disclosed for diagnosing, staging, grading, and monitoring diseases. Methods also are disclosed for targeting treatments and screening, validating therapies based on the analysis of in situ patters (e.g., individual structural features or distributions), and monitoring the effectiveness of therapies.
