Release 1.7 #1134
Merged
Release 1.7 #1134
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
…tational-cell-analytics/micro-sam into automatic-prompt-generator
…tational-cell-analytics/micro-sam into automatic-prompt-generator
…tational-cell-analytics/micro-sam into automatic-prompt-generator
* Use stability score in nms * Update baseline submission scripts and add more datasets * Implement box prompt derivation * Add more datasets * Make pipeline modular and add more datasets * Change prompt type defaults * Update analysis scripts * More updates to posthoc analysis * Better center derivation for point prompts from connected components * Finish up processing data * Add center cropping strategy * Finalize data processing and submission * Minor fixes to SAM2 and SAM3 pipelines * Remove other baselines and add preliminary plotting scripts * Push current code state * Update logit thresholding logic * Update visualization scripts * Implement intersection over min * Push more changes * Push current updates for new grid search * Add box prompt refinement * Add plotting scripts --------- Co-authored-by: anwai98 <[email protected]>
* Refactor APG interface and instance segmentation tests * Working version of tiled auto prompt generation * Refactor instance segmentation output logic * Rename 'get_amg' * Fix automatic segmentation tests * Fix tests * Parallelize operations in apg processing * Minor updates * Make inference for WSIs more efficient WIP * Implement memory efficient mode for APG inference * Debug stitching * Add changes to experiment running for box prompt refinement * Minor script update --------- Co-authored-by: anwai98 <[email protected]>
Implement tiled embedding prediction and segmentation
…tational-cell-analytics/micro-sam into automatic-prompt-generator
Update image preprocessing in _to_image
…tational-cell-analytics/micro-sam into automatic-prompt-generator
…prompt-generator Automatic prompt generator
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.
No description provided.