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Add [T cell receptor repertoire sequencing] to [assay] #258

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anngvu opened this issue Mar 15, 2023 · 0 comments · Fixed by #267
Closed

Add [T cell receptor repertoire sequencing] to [assay] #258

anngvu opened this issue Mar 15, 2023 · 0 comments · Fixed by #267
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anngvu commented Mar 15, 2023 •
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List the new value
Value: T cell receptor repertoire sequencing

Provide definition and source for the new value
Definition: A sequencing assay that determines the sequences of DNA or RNA molecules that encode the repertoire of T cell receptors within an input sample.
Source url: http://purl.obolibrary.org/obo/OBI_0002990

Are there similar but not-quite-right values?

Additional comments
Some data is being annotated with T cell receptor sequencing so this addition should help accommodate and standardize.
@anngvu anngvu added the schema label Mar 15, 2023
@anngvu anngvu self-assigned this Mar 15, 2023
@anngvu anngvu changed the title Add [T cell receptor repertoire sequencing assay] to [assay] Add [T cell receptor repertoire sequencing] to [assay] Mar 15, 2023
anngvu added a commit that referenced this issue Mar 15, 2023
@anngvu
Add assays per #258 and #259
6325cbe
@anngvu anngvu moved this to In Progress in NF-OSI Sprints Mar 16, 2023
@anngvu anngvu mentioned this issue Mar 16, 2023
Merged
@anngvu anngvu linked a pull request Mar 16, 2023 that will close this issue
Patch/assays #267
Merged
allaway added a commit that referenced this issue Mar 17, 2023
@anngvu @nfosi-service @allaway
Patch/assays (#267)
0323165 
* Reorg and start new mappings

* Tidy assay labels per #236

* Add new assay per #260

* Add assays per #258 and #259

* Add new assay terms for #261 #262 #263, allow generic mass spec term

* Update portal assay cleanup mappings

* Add assay referenced in #264

* Add behavioral assays per #265

* Update assay valid values

* Update mapping title and description

* Update superdataset registered schema

* Lint YAML file

* Clean description in mapping file

* Update mapping README and mapping file name-version

* Close issue #266

* Build jsonld

* Apply batch of de-acronym suggestions

Co-authored-by: Robert Allaway <allaway@users.noreply.github.com>

* Build jsonld

* Apply suggestions from code review

Co-authored-by: Robert Allaway <allaway@users.noreply.github.com>

* Fix missing quotes and correct internal class IDS

* Tweak label to be more consistent and update descriptions

* De-acronym LFP

* De-acronym LTP

* Update assay valid values

* Make mapping consistent with one correction

* Update registered schema again

* Build jsonld

---------

Co-authored-by: nf-osi[bot] <nf-osi@sagebionetworks.org>
Co-authored-by: Robert Allaway <allaway@users.noreply.github.com>
@github-project-automation github-project-automation bot moved this from In Progress to Done in NF-OSI Sprints Mar 17, 2023
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Patch/assays nf-osi/nf-metadata-dictionary
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