; to use gmx densmap, correct ?
>
> Thanks you
>
> Stéphane
>
> --
>
> Message: 5
> Date: Tue, 23 Oct 2018 23:31:22 -0700
> From: Wenjuan Jiang
> To: gmx-us...@gromacs.org
> Subject: Re: [gmx-users] parameters for plotting 2D
Hello Stéphane,
I happened to use densmap and xpm these days for my ion channel.
Here is an example that you can play with for your system.
gmx densmap -f md.xtc -s md.tpr -n index.ndx -aver z -bin 0.05 -dmin 0
-dmax 20 -unit nm-2 -o md.xpm
( later choose the group you are interested in)
Dear all,
I would like to obtain a 2D density map plot as for instance Fig. 4 in the
following paper (DOI 10.1007/s00232-014-9690-8) for a membrane protein inserted
in a surfactant micelle with gmx densmap and xpm2ps . I have few questions
- Have any of you ever done this type of plot? If
