Hi All, I am doing a 5 peptide simulation, and i want to analyze some of the basic properties like radius of gyration, distance between peptides etc. but i wanted to do it in a situation when all my peptides are inside the box. Due to pbc i am getting artifacts. i tried all the -pbc option (inbox, whole, nojump, etc) as well as all the -center option and a combination of both for converting trajectory by trjconv but i am not getting what i want. I want all of my peptides to be present in the box and that to in whole form not broken so that my analysis give me a true reflection of what is happening. If anyone can help me.
Thanks ALKA _______________________________________________ gmx-users mailing list [email protected] http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to [EMAIL PROTECTED] Can't post? Read http://www.gromacs.org/mailing_lists/users.php
