Data

[H-Q-N]

Data

[ajv012]

SurvPath is not meant for processing WSI. You can use the CLAM toolkit (https://github.com/mahmoodlab/CLAM) to process WSI and store the patch features in a convenient location. SurvPath is meant to be used with H&E stained WSI only.

[H-Q-N]

Thank you very much for your answer. What you mean is that the H&E staining wsi of tcga, as the input of the model, needs to be manually processed into a .pt file using CLAM toolbox. I can't directly use .svs as the input format of the model, right?

[ajv012]

yes, that is correct. WSI (.svs) are too large in size to work with directly, so you need to process them using CLAM (or any other similar toolkit) before you use SurvPath. This is outlined in detail in the README, please refer to that for further questions.