This is an old revision of the document!
Analysis of Hyperspectral Microscopy Images Using ImageJ (EDIT IN PROGRESS)
Warnings
Some of the image stacks acquired may be very large in size (multiple gigabytes), ImageJ will load this file completely into the memory. Additionally image calculations will generate new images that will also be loaded into the memory. If too many images are loaded simultaneously it can utilize the maximum memory of the computer at which point the computer may become unresponsive. As such it is a good idea to load the computer's task manager and keep an eye on the utilization of RAM (Random Access Memory) under the performance tab.
Loading Files
To load files into the software you can navigate through the menus (File>Open) and select the image file or Lightfield .spe file.
Alternatively you can choose to drag and drop the file onto the ImageJ main window at which point ImageJ will initialize the file.
File initialization can take a few moments depending upon the file size.