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MD simulations


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[1] Analysis of helical parameter of DNA with unnatural

[2] Analysis of major groove and minor groove

[3] about "curavture" and "tangent" in dnaMD

[4] do_x3dna as a plugin for VMD and update in dnaMD

[5] local helical axis vector for strongly bent DNA

[6] How to analyze helical parameters of DNA with unnatural bases

[7] How to generate a Methylated DNA pdb file from sequence to be use in MD

[8] do_x3dna: a tool to analyze DNA/RNA in molecular dynamics trajectories

[9] Analysis of Amber .mdcrd File


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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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