[gmx-users] 2 beginner´s questions

[Miguel Ortiz Lombardia]

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Hi,

I like a lot "chimera" (http://www.cgl.ucsf.edu/chimera/) It doesn't
currently support gromacs trajectories, but it does support trajectories
exported to single or multiple pdb files. It's incredibly easy to learn
and use. You can depict your molecules in different styles, analyze
them, analyze some aspects of the trajectory and also makes movies in
several formats.

Good luck!


Miguel

Sampo Karkola wrote:
> Hi,
> 
> also VMD is quite handy. You'll need pdb's for VMD, too.
> 
> Check out these cool words by Gale, Ella:
> 
>> You can also use pymol. To use it you have to convert your trajectory
>> to a .pdb using trjconv, but pymol is quite easy to use.
>>
>>  > I am just starting my first dynamics and wonder if you could help
>> me with:
>>
>>  > 1. Want to use some graphical program to see the atoms moving. Can
>> I use
>>  > ngmx? What other programs are available?
>>
>>
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>>
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- --
Miguel Ortiz Lombardía
Centro de Investigaciones Oncológicas
C/ Melchor Fernández Almagro, 3
28029 Madrid, Spain
Tel. +34 912 246 900
Fax. +34 912 246 976
email: molatwork at yahoo.es
www: http://www.ysbl.york.ac.uk/~mol/
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Je suis de la mauvaise herbe,
Braves gens, braves gens,
Je pousse en liberté
Dans les jardins mal fréquentés!
                                                       Georges Brassens
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