Updated augmentations for histology images #179
Merged
Conversation
This file contains 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
added 8 commits
January 10, 2022 11:45
…ll tests are added or updated
ant0nsc
approved these changes
Jan 11, 2022
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
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Outdated suggestions cannot be applied.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.
Fixed HEDJitter augmentation, the previous version was also jittering the D channel
Removed dependency of StainNormalization on skimage, which makes it also faster
Added GaussianBlur that is faster than the torchvision version
Added rotation by multiples of 90 degrees
Adjusted/added the test for all augmentations.
All the above augmentations are frequently used for histopathology.
Added torchvision to the environment since it is necessary for the augmentations.