[gmx-users] g_rmsf

[Justin A. Lemkul]

vferrario at units.it wrote:
> Dear all,
> 
> I want to calculate the C-alfa fluctuation of a protein during a 
> trajectory with g_rmsf but I have just one question about the otput: 
> which is the difference using -o output and -od output? So what is the 
> difference between fluctuation and deviation?

http://en.wikipedia.org/wiki/Root_mean_square_fluctuation
http://en.wikipedia.org/wiki/Root_mean_square_deviation

Other information in MD textbooks may be useful.

-Justin

> 
> Thanks a lot in advance.
> 
> Valerio
> 
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Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
MILES-IGERT Trainee
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

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