Giter Club home page Giter Club logo

Comments (4)

thomaspd avatar thomaspd commented on June 26, 2024

Before we close, could this other issue be related to the problem of RNAs not passing the ShEx, and be traceable to NEO in some way?
geneontology/minerva#481

from neo.

balhoff avatar balhoff commented on June 26, 2024

@thomaspd yes it looks like there is a problem in NEO: #100.

from neo.

cmungall avatar cmungall commented on June 26, 2024

One other minor issue, I don't know much much it bugs curators:

RNAC GPIs lack symbols. This means that they show up with IDs on the display:

image

If we look at the source, e.g

https://rnacentral.org/rna/URS00005EB5B7/9606

We see that RNAC provide names "Homo sapiens let-7a-1 stem-loop (hsa-let-7a-1)" but not symbols

This is reflected in the GPI:

➜ neo git:(master) ✗ gzip -dc mirror/goa_human_rna.gpi.gz | grep URS00005EB5B7_9606 | cut -f3

➜ neo git:(master) ✗ gzip -dc mirror/goa_human_rna.gpi.gz | grep URS00005EB5B7_9606 | cut -f4
Homo sapiens let-7a-1 stem-loop (hsa-let-7a-1)

@alexsign -- is there a way to get something approaching a symbol into the GPI file (the thing in parens looks like a symbol)

If not, I propose that we add something to the neo perl scripts that uses the name for the rdfs:label if symbol is not present. Then the name will show up in the Noctua models, e.g. the ones here: geneontology/noctua#760

from neo.

pgaudet avatar pgaudet commented on June 26, 2024

I dont knwow if this is true for all RNAC entities, but the label would be what's in the parenthesis - for e.g. hsa-let-7a-1

@RLovering is this correct?

from neo.

Related Issues (20)

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.