-
Notifications
You must be signed in to change notification settings - Fork 8
New issue
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Add RNA library permissible values to LibraryTypeEnum
for LibraryPreparation
's library_type
slot
#1000
Comments
OK. The permissible values for the enumeration should be very succinct, preferably a single word or something_snake_cased. Class PermissibleValue takes most of the annotations as other LinkML meta classes If we can find OBO foundry terms for those concepts, we should assign the term CURIEs to the |
Low priority. Mark can add this enum. Will need review. |
LibraryTypeEnum
for LibraryPreparation
's library_type
slot
@aclum I just rewrote your title like a cowboy, but then thought oops maybe I don't really know what you want. Can we just add permissible values to the existing id: nmdc:libprp-99-abc123
type: nmdc:LibraryPreparation
library_type: RNA
rna_seq_type: stranded_rnaseq_r1f_r2r There aren't any Is there any circumstance you would want to say that the |
I would prefer this as a separate slot since we may not have this information or we'll have to infer it from a combination of institution+processing date. |
re-iding needs to re-process metaT data. File type enum for metaT isn't sorted out. |
Not urgent since it is not needed for NEON but we need a slot to capture the type of RNA library since this is needed input for Class MetatranscriptomeActivity
Proposed slot rna_seq_type
Propose enum for range with enumerations of
"Stranded RNA-seq, R1 is forward, R2 is reversed", "Stranded RNA-seq, R2 is forward, R1 is reversed", "non-stranded RNA-seq"
The text was updated successfully, but these errors were encountered: