[gmx-users] pbc

[Justin Lemkul]

On 10/19/15 9:59 PM, Sana Saeed wrote:
> good morning gmx usersi want to visualize the box from my gro file. I am using VMD , i read the manual but couldnt understand how to use my own vectors to visualize box. actually i want to see if the atoms are out of box or inside.Thanks in advance

In the VMD Tk console:

pbc box

If you have problems with VMD, please post to their mailing list.

-Justin

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Justin A. Lemkul, Ph.D.
Ruth L. Kirschstein NRSA Postdoctoral Fellow

Department of Pharmaceutical Sciences
School of Pharmacy
Health Sciences Facility II, Room 629
University of Maryland, Baltimore
20 Penn St.
Baltimore, MD 21201

jalemkul at outerbanks.umaryland.edu | (410) 706-7441
http://mackerell.umaryland.edu/~jalemkul

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