VMD-L Mailing List

From: Giacomo Fiorin (giacomo.fiorin_at_gmail.com)
Date: Thu Mar 15 2018 - 09:09:18 CDT

It was just mentioned to me that the manipulation of yahoo.com is done by
the e-mail server. Please disregard the P.S.

On Thu, Mar 15, 2018 at 9:39 AM, Giacomo Fiorin <giacomo.fiorin_at_gmail.com>
wrote:

> Try adjusting the contour level in the representation to see where the
> highest density is.
>
> Giacomo
>
> P.S. Spam filters can recognize any "remove" or "at" tricks to protect
> email addresses, and using them would only slow down the humans.
>
> On Thu, Mar 15, 2018 at 8:16 AM, Saikat Pal <saikatpaliitg_at_remove_yahoo.
> com> wrote:
>
>> Dear VMD users,
>> Recently I have used Volmap Plugin to calculate spatial distribution
>> function or probable density. I have used the following command:
>> selection: resid 16 to 22 and within 5.0 of resid 3 4
>> molecule: abc.prmtop (generated from amber trajectory)
>> volmaptype : density
>> resolution: 1.0
>> atom size: 1.0
>> weights: mass
>> tick on the: compute for all frame avg
>>
>> I have got this kind of image (I have attached the test.png). My question is
>> : Are the all command is correct ?
>> And Why the density is cubic in my case ??
>>
>> Thanks
>> Saikat
>>
>
>
>
> --
> Giacomo Fiorin
> Associate Professor of Research, Temple University, Philadelphia, PA
> Contractor, National Institutes of Health, Bethesda, MD
> http://goo.gl/Q3TBQU
> https://github.com/giacomofiorin
> 

-- 
Giacomo Fiorin
Associate Professor of Research, Temple University, Philadelphia, PA
Contractor, National Institutes of Health, Bethesda, MD
http://goo.gl/Q3TBQU
https://github.com/giacomofiorin