I calculated the thermal comfort (PET, PMV, SET) indexes of two stations which are in the same city but has different altitude in Turkey via RAYMAN. I used daily mean measurements of variables (temperature, wind?) from 1975 to 2008. I only changed the time column. For finding out the best calculation which measurements (at 07:00, 14:00, or 21:00) I have to use in order to show the most suitable index of these stations.
this is hardly a question about RayMan, but about biometeorological calculations in general.
The point is, what you want to do with the results. In my oppinion, you can hardly calculate a thermal index based on daily means! This would not be representative for any time of the day. Thermal indices are highly volatile in time. You therefore need input data in higher temporal resolution. But thats my oppinion.
The time of day you should calculate thermal indices for depends mostly on your study. Basically RayMan is a quite fast model, so you can calculate for all your data.