How to access inactive concepts?

[Kim Tang]

Hello,

is it possible to access inactive concepts through their identifiers to retrieve information about them, such as their label?

For example I want to access the concepts for "COVID-19 vaccine declined" as shown in the SNOMED-CT Browser (International Edition, inactive concepts enabled):



If I try to retrieve an inactivated concept through PYM, it seems to be present through its ID, but with no other information stored:



In my use case I am working with a dataset which has partially outdated SNOMED-CT IDs for which I want to retrieve labels and ideally replace the IDs with the current IDs.

Is there any way to achieve this with PYM?

Kind regards,
Kim Tang

[Jiba]

Hello,

When importing UMLS in PYM, suppressed concepts are removed by default.

This can be controlled by the "remove_suppressed" argument of import_umls(). The default value is "OEY", which corresponds to concepts (and relations) marked with O, E or Y (these are suppressed codes in UMLS, but I do not remind the exact distinction between them).

In order to keep everything, just use remove_suppressed="".

Jiba

[Kim Tang]

Ah that's good to know, thanks for clarifying the different available options!