Noctua documentation from Help in Noctua Editor: Difference between revisions
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GO-CAMs can be browsed using Noctua, but no annotations can be created or edited unless a user is logged in with a registered account. | GO-CAMs can be browsed using Noctua, but no annotations can be created or edited unless a user is logged in with a registered account. | ||
==== User Account Setup ==== | ==== User Account Setup ==== | ||
* If you are part of a GO Consortium member group (list?), and you will be curating using Noctua, please enter a ticket on the [https://github.com/geneontology/helpdesk helpdesk repo in github]. Note that to create a Noctua account, you will need an [https://orcid.org/ ORCID] and a [https://github.com/ github account]. | * If you are part of a GO Consortium member group (list?), and you will be curating GO standard annotations and GO-CAM models using Noctua, please enter a ticket on the [https://github.com/geneontology/helpdesk helpdesk repo in github]. Note that to create a Noctua account, you will need an [https://orcid.org/ ORCID] and a [https://github.com/ github account]. | ||
* Otherwise, please email help@geneontology.org to explain why you would like a Noctua account. The GO Helpdesk will guide you to help meet your specific needs. | * Otherwise, please email help@geneontology.org to explain why you would like a Noctua account. The GO Helpdesk will guide you to help meet your specific needs. | ||
Revision as of 05:47, 29 September 2022
The 'Help' button currently links to Noctua; the proposal is to reduce the contents to what is in this page
Noctua: the Gene Ontology's GO Annotation Tool Suite
Noctua documentation from Help in Noctua Editor Noctua is a web-based annotation tool developed by the GO Consortium. Noctua can be used to create standard GO annotations as well as GO-CAMs (Gene Ontology Causal Activity Models) in a collaborative manner, i. e. multiple users can work on the same model at the same time.
Getting started with Noctua
GO-CAMs can be browsed using Noctua, but no annotations can be created or edited unless a user is logged in with a registered account.
User Account Setup
- If you are part of a GO Consortium member group (list?), and you will be curating GO standard annotations and GO-CAM models using Noctua, please enter a ticket on the helpdesk repo in github. Note that to create a Noctua account, you will need an ORCID and a github account.
- Otherwise, please email help@geneontology.org to explain why you would like a Noctua account. The GO Helpdesk will guide you to help meet your specific needs.
Login
- To log in, click on the Login button in the upper right corner of the landing page.
- On the resulting page click on "Sign in with Github."
- When your identity has been authenticated, press the "Return" button to return to the Noctua landing page.
Noctua Curation interfaces
Noctua has four curation interfaces suited for
- The Pathway Editor is designed for curating GO-CAM models, i.e. models that include at least two activities/MFs linked by causal relations.
- The Form Editor is a structured annotation form that is recommended for creating 'standard' GO annotations.
- The Graph Editor is a generic tool to link individual annotations and is only recommended for advanced uses.
- The Annotation Review tool serves to do bulk updates on annotations.
Accessing, browsing and searching GO-CAMs | ||
---|---|---|
Topic | Status | Last reviewed |
Browsing and searching annotations and models | To be reviewed | |
Noctua Curation interfaces | ||
Visual Editor | Current | 2022-05-05 |
Form Editor | Draft | |
Graph Editor | Draft | |
Annotation Review Tool | Current | 2021-05-26 |
Form Editor | Molecular Function | |
---|---|---|
Biological Process | ||
Cellular Component | ||
Graph Editor | Molecular Function | |
Biological Process | ||
Cellular Component | ||
Adding contextual information (annotation extensions) | ||
Form Editor | Molecular Function | |
Biological Process | ||
Cellular Component | ||
Graph Editor | Molecular Function | |
Biological Process | ||
Cellular Component | ||
Editing annotations | ||
Form Editor | ||
Graph Editor | ||
Creating GO-CAMs | ||
Creating an activity unit | Form Editor | |
Graph Editor | ||
Linking Activities | Form Editor | |
Graph Editor | ||
Model metadata | ||
Model titles | General Guidelines | |
Graph Editor | ||
Releasing models to production | Form Editor Form Editor] | |
Graph Editor | ||
Other tips and tricks | Adding a NOT qualifier to an annotation | |
Importing existing annotations | ||
Changing annotation group | ||
Model validation | ||
Running the reasoner | ||
Viewing GPAD export] | ||
Using templates |
Review Status
Draft: 2022-09-29 Pascale Gaudet