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obi-ontology / obi

The Ontology for Biomedical Investigations
http://obi-ontology.org
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Visualization Terms #90

Closed obi-bot closed 7 years ago

obi-bot commented 16 years ago

Terms identified from a recent use case evaluation from DT branch. We found we needed the following:

-heatmap http://en.wikipedia.org/wiki/Heat\_map -survival curve http://www.graphpad.com/www/book/survive.htm -venn diagram http://en.wikipedia.org/wiki/Venn\_diagram -graph (in the sense of V=vertices, E=edges, not in the sense of graph of a function.) See second definition here http://mathworld.wolfram.com/Graph.html

Thanks!

James

Reported by: jamesmalone

Original Ticket: "obi/obi-terms/90":https://sourceforge.net/p/obi/obi-terms/90

obi-bot commented 16 years ago

Logged In: YES user_id=426944 Originator: NO

Discussed at DENRIE call June 3, 2008. Will review further.

Original comment by: cstoeckert

obi-bot commented 15 years ago

Hi, Could we have a definition a bit more explicit for those?

Proposal: - survival curve A survival curve is a report graph which is a graphical representation of data where the percentage of survival is plotted as a function of time. definition source: adapted from http://www.graphpad.com/www/book/survive.htm

- Venn diagram: A Venn diagram is a report graph showing all hypothetically possible logical relations between a finite collection of sets definition source: adapted from http://en.wikipedia.org/wiki/Venn\_diagram

- graph (ideas for a better less ambiguous name? maybe having function graph as well to help?) A graph is report graph which is a graphical representation of a collection of points and lines connecting some (possibly empty) subset of them. The points of a graph are most commonly known as graph vertices, but may also be called "nodes" or simply "points." Similarly, the lines connecting the vertices of a graph are most commonly known as graph edges, but may also be called "arcs" or "lines." definition source: adapted from http://mathworld.wolfram.com/Graph.html

I already submitted heatmap (http://code.google.com/p/information-artifact-ontology/issues/detail?id=2) and histogram to IAO (http://code.google.com/p/information-artifact-ontology/issues/detail?id=1) We could probably submit the other as well there if you think the above proposed definitions are satisfactory (tracker available at http://code.google.com/p/information-artifact-ontology/issues/list)

Thanks, Melanie

Original comment by: mcourtot

obi-bot commented 15 years ago

OK except for graph. "A graph is report graph which is a graphical representation .." If we have report graph, then I don't think we need graph. Chris

Original comment by: cstoeckert

obi-bot commented 15 years ago

OK except for graph. "A graph is report graph which is a graphical representation .." If we have report graph, then I don't think we need graph. Chris

Original comment by: cstoeckert

obi-bot commented 15 years ago

heatmap: IAO_0000180 survival curve: IAO_0000182 Venn diagram: IAO_0000181

need to check on grpah (as data structure)

Original comment by: mcourtot

obi-bot commented 15 years ago

These have determined to be types of report elements. Will generate definitions and run by DT branch.

Original comment by: cstoeckert

obi-bot commented 15 years ago

Original comment by: bpeters42

obi-bot commented 15 years ago

All now in the OBI or IAO file - need some of the definitions to be improved slightly, but usable for now. (adding during dev call 27/7)

Original comment by: jamesmalone

obi-bot commented 15 years ago

Original comment by: jamesmalone

obi-bot commented 15 years ago

Original comment by: bpeters42

obi-bot commented 14 years ago

heatmap: A graph which represents data where the values taken by a variable in a two-dimensional map are represented as colors. http://en.wikipedia.org/wiki/Heat\_map

survival curve: A graph which plots percent survival as a function of time. http://www.graphpad.com/www/book/survive.htm

Venn diagram: just change report graph to graph.

graph of vertices: change curation status to ready for release. A graph which is a collection of points and lines connecting some (possibly empty) subset of them. The points of a graph are most commonly known as graph vertices, but may also be called "nodes" or simply "points." Similarly, the lines connecting the vertices of a graph are most commonly known as graph edges, but may also be called "arcs" or "lines." http://mathworld.wolfram.com/Graph.html

Original comment by: cstoeckert

obi-bot commented 14 years ago

heatmap: http://purl.obolibrary.org/obo/IAO\_0000180 survival curve: http://purl.obolibrary.org/obo/OBI\_0000889 Venn diagram: http://purl.obolibrary.org/obo/IAO\_0000181 graph: http://purl.obolibrary.org/obo/IAO\_0000038

Closing.

Original comment by: mcourtot

obi-bot commented 14 years ago

Original comment by: mcourtot