som-shahlab / femr

FEMR (Framework for Electronic Medical Records) provides tooling for large-scale, self-supervised learning using electronic health records

som-shahlab/femr Issues

possible device issue with `transformer.compute_features`
Closed 3 months ago2
Documentation for installing xformers on macOS
Closed 3 months ago1
Give reasonable recommendations or at least consistent defaults for CLMBR vocabulary size
Closed 3 months ago2
Suggest in README that users create a new environment
Closed 3 months ago1
Better Dataset type enforcement and error messages for `aggregate_over_dataset` esp regarding `new_fingerprint` kwarg
Updated 3 months ago
bug in MOTOR loss
Closed 3 months ago2
Ontology featurization should support OMOP only
Updated 3 months ago
Time conversion backward compatibility
Updated 3 months ago1
Show how to use non-boolean label types in Tutorial 2: Labelers
Updated 3 months ago
Better documentation for how to construct `ontology.pkl` in Tutorial 1: Ontology Support
Updated 3 months ago
Add a flowsheet fixer feature to FEMR
Updated 3 months ago
femr 0.2.0 event_stream_data_standard missing
Closed 4 months ago3
HF Model Load broken
Closed 4 months ago4
Import of femr.datasets broken
Closed 4 months ago3
Tutorial on how to write a custom Featurizer
Closed 4 months ago
Count featurization on pre-existing splits
Closed 4 months ago1
birth code mismatch
Closed 4 months ago
Synthetic data generation for OMOP isn't quite right.
Closed 4 months ago
define dataset schema required by femr
Closed 4 months ago
Documentation typo
Closed 4 months ago
Better documentation for where to find current extracts.
Closed 4 months ago1
Need a functionality to compute predictions directly off a femr model
Closed 4 months ago
bug in femr.featurizers.core.preprocess_featurizers
Closed 4 months ago3
possible issue with dill & abstract base classes
Closed 4 months ago8
intermittent issue with `LabeledPatientTask.add_event` when calling `femr.models.transformer.compute_features`
Closed 6 months ago1
How can I apply the motor model?
Closed 6 months ago1
Running piton extract flowsheet tool directly on BigQuery download fails
Closed 7 months ago
Better error handling for PatientDatabase constructor
Closed 7 months ago1
Have a way to create a Batch without needing to create a PatientDatabase
Closed 7 months ago2
FEMR does not appear to be working on M1/M2 chips
Closed 7 months ago
Nigam-A100 vs. V100 node to use MOTOR
Closed 7 months ago
Improve error handling for non-list labels in `LabeledPatients`
Closed 7 months ago
Add get_all_children to ontology
Closed 7 months ago
Allow `clmbr_compute_representations` to run on CPU
Closed 9 months ago1
GPU-enabled FEMR installations won't work on Mac
Closed 10 months ago1
A more robust way of identifying mortality
Closed a year ago3
make femr_visit_detail_concept_id optional
Closed a year ago4
Develop example femr refactor prototype
Closed a year ago4
Tutorial on how to write a custom Labeler
Closed a year ago
Add more flexible `filter` kwarg to `CountFeaturizer`
Closed a year ago1
Add femr.__version__
Closed a year ago1
Look into wheel building process library
Closed a year ago
cpu_jax_extension needs better error reporting
Closed a year ago
`clmbr_create_batches` transformer_vocab_size requirement
Closed a year ago1
extractors.omop.OMOP_BIRTH is misspecified
Closed a year ago2
Allow delimiter specification in ETLs
Closed a year ago
clmbr_compute_representations create multiple patient representations for the same index time
Closed a year ago3
Runtime error "Event writer with zero rows?" should just be a warning
Closed a year ago
Labelers do not return labels
Closed a year ago6
femr does not support macOS properly
Closed a year ago11