These plugins extend the functionality of ImageJ.  We have used them extensively for changing file formats to move data from different programs.  Expand the zip files in your ImageJ plugins directory and restart ImageJ.  The IGSRaw plugins allow you to read images generated by the registration suite's "reformat" program.  The Amira and Biorad plugins allow you to save and load in Biorad PIC format (the default input that we have used for the registration software) and in the AmiraMesh format native to Amira. The HandleExtraFileTypes.java plugin source file contains snippets that can be used to call the relevant plugins automatically when an Amira/Biorad/IGSRaw image is opened in ImageJ.  See the ImageJ website documentation for HandleExtraFileTypes for details.