ncihtan/data-models

Update enumerated values in Publication "Data Type" field to include all assay types

Closed this issue · 2 comments

alexeliotlash commented

Information

Proposed change:

The publication "Data Type" field doesn't seem to include an up-to-date enumerated list of assay type, which seems to be:
10x Visium
Assay
Bulk DNA
Bulk Methylation-seq
Bulk RNA-seq
CODEX
CyCIF
ExSEQ
H&E
HI-C-seq
IMC
Imaging
LC-MS3
MERFISH
MIBI
MxIF
RPPA
RareCyte Orion
SABER
Slide-seq V2
mIHC
scATAC-seq
scRNA-seq

Dicussion link:

Link to where the changes have been discussed/approved eg Closed RFC, Service desk ticket, DCC coordination/operations agenda

How important is this feature?

Select from the options below

  • 🌋 Important - it's a blocker and can't do work without it

When will use cases depending on this become relevant?

Select from the options below

  • Short-term - 2-4 weeks

Additional context

Add any other context or screenshots about the feature request here

Implementation checklist

  • Branch created
  • HTAN.model.csv editied and pushed
  • HTAN.model.jsonld validated and created by Github action
  • PR opened
  • PR approved
  • PR merged into main
  • New Component added to ncihtan/HTAN-data-curator (if required)
  • DCA update requested
  • DCA updated
adamjtaylor commented

@alexeliotlash thank you for your patience as I pick this back up.... I want to make sure we are clear as to the expectations for these valid values.

Do we want

  • A list of components (eg scRNA-seq Level 1, scATAC-seq Level 3)
  • a list of top level components (eg scRNA-seq, scATAC-seq, Imaging)
  • or a more granular list combined from top level component and platform/imaging tech where captured (eg from Platform or Imaging Assay Type attributes.
alexeliotlash commented

I think a list of top-level components would be fine. Thanks