Closed stephanieshong closed 11 months ago
I added the initial percent count of concept ids with non-standard concepts found in each OMOP domains. passing the rest of the query to Yvette to perform the final assessment of how much is rescued by re-mapping to "Maps to" concept. Percent of non-standard concepts found in the OMOP CDM sites can be found here: https://unite.nih.gov/workspace/data-integration/dataset/preview/ri.foundry.main.dataset.51f53c7b-f608-4c6b-b765-0c4a6a006cc4/sh%2Fomop-non-standard-concepts report items are in this contour: https://unite.nih.gov/workspace/contour-app/ri.contour.main.analysis.6422ad33-c39d-492a-b0a9-5495536b672a/path/ri.contour.main.ref.d489b015-b137-4608-958c-f6f100135189/board?viewMode=edit
assigning remaining items to @Yvette
We are rescuing deprecated or null concepts using the following relationship_ids 'Maps to', 'RxNorm is a', 'Concept same as to', 'Concept replaced by', 'Concept poss_eq to'.
generated the new xwalk map using the relationship ids above. Passed on the logic for Yvette to insert the newly mapped data as well as the concept data unable to rescue.
Reviewed code for condition_occurrence today with Yvette.
DI&H issues team requested the current state report of this issue prior to making the updates in OMOP pipeline.