OHDSI / OHDSI/FeatureExtraction
Warning related to the concepts_to_exclude list and the PS file
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- Dominant language
- R
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Description
Hi
I have a PLE study where the basic aim is to compare the groups with blood glucose level above and below 7.7.
I get the following warning when I run the PLE script:
It also gives the same propensity score value to all the records in the PS file.
Based on the warning, I have checked the concepts_to_exclude list (which includes the concepts related to the blood glucose level), and have tried changing/adding/removing the concepts in that list, but it still didn’t resolve the warning and the problem with the propensity scores. Additionally, I have also tried adding and removing several covariates from the createDefaultCovaraiteSettings(), but it didn’t help too.
Do you have any idea about how to resolve this issue?
I have also attached the sessionInfo of the R session for your consideration. Pls let me know if you need any other information.
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- Read the whole issue, then the project's contributing guide.
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Research direction
Start by reproducing the PLE script and capturing the warning text shown in the attached image, along with the generated PS file. Inspect how concepts_to_exclude and createDefaultCovaraiteSettings() are configured, then verify that the warning is resolved and propensity scores are not identical across records.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- r
- Domain
- data
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 20/100