kids-first / kf-cbioportal-etl

Repository of scripts used to convert dataservice metadata and DRC processed data into cbio portal loading format.
Apache License 2.0
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pbta_all added fields request #42

Closed migbro closed 1 year ago

migbro commented 1 year ago

Adam R. has asked that we add fields "that are sourced from CBTN clinical data forms" from openpedcan v12 to the pbta all study. I need a list of those fields.

jharenza commented 1 year ago

Just talked with Adam - first order of business is to just match up and make sure all columns in OPC v12 are in pbta_all. We can expand later.

jharenza commented 1 year ago

Also cross-posting the recoding for extent of tumor resection if using the cbtn all sheet: https://forms.office.com/Pages/ResponsePage.aspx?id=FiQRprAHpUGbsdFGtXXJdQkNa5eWoIZBrcIcF6eHEIJUMlROSzUwMThETjlCQTZENUo5SlJXUEtKMS4u

migbro commented 1 year ago

Just talked with Adam - first order of business is to just match up and make sure all columns in OPC v12 are in pbta_all. We can expand later.

Given what the second sentence says, I think you are saying, just make sure the existing subtyping into is up-to-date from v12 in pbta_all, which I agree with

jharenza commented 1 year ago
Screenshot 2023-05-03 at 1 04 31 PM

Plus extent of tumor resection, cancer predispositions, etc - make sure the columns between both studies are the same, essentially

migbro commented 1 year ago

This was done with the referenced ETL update, closing