Slides are not annotated

[tayyaba69]

In dataset I have XML file which is only for the reference and is not the ground truth. Binary pixel masks is provided as TIF files are the ground truth. That is why there is a difference in label map. Can you suggest any solution to this problem? Thankyou

[ysbecca]

@tayyaba69 Apologies for the extremely delayed response to this. You could either generate the XML file for your pixel masks and use py-wsi out of the box, but it would perhaps be easier to just alter the py-wsi code to read in the pixel masks. Actually, py-wsi reads in the XMLs and generates downsampled (smaller size for faster processing) binary masks, to label image patches.