Hi Mohamed. Thanks so much for the video. Short, sweet and packed with information. Could you point us to tcl scripts for making a movie like this one programmatically? Thank you.
Hello sir, your video quite helped me in learning simulation, please help me out in simulating one protein with multiple ligands. is it possible with NAMD? If yes, please suggest a way. thanku.
Showing this problem during MD_Run.namd Info: USING ARITHMETIC MEAN TO COMBINE L-J SIGMA PARAMETERS FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE ./toppar_water_ions.str LINE=*set nat ?NATC* FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE ./toppar_water_ions.str LINE=*set nat ?NATC*
Hi, Your video was extremely informative. I was able to make simulation videos for one of my targets. However, in case of my second target no MPEG1 output file is generated. It says that the movie generation is complete but i dont see any other related information that comes with completion like the no. Of frames being read or the time taken for completion etc. Can u plz help me out. Wud really appreciate it
Such an informative video. Thank you very much for sharing it.
Hi..
I want movie of ligand protein complex how can I get this.?
Gracias! me ayudó mucho para mi tesis
Moore Edward Allen Angela Lee Jennifer
Hi!
Some time the enconder by mpeg should be changed to be viewed in quick time
(mac player)
thanks bro, great video!
Can I make video on VMD using all snapshots of pdb files? If it is possible, how to do it?
Hi Mohamed.
Thanks so much for the video. Short, sweet and packed with information.
Could you point us to tcl scripts for making a movie like this one programmatically?
Thank you.
Yes, sure. I posted one to do it with the GUI but I may post a scripted one soon. Thanks Ivan for the suggestion!
Hello sir, your video quite helped me in learning simulation, please help me out in simulating one protein with multiple ligands. is it possible with NAMD? If yes, please suggest a way. thanku.
How to calculate mmpbsa with vmd. How to use CaFE plugin. Please clear my doubt.
I sincerely hope the video to calculate mmpbsa with vmd too! please help me!
Thank you for sharing ur knowledge with us. Do you know whether it is possible to export VMD files to other graphic software like Maya?
A very informative and concise tutorial, thank you so much for making it!
❤
I need your help, please. How can l talk with you
Showing this problem during MD_Run.namd Info: USING ARITHMETIC MEAN TO COMBINE L-J SIGMA PARAMETERS FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE ./toppar_water_ions.str LINE=*set nat ?NATC* FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE ./toppar_water_ions.str LINE=*set nat ?NATC*
Hi, i am not able to set movie duration(in seconds). It is showing warning box that i cant change movie duration for TRajectory
Great! Video, which video quality-renderer is preferred while submitting to Journals
sure not snapshot
I have this issue when I followed your step, No VideoMach executable. Do you know what the reason for this is? Please help.
How much ns is required for a good MD simulation movie?
depends in what you want to see could be 1ns could be 1000ns :)
Hi,
Your video was extremely informative. I was able to make simulation videos for one of my targets. However, in case of my second target no MPEG1 output file is generated. It says that the movie generation is complete but i dont see any other related information that comes with completion like the no. Of frames being read or the time taken for completion etc.
Can u plz help me out. Wud really appreciate it
Very helpful video. Thank you.
thank you