Identifying "bridging ontologies" and communities of densely connected ontologies¶In this part of our work we wish to visualize mappings between all BioPortal ontologies and its main purpose is to answer the following two questions:
- Which BioPortal ontologies form communities of densely connected ontologies?, and
- Which BioPortal ontologies connect many other ontologies/communities?
We use Gephi (https://gephi.org) to visualize our data. Gephi provides layout algorithms to draw large graphs as well as node and edge filtering capabilities. In addition, a number of graph and node properties can be calculated with Gephi. We use the following two main features of Gephi: Modularity Analysis (or Community Detection) and Betweenness centrality. The former was used to answer the first question above, while the latter was used to answer the second question.
Since mapping information on BioPortal changes through time, different versions of our visualizations are available.Version:
- Dynamic versions (The user can search for ontologies, highlight only certain communities, directly access BioPortal's information about ontologies, and zoom/pan the figure).
- August 2013
- February 2013
- October 2012
- This example provides interpretation of the February 2013 graph.
This work is licensed under a Creative Commons Attribution 3.0 Unported License (http://creativecommons.org/licenses/by/3.0/).
Last updated: June, 2013