Introducing first version of semi-supervised functionality#3
Draft
h-westmacott wants to merge 3 commits intomainfrom
Draft
Introducing first version of semi-supervised functionality#3h-westmacott wants to merge 3 commits intomainfrom
h-westmacott wants to merge 3 commits intomainfrom
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
This code introduces semi-supervised functionality to cellulus. It is designed to run in a similar way to train.py.
A semi_supervised_experiment_config and semi_supervised_train_config can be created, pointing to the datasets for pseudo-labels (output of cellulus), ground-truth-labels (other annotations), and raw images.
semi_supervised_train.py will then train a UNet to predict a stardist representation from your cell images. The pseudo-gt and gt labels are combined, such that GT have precedence over pseudo-GT (though this can be changed manually).
Does not yet include a predict script! this is still being worked on.