I was wondering if QuPath is doing some sort of cropping/limitation to the actual relevant image section for mirax file format.
I have some mirax WSIs that do have a size of 272.000 x 294.000 according to OpenSlide and the 3DHistech SDK. QuPath opens these slide files using an OpenSlide-server instance but is only displaying a cropped region of 83.000 x 116.000 (what is more or less the ROI of the tissue). I am creating some annotations manually that I want to process afterwards. But the coordinates of these annotations are useless since they are not global.
Can anyone explain how this works in QuPath and if there is a way to retrieve the global coordinates? Any other workaround?
With other file formats like ndpi or svs I don’t face this issue.
Thanks a lot in advance.