Re: [gmx-users] Justin-lipid tutorials..

On 5/19/12 7:49 AM, rama david wrote: Hi Gromacs friends .. I am doing justin Lipid-tutoria on lipid .. http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/membrane_protein/01_pdb2gmx.html I completed upto the ion addition and energy minimisation.. While doing

Re: [gmx-users] Justin-lipid tutorials..

Thank you Justin .. .. I goes through these link .. http://www.gromacs.org/Documentation/How-tos/Membrane_Simulations Please Can any one clearly define me What is Lower Z and Upper Z in the keepbyz.sh Can keepbyz.sh use to remove the water in hydrophobic region without affecting the box

Re: [gmx-users] Justin-lipid tutorials..

Thank you Justin.. I am sorry Because I am going to ask you the stupid questions but very imp to me ... 1. Consider your Tutorial In that Instead of using vanderwall radii adjustment to add water , I wish to use keepbyz.sh script ... In these case What would be the value of Lower and

Re: [gmx-users] Justin-lipid tutorials..

On 5/19/12 9:06 AM, rama david wrote: Thank you Justin.. I am sorry Because I am going to ask you the stupid questions but very imp to me ... 1. Consider your Tutorial In that Instead of using vanderwall radii adjustment to add water , I wish to use keepbyz.sh script ... In