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240506 SP24 Course PR #293

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240506 SP24 Course PR #293

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@ycq091044 ycq091044 commented May 8, 2024 •
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Contains the follow PRs, which needs changes:

  1. CS598-DLH Bonus Points PR for Text2MolDataset with text2mol_dataset.py #281 (need to refactor to inherit pyhealth base class, waiting for zhenbang's multi-modality template)
  2. CS598-DLH Added Drug Interaction dataset #284 (need to refactor to inherit pyhealth base class, waiting for zhenbang's multi-modality template)
  3. Develop #285 (x)
  4. CS 598-John Biggan-Added Heart Failure Prediction Task #286
    • check the conversation there to understand label criteria -> Yes "108" is the CCSCM code that relates to ICD-9 428.0 and 428.9 ("congestive heart failure" and "heart failure", respectively).
  5. 598DLH: GPM Dataset contribution #288 (need to refactor to inherit pyhealth base class, waiting for zhenbang's multi-modality template)
  6. Cs598/mimic4 umse #289 (need to check later)
  7. CS598-DLH Bonus Points PR for Drive Dataset #290 (A good PR without change)
  8. added condition recommendation task #292 (all good)
  9. CS598DHL Extra Credit - Added The Automated Cardiac Diagnosis Challenge (ACDC) dataset. #294

darinz and others added 30 commits April 16, 2024 22:52
@darinz
Create text2mol_dataset.py
da38a55
@bjones325
Added Drug Interaction dataset
2cd0b2f
@tamimuiuc
Add files via upload
963eda4 
Sepsis3Dataset is a subclass of BaseEHRDataset specifically tailored for handling the sepsis-3 dataset from the MIMIC-III database as used in the study:
'Predicting 30-days mortality for MIMIC-III patients with sepsis-3: a machine learning approach using XGBoost'. This dataset class handles the loading and basic processing of the dataset which is publicly available at: https://ndownloader.figstatic.com/files/25725075
@tamimuiuc
Add files via upload
fa36fe5
@tamimuiuc
Add files via upload
5975db6
@tamimuiuc
Add files via upload
e3308eb
@tamimuiuc
Add files via upload
9bf99d7
@johnbiggan
Add heart failure prediction task.
afa77b5
@johnbiggan
Update heart_failure_prediction.py
fd45fe6
@mayank-sharma-16
gpm_dataset.py created for GPM dataset
31b69fe
@mayank-sharma-16
added output example and included gpm in __init__
bdccdf4
@mayank-sharma-16
some tidying
16d29c9
mimic4_umse for DL4H
311d9d1
@ixrfish
add drive dataset
3627b85
@ixrfish
revert changes to tuab and tuev
2a9e26a
@ixrfish
newlines
551eb8a
added condition recommendation task
b013531
@ycq091044
Merge pull request #281 from darinz/cs598dlh_text2mol_dataset
9be3827 
CS598-DLH Bonus Points PR for Text2MolDataset with text2mol_dataset.py
@ycq091044
Merge pull request #284 from bjones325/cs598_drug_interaction_dataset
4fa081a 
CS598-DLH Added Drug Interaction dataset
@ycq091044
Merge pull request #285 from tamimuiuc/develop
38eca66 
Develop
@ycq091044
rm some unused files
2f8a64a
@ycq091044
Merge pull request #286 from johnbiggan/jbiggan-hf_task
2a4d97e 
CS 598-John Biggan-Added Heart Failure Prediction Task
@ycq091044
minor
82e6cc9
@ycq091044
add hf prediction task; need to check correctness
f257d71
@ycq091044
Merge branch '240506-sp24-course-pr' into master
c3cb243
@ycq091044
Merge pull request #288 from mayank-sharma-16/master
698fcf2 
598DLH: GPM Dataset contribution
@ycq091044
change default path to pyhealth cache path
a85cf28
@ycq091044
Merge pull request #289 from jhnwu3/CS598/mimic4_umse
c4060b1 
Cs598/mimic4 umse
@ycq091044
add previous generative model notebooks
9e7e6b0
@ycq091044
Merge branch '240506-sp24-course-pr' into irisf.drive_dataset
2ddd2b3
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7 participants
@ycq091044 @darinz @bjones325 @tamimuiuc @johnbiggan @mayank-sharma-16 @ixrfish