noctua

noctua copied to clipboard

Dangling Evidence Nodes in the model

3

@vanaukenk maybe I am mistaken, but this model http://noctua.geneontology.org/editor/graph/gomodel:6258b8f300000725? and others has some dangling evidence. Let's wanna investigate why there is dangling evidence nodes. Do you know how to know...

tmushayahama

Function companion does not return evidence properly -> ShEx violations and GPAD export errors

5

The current iteration of the Function companion workbench in the graph editor doesn't return evidence properly when there are multiple pipe-separated With/From entries and multiple, pipe-separated references. This leads to...

vanaukenk

Allow models to reference individuals in other models

2

This is a feature/discussion request for the ability to reference individuals in other models with an eye to reduce repetition and aid in giving context for model meaning without creating...

kltm

Implement QC/QA checks in the Noctua graph editor and in the form

1

For example - see this file (but we need to make it clearer what the rules do exactly): https://docs.google.com/spreadsheets/d/1UggYmvWfE5SY9ijDbHetTNKfJcV6V3BvQuBguZG3q5s/edit#gid=0 @tmushayahama

pgaudet

Provide expandable list view for has_part relations

2

Sometimes entities, especially protein complexes, are composed of a large number of parts. These can obscure the ability to view and edit models in the Noctua editor. Rather than defaulting...

goodb

Ensure that annotation searches are to the latest production set

10

Annotation search (and transfer) should be from the latest public version of GO, the same as AmiGO. Workbenches/companions should all be using (at this point) golr-aux.geneontology.io. (It would be nice...

kltm

Potential reduntacies in GPAD exports

11

Hi, We came across a case that 2 sets of 3 identical annotations were generated based on the same publication (PMID:27458189) but with different ECO codes (2 mapping to IDA...

pgarmiri

Noctua organism list

5

During the multiorganism meeting this week, we discussed allowing all SwissProt proteins to be avaliable in the form editor in Noctua. There still needs to be more discussion on Trembl...

sandyl27

This ticket can be closed when there is a basic synchronized workbench created to view the reasoned go rules response from minerva. Possibly just as a table. This ticket is...

kltm

Refactor model copy / bbop-manager-minerva

4

While we want to get something in so we can iterate on model copy (https://github.com/geneontology/noctua/issues/606 with https://github.com/berkeleybop/bbop-manager-minerva/pull/2) the current implementation has two parts that should be revisited. The new code...

kltm