MD simulations

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Subject / Started by	Replies / Views	Last post
A modified 3DNA parser for MD trajectory analysis Started by temizna	1 Replies 3250 Views	January 07, 2011, 09:30:39 pm by xiangjun
Ruby scripts for the analysis of MD simulation trajectories Started by xiangjun	0 Replies 3009 Views	January 19, 2011, 12:11:44 am by xiangjun
MMTSB Tool Set for CHARMM/NAMD generated trajectory DCD files Started by slaw	1 Replies 2838 Views	January 31, 2011, 07:33:45 pm by xiangjun
the sign of minor or major groove width Started by shahabshariati	3 Replies 2831 Views	February 10, 2011, 10:06:26 pm by xiangjun
3dna.pl - A Perl Script for Parsing 3DNA Output Started by slaw	5 Replies 3940 Views	February 10, 2011, 10:29:25 pm by xiangjun
Snapshots must be separated by MODEL/ENDMDL Started by temizna	1 Replies 2174 Views	March 10, 2011, 09:29:42 pm by xiangjun
average values from MD simulations Started by ara	4 Replies 3234 Views	March 20, 2011, 10:50:35 am by xiangjun
Ruby scripts / where is output file? Started by shahabshariati	13 Replies 6943 Views	April 08, 2011, 07:56:14 pm by xiangjun
Issues related to 3DNA and the MD Ruby scripts set up Started by HenryFisher	2 Replies 2588 Views	June 08, 2011, 09:36:23 pm by xiangjun
H-bonding information in MD analysis output Started by Andre	11 Replies 4879 Views	October 04, 2011, 07:25:42 am by xiangjun
Interpretation of Analysis data from 3DNA Started by souviksur	6 Replies 3927 Views	February 29, 2012, 02:52:11 am by mauricio esguerra
Analysis of PDB file Started by souviksur	1 Replies 2923 Views	April 07, 2012, 09:21:16 am by xiangjun
How to properly use x3dna_ensemble? Started by oskolkov « 1 2 »	16 Replies 10652 Views	April 17, 2012, 12:05:27 pm by oskolkov
Analysis of PDB file:query Started by souviksur	5 Replies 4484 Views	April 19, 2012, 12:18:08 pm by xiangjun
No matching entry in atomlist.dat Started by shynomat	2 Replies 2547 Views	May 02, 2012, 01:42:02 pm by shynomat
pdb files created using v 1.5 and v 2.1 beta Started by shynomat	2 Replies 2433 Views	May 29, 2012, 09:03:44 pm by xiangjun
Naming Conventions in x3dna_md output Started by gsote	1 Replies 2793 Views	June 01, 2012, 11:16:59 pm by xiangjun
fiber and gromacs Started by cridemichel	6 Replies 8407 Views	June 20, 2012, 10:29:49 am by cridemichel
About output files from x3dna_md.rb Started by Pablo Ricardo Arantes	2 Replies 3446 Views	September 07, 2012, 10:07:09 pm by Pablo Ricardo Arantes
Using find_pair Started by jdap1989	3 Replies 3060 Views	September 18, 2012, 11:33:25 pm by xiangjun

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Created and maintained by Dr. Xiang-Jun Lu [律祥俊], Principal Investigator of the NIH grant R01GM096889
Dr. Lu is currently affiliated with the Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.

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