@cmboulanger Great list of resources!
You can easily check if some tool is part of our registry by running the query https://w.wiki/9TAe.
Inclusion into the #ToolRegistry currently works by linking a tool to a controlled list of methods through the "has use" Property. This list implements the #TaDiRAH taxonomy and can be viewed through https://w.wiki/9T9R.
Some tools from your list, such as Gephy and Cytoscape, are already part of the #ToolRegistry. Others, such as NodeGoat, have not been linked to a method supported by TaDiRAH.
[edit: updated link to results of SPARQL query to include more results]