Code

DROID-MVP and DROID-RV#578

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lucidtronix merged 106 commits intomasterbroadinstitute/ml4h:masterfrom mvpbroadinstitute/ml4h:mvpCopy head branch name to clipboardDec 20, 2024

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Commits

Commits on Jan 13, 2023

• Git LFS for ingest executables (#506)

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• Update README.md

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Commits on Jan 16, 2023

• Update README.md

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• Update README.md

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Commits on Jan 17, 2023

• Update README.md

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• Update README.md

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• Update DATA_MODELING_TESTS.md

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Commits on Jan 25, 2023

• Push to GitHub container registry GHCR (#507)

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Commits on Feb 27, 2023

• Update README.md

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• Add dropfuse models (#511)

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Commits on Apr 10, 2023

• ECG Autoencoder PheWAS in the Model Zoo (#514)

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• fix ECG PheWAS QQ-plot

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• Update README.md

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Commits on Apr 28, 2023

• Update README.md

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Commits on Jun 6, 2023

• latent space bias functions moved into exploration file and notebook … (#517)

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Commits on Jul 13, 2023

• Update README.md

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Commits on Jul 16, 2023

• DROID Release [In Progress] (#526)

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Commits on Jul 17, 2023

• DROID encoders

  

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Commits on Jul 27, 2023

• .lfsconfig with url (#531)

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Commits on Aug 17, 2023

• Hypertension classification from ECG (#536)

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Commits on Aug 31, 2023

• Fix bugs in readme (#538)

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Commits on Sep 1, 2023

• generalizing echo training script

  

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• generalizing echo training script

  

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• echo training

  

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• echo training

  

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Commits on Sep 14, 2023

• fix import

  

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• fix import

  

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• save wide_df_selected

  

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• save wide_df_selected

  

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• change patience=3

  

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• change patience=3

  

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• fix output dir bug

  

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• fix output dir bug

  

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Commits on Oct 5, 2023

• Updating DROID to allow simultaneous regression and classification training (without inference code for now - still working out some bugs)

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• Updating DROID to allow simultaneous regression and classification training (without inference code for now - still working out some bugs)

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Commits on Oct 6, 2023

• Updating DROID to allow simultaneous regression and classification training (fixed a few logging messages in train file and updated inference file to support classification and to check for mismatc…

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• Updating DROID to allow simultaneous regression and classification training (fixed a few logging messages in train file and updated inference file to support classification and to check for mismatc…

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• Updating DROID to allow simultaneous regression and classification training (fixed a few bugs for running only classification tasks).

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• Updating DROID to allow simultaneous regression and classification training (fixed a few bugs for running only classification tasks).

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Commits on Oct 11, 2023

• Changed warnings about 'output_labels_types' to raised type errors (for regression and classification adaptation)

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• Changed warnings about 'output_labels_types' to raised type errors (for regression and classification adaptation)

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Commits on Oct 19, 2023

• Adding new flags (early stopping and loss weights) and removing the need for 'output_signature' flag, allowing fine-tuning with classification heads as well and fixing scaling issues with text data…

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• Adding new flags (early stopping and loss weights) and removing the need for 'output_signature' flag, allowing fine-tuning with classification heads as well and fixing scaling issues with text data…

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• Using saved model information for loading the checkpoint model and removing the need for specifying 'output_labels'

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• Using saved model information for loading the checkpoint model and removing the need for specifying 'output_labels'

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• Changing the output_labels, selected_views, selected_doppler, selected_quality and selected_canonical flags to optional and loading information from saved model_params.json file if they are not spe…

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• Changing the output_labels, selected_views, selected_doppler, selected_quality and selected_canonical flags to optional and loading information from saved model_params.json file if they are not spe…

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Commits on Oct 24, 2023

• Fixing bug that occurs when fine-tuning with a subset of the classification labels (the code now uses class categories of saved model if the new data has a subset of these categories).

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• Fixing bug that occurs when fine-tuning with a subset of the classification labels (the code now uses class categories of saved model if the new data has a subset of these categories).

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Commits on Nov 7, 2023

• autotune prefetch, fix inference classification bug

  

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• autotune prefetch, fix inference classification bug

  

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Commits on Nov 10, 2023

• save wide_df_selected during inference; fix cls_pred bug

  

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• save wide_df_selected during inference; fix cls_pred bug

  

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• randomize start frame option

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• randomize start frame option

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• fix len

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• fix len

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  846f917

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• fix

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  1f98143

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• fix

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• fix

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• fix

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Commits on Nov 14, 2023

• add sampling ratio arg;

  

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• add sampling ratio arg;

  

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• randomize start_frame and sampling ratio options

  

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• randomize start_frame and sampling ratio options

  

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Commits on Nov 19, 2023

• add randomize start frame option and AUC/AUPRC metrics

  

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• add randomize start frame option and AUC/AUPRC metrics

  

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Commits on Nov 20, 2023

• fix randomize start frame

  

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• fix randomize start frame

  

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Commits on May 29, 2024

• add wandb

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• add wandb

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Commits on May 31, 2024

• fix start_frame argument

  

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• fix start_frame argument

  

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Commits on Jun 11, 2024

• fix prefetch, start_frame

  

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• fix prefetch, start_frame

  

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• fix prefetch, wide_selected

  

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• fix prefetch, wide_selected

  

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Commits on Jun 25, 2024

• remove wandb,

  

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Commits on Jul 11, 2024

• remove autotune

  

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• Merge branch 'mvp' of https://github.com/broadinstitute/ml4h into mvp

  

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Commits on Dec 13, 2024

• add droid-mvp to model zoo

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• fix

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• fix

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Commits on Dec 14, 2024

• updates

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• Merge remote-tracking branch 'refs/remotes/origin/mvp' into mvp

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• add DROID-RV

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• fix import

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• fix

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• fix

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• updates

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Commits on Dec 17, 2024

• pre-merge

  

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• remove MVP specific code

  

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• remove MVP specific code

  

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• fix bug introduced by removing MVP specific code

  

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• revert to random example video

  

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Commits on Dec 19, 2024

• Merge branch 'master' into mvp

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