I am attempting to export scanned H&E style images from Aperio Webscope as Tiff files to conduct measurements on a large volume of nuclei. My desired measurements are: Area, perimeter, min/max diameter, and shape factor, axis ratio, compactness, and similar.
Is there a way to automate this process (I need to analyze approximately 5,000 nuclei)? If so how can I calibrate Image J to identify nuclei properly?
I need my output results in units of um, how can I convert pixels to um in way that is calibrated/scaled to my images?