Tutorial

ImageJ, for those with GUI knowledge but without scripting knowledge, workflow: change LUT, make montage

In this session, we will implement a simple ImageJ macro to segment and analyze the blood vessel network of a subcutaneous tumor. The analysis is fully performed in 3D, and possible strategies to extract statistics of the network geometry and interactively visualize the results are also discussed and implemented.

Aim: Students acquire ImageJ macro programming technique to ease
their work loads with image processing / analysis.

CellProfiler, Counting PLA dots, track swelling organoids

Imaris scripting using Matlab (ImarisXT API trining). Slides, protocols, some scripts. Hands-on