FlowJov10, SPADE
It appears Mac FlowJo v10 can now integrate SPADE.
http://docs.flowjo.com/vx/advanced-feat ... de-flowjo/
I have not tried this yet, so I cannot comment on how well it works. In theory though, I think this should allow you to do more FlowJo analysis on specific nodes.
However, it is unlikely to allow you to drop NEW files into the existing analysis.
Mike