Re: [gmx-users] DSSP secondary structure

On 2/15/16 3:26 PM, mohammad r wrote: Thank you Justin, I did it by using xpm2ps and ps2pdf commands. Now I want to ask, is there any way to calculate the percentage of a-helical structure of a protein during simulation? Indeed DSSP visualize it but I want to calculate it exactly. It

Re: [gmx-users] DSSP secondary structure

Thank you Justin, I did it by using xpm2ps and ps2pdf commands. Now I want to ask, is there any way to calculate the percentage of a-helical structure of a protein during simulation? Indeed DSSP visualize it but I want to calculate it exactly. Thanks, Mohammad. On Monday, February 15,

Re: [gmx-users] DSSP secondary structure

On 2/15/16 1:31 AM, mohammad r wrote: I changed and reduced the ratio but the xpm file was not changed at all. Unfortunately there's not much I can tell you here because this is rather cryptic. It's illogical to get the same output with different input. You can calculate exactly what

Re: [gmx-users] DSSP secondary structure

I changed and reduced the ratio but the xpm file was not changed at all. On Sunday, February 14, 2016 5:05 PM, Justin Lemkul wrote: On 2/14/16 1:54 AM, mohammad r wrote: > Thank you Justin, > > I used xpm2ps command with below m2p file but the resolution was not

Re: [gmx-users] DSSP secondary structure

On 2/14/16 1:54 AM, mohammad r wrote: Thank you Justin, I used xpm2ps command with below m2p file but the resolution was not changed. I've attached the xpm file, even the legend can't be seen. is there anyway to get the result file in pdf format? m2p file (I found it in the gromacs website):

Re: [gmx-users] DSSP secondary structure

On 2/13/16 1:33 AM, mohammad r wrote: Hi, I used the "gmx do_dssp" command to get the secondary structure of the protein during the simulation but the resolution of the resulted .xpm file is very low. how can I increase its resolution? You can adjust the matrix proportions with an .m2p

Re: [gmx-users] DSSP secondary structure

Thank you Justin, I used xpm2ps command with below m2p file but the resolution was not changed. I've attached the xpm file, even the legend can't be seen.is there anyway to get the result file in pdf format? m2p file (I found it in the gromacs website): black = no ; Obsoletetitlefont =

[gmx-users] DSSP secondary structure

Hi, I used the "gmx do_dssp" command to get the secondary structure of the protein during the simulation but the resolution of the resulted .xpm file is very low. how can I increase its resolution? Thank you, Mohammad. -- Gromacs Users mailing list * Please search the archive at