with my colleague @constantinpape we are trying to create a model for automated cell counting of hight density tissue images with stardist.
I perform the annotations with Qupath and he performs the training using the annotated images.
Now we are at the validation step.
The annotations are performed in a total of 1 channel (Neun) 10 images with the size of 513x513.
I have two questions
in the validation can I use images with different size compared to that used in the training, is there some roles or recommendation about this?
the prediction obtained whit the model we havee is not very good because stardist is predicting always less cells compared to the real number. Maybe the problem in the annotations.
-when I annotated the images I try to use the same intensity level the reason was that I want to set a threshold for my eyes, but what about stardist? How this program see the intensity? Maybe is using a lower intensity and for this is predicting less cells.