Annot2Atlas - Usage

Annot2Atlas converts an image and a set of annotated ROIs into another image, modelled on the input, but with pixel intensities that reflect the ROI annotation.

Every ROI should be annotated with text that can be interpreted as an integer between 0 and 32767. The only characters allowed in the annotation are 0,1,2,3,4,5,6,7,8 and 9. Any ROIs that are not annotated, or that have an invalid annotation, will be assigned a value of 999 in the output image.

The pixel intensity values in the output image reflect the annotation values inside the ROIs.

Running the program without any arguments produces the following output:

Usage: Annot2Atlas image roiFile