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ohdsi-studies / Covid19SubjectsAesiIncidenceRate

Extending on our previous work by Li et al. in understanding the incidence rates of adverse events of special interest (AESI) for COVID-19, this work will look at the rates of these AESIs in patients who had COVDI-19 disease.
https://ohdsi-studies.github.io/Covid19SubjectsAesiIncidenceRate/Protocol.html
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IR Results - Small Number Suppression Issue #19

Closed shorban-uod closed 2 years ago

shorban-uod commented 2 years ago

The Incidence Rate results appear to have small number suppression disabled for columns O and P, ‘num_persons_pre_exclude’ and ‘num_persons_at_risk’. Other columns beginning with 'num_persons' do have small number suppression enabled though.

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@ericaVoss @msuchard

shorban-uod commented 2 years ago

I should also mention that the threshold value for the other columns is 5, so numbers smaller than that are shown as '-5'.

However I have not set this value explicitly in the CodeToRun.R script like I have for other studies.

ericaVoss commented 2 years ago

@shorban-uod - yeah, this package didn't expose setting the min cell count size. It is getting set within the package. We could have exposed it but just didn't here.

I have a fix in, just running a test locally.

ericaVoss commented 2 years ago

I got it working, will commit it all to master soon. Added two more columns for censorship:

"numPersonsPreExclude","numPersonsAtRisk"

image

ericaVoss commented 2 years ago

@shorban-uod I will also writer a scrubber for any results I already have.

shorban-uod commented 2 years ago

Will download, install and re-run the new package overnight :)