Convert OMOP MEDS data to CEHR-BERT data by linking events by visit_id#59

Merged

ChaoPang merged 16 commits intomainfrom meds_link_events_by_visit_id

Oct 11, 2024

+711-320

Commits on Oct 10, 2024

updated the regex for identifying Race/Gender/Ethinicity
ChaoPang
committed
added a new src/cehrbert/data_generators/hf_data_generator/meds_to_cehrbert_conversion_rules/meds_to_cehrbert_omop.py
ChaoPang
committed
moved the logic for generating PatientBlocks to the corresponding conversion rules
ChaoPang
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moved the micmic meds to cehrbert logic to meds_to_cehrbert_micmic4.py
ChaoPang
committed
completed the meds_to_cehrbert_omop.py logic for converting the OMOP MEDS data to CEHRBERT
ChaoPang
committed
moved generate_demographics_and_patient_blocks logic to patient_block.py
ChaoPang
committed
fixed the circular imports for the meds_to_cehrbert_omop conversion rule
ChaoPang
committed
added a helper function to remove the trailing slashes from the folder name
ChaoPang
committed
added a unit-test to test the OMOP meds to cehrbert inputs conversion logic
ChaoPang
committed

Commits on Oct 11, 2024