MIMIC Code v2.3.0 #1454

alistairewj · 2022-12-15T21:44:57Z

alistairewj
Dec 15, 2022
Maintainer

This release was built using MIMIC-IV v2.1. The release of this version will update the mimiciv_derived tables to use the latest version of MIMIC-IV on BigQuery, which is currently v2.1.

Change log

General

Notebook with figures/tables for MIMIC-IV by @alistairewj in Notebook with figures/tables for MIMIC-IV #1364
- This is used to generate statistics for the paper describing MIMIC-IV (to be published shortly)
GitHub actions refactor by @alistairewj in GitHub actions refactor #1400
- Runs a GH action to test concept scripts on demo data in postgresql/mysql
Updated row validation counts for MIMIC-IV by @nragusa in Updated row validation counts for MIMIC-IV #1425
Fix bug in calculation of first day GCS by @alistairewj in Fix bug in calculation of first day GCS #1447

Concept mapping

Add rxnorm concept mapping by @a-chahin in Add rxnorm concept mapping #1312
Add outputevents concept mapping by @a-chahin in Add outputevents concept mapping #1309
Update loinc table by @a-chahin in Update loinc table #1310
Add procedures concept mapping by @a-chahin in Add procedures concept mapping #1308
Add chartevents concept mapping by @a-chahin in Add chartevents concept mapping #1307

PostgreSQL improvements

Updated MIMIC-IV-ED psql build scripts to v2.0 by @alistairewj in Update MIMIC-IV-ED psql build scripts to v2.0 #1340
- PostgreSQL build scripts now work with MIMIC-IV v2.0 and v2.1
mimic-iv/concepts: fix postgres-make-concepts and minor updates by @schu in mimic-iv/concepts: fix postgres-make-concepts and minor updates #1363
Include postgres MIMIC-III concepts by @alistairewj in Include postgres MIMIC-III concepts #1448
- Now the scripts which generate MIMIC-III concepts in PostgreSQL are version controlled, and tested to work.

MySQL improvements

MIMIC-IV MySQL build script update by @alistairewj in MIMIC-IV MySQL build script update #1341
- MySQL build scripts now work with MIMIC-IV v2.0 and v2.1.

SQLite improvements

mimic-iv/buildmimic/sqlite/import.py: replace strip() by @schu in mimic-iv/buildmimic/sqlite/import.py: replace strip() #1360
mimic-iv/buildmimic/sqlite/README: mention sqlalchemy requirement by @schu in mimic-iv/buildmimic/sqlite/README: mention sqlalchemy requirement #1361
mimic-iv/buildmimic/sqlite/README: remove "edit step" by @schu in mimic-iv/buildmimic/sqlite/README: remove "edit step" #1362

New Contributors

@schu made their first contribution in mimic-iv/buildmimic/sqlite/import.py: replace strip() #1360
@nragusa made their first contribution in Updated row validation counts for MIMIC-IV #1425

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MIMIC Code v2.3.0 #1454

alistairewj Dec 15, 2022 Maintainer

Change log

General

Concept mapping

PostgreSQL improvements

MySQL improvements

SQLite improvements

New Contributors

Full Changelog

Replies: 0 comments

alistairewj
Dec 15, 2022
Maintainer