afsaneh maleki wrote:
Hi all,
i used united the atom force field model for the membrane lipids . to
calculate order parameter i used :
g_order -od -d
i know united atom force field doesn't have hydrogen atoms in
hydrocarbons chains .
i want to know gromacs calculates order parameter * Sc-c* or *Sc-d*
(Deuterium) ?
Simple geometry.
in the output is written: title "Deuterium order parameters"
Is that it? If you've got an empty output, then your index file probably wasn't
prepared correctly. There is a how-to on the g_order page on the Gromacs website:
http://www.gromacs.org/Documentation/Gromacs_Utilities/g_order
-Justin
thanks in advance,
Afsaneh
--
========================================
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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