> This works pretty fine with the regular markers. Is there any
> possibilty to control the visibility of the Clustermarkers themselves?

I'm not sure what that means.   Do you want the clusterer to
recalculate its clusters after a change in visibility of markers?
Something like this
http://groups.google.com/group/google-maps-js-api-v3/browse_thread/thread/83f28a21e7fe8578/27370bfa62992f18

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