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cBioPortal / datahub

A centralized location for storing curated data from cBioPortal
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metadata for timeline data #1320

Open jjgao opened 3 years ago

jjgao commented 3 years ago

We have meta data for clinical attributes (e.g. name, type, priority, description, etc), but not fur timeline data. For example, we would like to visualize certain numerical timeline data (e.g. PSA and CEA) as line chart (as discussed in this Slack private thread), but currently, we have to infer the data type (e.g. whether all data is numerical) and hardcode which property to use.

It would be good to support meta data for the longitudinal dataset, but it could be more complex than the clinical data as we may have many properties for a data of one timepoint. One option is to define the meta data per property, ie. adding additional metadata lines in the timeline format (similar to clinical data)

ritikakundra commented 3 years ago

Yes agreed. Especially for genie, timeline only used normalized headers as display names.

jjgao commented 3 years ago

@ritikakundra @n1zea144 what would be the good next step?

ritikakundra commented 3 years ago

@jjgao we could start with first adding the attributes used in timeline files in our data dict with the metadata. Then the question is if we need to update the timeline file with those headers like the clinical files?

jjgao commented 3 years ago

@ritikakundra Good idea. Maybe we can start with the GENIE BPC cohort?

stale[bot] commented 3 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.

stale[bot] commented 2 years ago

This issue has been automatically marked as stale because it has not had recent activity. It will be closed if no further activity occurs. Thank you for your contributions.