Visualize connecticity networks
How to...
Hide edges/links:
Select an edge and use the Hide button in the
Selection tab.
Node filters
Like in many widgets, node filters are available through the funnel icon in
the title bar. Only nodes that are allowed by the selected filters, can
contribute connections and the graph. At the moment, this comes with a few
caveats unfortunately: if filters are in use, no subgraphs (e.g.
axon/dendrite, synapse clusters) can be used. Grouping isn't available
either and in addition, skeletons are removed from the widget if they don't
comply with the filters. All this is likely going to chagne in future
versions.
Export Graphs for layouting in other tools
For some graphs, layouting is easier done in other tools, e.g.
Gephi. Since the coloring is likely easier to do in CATMAID, a
re-import is useful as well. This workflow can be done in CATMAID
like the following:
- Export a graph as GML, the default export options (linearize
IDs) are fine.
- Open GML file in Gephi and do layout.
- Export graph in Gephi as GraphML file: File > Export > Graph
file. Choose "GraphML" as file type in file dialog.
- In CATMAID, click "Open…" in the Graph Widget\'s main tab and
select the exported GraphML (ends on .graphml).
- The default options in the import dialog should work for
Gephi. Preferring the unit_id and name fields assumes a previous
CATMAID export of the graph.
This should open the Graph with Gephi\'s layout