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Graph-based modeling environment for biology, including prototype editor and services
Also related to https://github.com/geneontology/noctua/issues/733 So many inconsistences started recently As you can see from the diagram UniProtKB:Q8N268-2 has different labels from golr auto and from minerva and many other ids...
Originated from https://github.com/geneontology/gocamgen/issues/92. It seems that adding a comment containing a `PMID:` prefix to an evidence individual triggers the auto-hyperlink functionality and truncates some of the text:  As it's...
Examples (just two random samples): - http://identifiers.org/uniprot/O88568 (in http://model.geneontology.org/SYNGO_1598) - http://identifiers.org/uniprot/A5D7B9 (in http://model.geneontology.org/SYNGO_232) Do we have a process to include these so that they are properly typed as proteins? We're...
In my P2GO annotations I wanted to model I have some SO extensions, such as SO:0100014 n-terminal region (of the has_input H2Bv3 Ddis) I noticed I cannot add these in...
Hi, In looking over some annotation stats with @pgaudet and @ukemi this morning, we found that there are still some production GO-CAM models that have GO_Noctua in the Assigned_by field...
background: SIF doesn't have any semantics, it's just a very simple graph format for Cytoscape. See http://manual.cytoscape.org/en/stable/Supported_Network_File_Formats.html#sif-format Looking at the SIF export on http://geneontology.org/cam What is the use case for...
Review group handling (providedBy), especially in workbenches. Currently: - [x] graph editor: *all* actions will append a group, including annotations; uses default group - [ ] cytoscape layout tool: does...
We need to provide annotation guidelines for how curators should annotate interacting proteins (i.e. MF IPI annotations) in GO-CAM models. For now, assuming the interactors are from the same species,...
from @tonysawfordebi : ``` - there are a number of annotations that use an ECO term that isn't a "... used in manual assertion" term. They are: > ECO:0005593 immunodetection...
Action item from Oct 2017 GOC meeting. The original formulation of the ticket was: ECO codes available for use in Noctua should show how they map up to a classic...
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Graph-based modeling environment for biology, including prototype editor and services