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Oufattole
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meds-torch
MIT License
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Clean up docstrings and add doctests where appropriate
#87
mmcdermott
opened
1 month ago
1
Clean up and improve the getitem code path for subject data
#86
mmcdermott
opened
1 month ago
0
Removed references to unused event stream collate type.
#85
mmcdermott
closed
1 month ago
2
This line is wrong if collate type is not event stream because start is reset to zero, when that isn't what the target for this should be.
#84
mmcdermott
closed
1 month ago
1
Updates the code to use the latest syntax and updates to NRT.
#83
mmcdermott
closed
1 month ago
1
Updates the basic syntax to use the newest version of NRT
#82
mmcdermott
closed
1 month ago
1
Remove the event stream specific code as nothing is using that for now.
#81
mmcdermott
closed
1 month ago
0
Tests take too long
#80
mmcdermott
opened
1 month ago
0
General MEDS dataset may have patient splits stored separately
#79
Oufattole
opened
1 month ago
0
Benchmarking
#78
Oufattole
opened
1 month ago
0
Add processing of meds-transform data to the integration tests
#77
Oufattole
opened
1 month ago
1
Simplify the reading of the schema files to avoid double reading the parquet files.
#76
mmcdermott
closed
1 month ago
1
Simplify the task processing logic and task dataframe expectations to reflect a purely single-task structure with the meds label schema guaranteed.
#75
mmcdermott
closed
1 month ago
0
Improve and simplify the logic around reading the schema parquet files.
#74
mmcdermott
closed
1 month ago
0
Uses NRT syntax fully and updates to the latest version
#73
mmcdermott
closed
1 month ago
0
Should look into using 1D tensors with offsets instead of padding at all.
#72
mmcdermott
opened
1 month ago
0
We need to handle some way of not densifying the 4th dimension (text or ecgs for example) as that will be extremely sparse.
#71
mmcdermott
closed
2 weeks ago
1
Use JNRTs with their built in logic (e.g., slicing, flattening, vstacking, appending, and to-dense)
#70
mmcdermott
closed
1 month ago
0
A partial removal of task code that is unnecessary with the label schema
#69
mmcdermott
closed
1 month ago
1
remove `get_task_info`, as we assume we are always doing binary classification. You should remove task_info related logic and errors from `load_subject` too.
#68
mmcdermott
closed
1 month ago
0
Significantly reduces the complexity, code burden, and usability of the dataset class
#67
mmcdermott
closed
3 weeks ago
3
Removes code to filter to subsets.
#66
mmcdermott
closed
1 month ago
1
Deletes set inter event time stats stuff.
#65
mmcdermott
closed
1 month ago
1
Removes min seq length filtering.
#64
mmcdermott
closed
1 month ago
1
Remove `filter_to_min_seq_len`, we assume meds-transform handles this
#63
mmcdermott
closed
1 month ago
0
remove `filter_to_subset`, as this is supported in pytorch lightning
#62
mmcdermott
closed
1 month ago
0
Delete `set_inter_event_timestamps`
#61
mmcdermott
closed
1 month ago
0
Syntax should be updated to support NRT > 0.0.6
#60
mmcdermott
closed
1 month ago
0
Froze the version of NRT to fix test failures for now.
#59
mmcdermott
closed
1 month ago
1
Tests are failing because NRT syntax is for an older version
#58
mmcdermott
closed
1 month ago
0
Removed all references to text_code
#57
mmcdermott
closed
1 month ago
2
Remove all aspects of text tokenization from the dataset class
#56
mmcdermott
closed
1 month ago
0
Dataset API and Configuration
#55
mmcdermott
opened
1 month ago
7
Complete synthetic testing data
#54
Oufattole
opened
1 month ago
0
Add load_subject_dynamic_data to PyTorch Dataset class
#53
payalchandak
closed
1 month ago
3
Freeze pre-commit version due to docformatter error
#52
mmcdermott
closed
1 month ago
2
Frozen reps kept in memory
#51
teyaberg
opened
1 month ago
0
Update the Project description
#50
Oufattole
opened
2 months ago
0
Dev
#49
Oufattole
closed
2 months ago
2
Fairness Evaluation
#48
Oufattole
opened
2 months ago
6
Improve Pretrained Model Loading for Fine-tuning
#47
Oufattole
opened
2 months ago
0
Transfer Learning and Multiseed support with ray tune along with an inductive experiments tutorial
#46
Oufattole
closed
2 months ago
2
Implement time delta normalization in set_inter_event_time_stats
#45
Oufattole
opened
2 months ago
0
Investigate and resolve performance bottleneck
#44
Oufattole
opened
2 months ago
1
Refine input validation for predefined workflows
#43
Oufattole
opened
2 months ago
0
Remove duplicate Ray Tune checkpoints in common directory
#42
Oufattole
opened
2 months ago
0
Resolving hydra ${now:...} syntax when tuning not working.
#41
Oufattole
closed
3 weeks ago
1
Tuning fix
#40
Oufattole
closed
2 months ago
2
Model Performance is Suboptimal
#39
Oufattole
opened
2 months ago
1
Dev
#38
Oufattole
closed
2 months ago
2
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