Calculating reaction time is a very challenging topic. Determining reaction time for a normal vs a pathological can be quite complicated! You can see the outlines of one algorithm in the original Visually Guided Reaching paper:
Visually Guided Reaching
In order to do the binning you would like I'd suggest using a persistent variable in embedded MATLAB that you clear in between trials.
You can have the reaction time only on the operator screen by setting the VCODE(2) = 3. From the show target embedded MATLAB function:
% 2: target on/off status and target display (which display target will appear on)
% 0 - off
% 1 - on, appearing on both subject and operator displays
% 2 - on, appearing on subject display only
% 3 - on, appearing on operator display only
Please let me know if I can be of more assistance.
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