I am afraid that you will not be able to make it trigger scenes etc. The Duwi remote cannot do that according to the experts. It can only be associated directly to a device and control them.
I also have one of these which I bought with my Vera Plus because of a package deal from Vesternet and I just assumed it would work well with the Vera.
Vesternet have some information on how to use it, but this is the caveat:
The R/C can't act as a "Scene Controller", in that it can't trigger or run Scenes in another Z-Wave Controller. The only Scenes supported are those that can be programmed on the R/C itself as mentioned above.
This limitation more or less makes it useless to me f.x.
I have been toying around with the idea if it could control a virtual switch on the Vera, but I don?t have the knowledge to say if it is possible or not.