Many of the plugins listed in the table are supported directly through the HandleExtraFileTypes plugin (bundled with ImageJ). When opening a file, ImageJ first checks whether it can natively handle the format. If not, it looks to see if the proper standalone file reader plugin is installed. I'm wondering if it is possible to call ImageJ from a standalone Python IDE. I want to begin image processing in ImageJ without opening the ImageJ Jython interpreter. I'm not clear if this is possible given the differences between Python & Jython. In this way, ImageJ2 exposes new “seams” which provide extensibility points not available in the standalone ImageJ 1.x project . A second major function of ImageJ Legacy is to provide a wrapping legacy UI: an ImageJ2 UserInterface plugin that reuses the ImageJ 1.x UI, but maintains synchronization between respective data structures.