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Medical-Event-Data-Standard
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meds_etl
A collection of ETLs from common data formats to Medical Event Data Standard
Apache License 2.0
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Patient timelines using nonstandard codes in OMOP to MEDS conversion
#32
akwasigroch
opened
1 week ago
1
Specifying static values in flat format
#31
rvandewater
opened
4 weeks ago
1
OMOP etl assumes "birth_datetime" column in person is present
#30
egillax
closed
1 month ago
2
Polars streaming is unreliable for the OMOP ETL
#29
EthanSteinberg
closed
2 weeks ago
2
"end" times in properties causes problems with generic property handling code
#28
EthanSteinberg
opened
1 month ago
2
Switch to MEDS v2
#27
EthanSteinberg
closed
1 month ago
0
[Draft] Fix seed issue in OMOP
#26
EthanSteinberg
closed
1 month ago
1
Is shuffling the tasks in the OMOP Flat to MEDS ETL necessary?
#25
scottfleming
closed
1 month ago
2
Added the discharge_facility to the metadata field
#24
ChaoPang
opened
2 months ago
0
meds_flat functionality
#23
rvandewater
closed
1 month ago
1
slow meds_etl_mimic
#22
mirmuss
closed
2 months ago
1
broken meds_etl_mimic in the main branch
#21
mirmuss
closed
1 month ago
4
Option to set concept v. source as default in OMOP ETL
#20
Miking98
closed
2 weeks ago
4
Feature/duckdb with sharding
#19
scottfleming
closed
2 months ago
1
ValueError: The provided OMOP dataset is missing either the birth or death concept.
#18
tishyac3141
closed
2 months ago
5
The current OMOP ETL has a critical bug that results in lost data, this is a fix
#17
EthanSteinberg
closed
2 months ago
0
Add optional native backend to meds_etl
#16
EthanSteinberg
closed
2 months ago
0
Draft: Add a duckdb backend to MEDS-ETL
#15
EthanSteinberg
closed
2 months ago
0
Faster `convert_flat_to_meds`
#14
Miking98
closed
2 months ago
2
Feature/notes support
#13
scottfleming
closed
3 months ago
1
Rewrite the MIMIC ETL to use the MEDS Flat intermediate
#12
EthanSteinbergPrealize
closed
4 months ago
0
Update partition_by argument to fix deprecation warning. Closes #10.
#11
tompollard
closed
4 months ago
1
Tests fail
#10
rvandewater
closed
4 months ago
6
Added setup instructions
#9
rvandewater
closed
5 months ago
1
Default number of shards with `meds_etl_mimic` raises error on MIMIC-IV (v2.2) demo
#8
tompollard
closed
4 months ago
1
Move logic out of __init__.py
#7
tompollard
opened
6 months ago
0
Create a MEDS FLAT schema + ETL to enable easier ETL writing
#6
EthanSteinberg
closed
5 months ago
5
`meds` not defined or included in dependencies
#5
duncanmcelfresh
closed
6 months ago
2
Test that the MIMIC-IV ETL runs on the MIMIC-IV demo dataset
#4
tompollard
closed
6 months ago
7
ETL "recipes"
#3
tompollard
opened
6 months ago
0
Add scaffold for tests. Ref #1.
#2
tompollard
closed
6 months ago
2
Add testing framework for MIMIC-IV ETL
#1
tompollard
closed
5 months ago
3