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- 08:49, 23 July 2021 Molecular Dynamics Algorithms (hist | edit) [1,959 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Technical Details / Molecular Dynamics Algorithms ---- =AMBER= Both sander and pmemd from the [https://ambermd.org AMBER] package use...")
- 15:20, 22 July 2021 CST:Utilities (hist | edit) [216 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Constrained Dynamics / CST:Utilities ---- {{CONUtils}} The constrained dynamics method is implemented and managed by the...")
- 15:19, 22 July 2021 CST:Post-processing (hist | edit) [101 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Constrained Dynamics / CST:Post-processing ----")
- 15:19, 22 July 2021 CST:Examples (hist | edit) [94 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Constrained Dynamics / CST:Examples ----")
- 15:17, 22 July 2021 CST:Constraints (hist | edit) [2,028 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Constrained Dynamics / CST:Constraints ---- __NOEDITSECTION__ __NOTOC__ Each constraint used in the constrained dynamics...")
- 15:16, 22 July 2021 CST:Controls (hist | edit) [2,436 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Constrained Dynamics / CST:Controls ---- __NOEDITSECTION__ __NOTOC__ The behaviour of the constrained dynamics is control...")
- 12:50, 22 July 2021 Overview (hist | edit) [2,125 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Overview ---- PMFLib is a toolkit, which implements several methods for free energy calculations employing biased molecular dynamics simula...")
- 10:59, 22 July 2021 PMF Accumulator (hist | edit) [1,777 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Technical Details / PMF Accumulator ---- TBW")
- 10:59, 22 July 2021 Online Algorithms (hist | edit) [86 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Technical Details / Online Algorithms ---- TBW")
- 10:56, 22 July 2021 Technical Details (hist | edit) [242 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Technical Details ----")
- 08:47, 22 July 2021 Umbrella Sampling - Adaptive Biasing Force Method (hist | edit) [370 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Umbrella Sampling - Adaptive Biasing Force Method ---- __NOEDITSECTION__ ==Contents== * Umbrella Sampling - Adaptive Biasin...")
- 08:45, 22 July 2021 Adaptive Biasing Potential Method (hist | edit) [356 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Methods / Adaptive Biasing Potential Method ---- __NOEDITSECTION__ ==Contents== * Adaptive Biasing Potential Method#Description|ABP:D...")
- 14:55, 21 July 2021 CV:ORAD2 (hist | edit) [1,475 bytes] Durnik (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / CV:ORAD2 ---- {{CVS}} ===Definition=== The radial distance of the point from z-axis of re-orie...")
- 14:44, 21 July 2021 CV:OPOS2 (hist | edit) [1,395 bytes] Durnik (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / CV:ORAD ---- {{CVS}} ===Definition=== The radial distance of the point from z-axis of re-orien...")
- 13:57, 21 June 2021 CV:WORMANG (hist | edit) [1,552 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Macrocycle Threading / CV:WORMANG ---- {{CVS}} ===Definition=== Direction of an axle (gues...")
- 13:52, 21 June 2021 CV:WORMPOS (hist | edit) [1,615 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Macrocycle Threading / CV:WORMPOS ---- {{CVS}} ===Definition=== The parametric position of...")
- 13:31, 21 June 2021 Macrocycle Threading (hist | edit) [2,578 bytes] Kulhanek (talk | contribs) (Created page with "Navigation: Documentation / Collective Variables / Macrocycle Threading ---- {{CVS}}__NOEDITSECTION__ = Macrocycle Threading = PMFLib offers two collective vari...")
- 13:00, 21 June 2021 CV:NASSTPOLD (hist | edit) [2,896 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Nucleic Acids / CV:NASSTPOLD ---- {{CVS}} ===Definition=== The simple base-pair step param...")
- 12:56, 21 June 2021 CV:NASSTP (hist | edit) [2,638 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Nucleic Acids / CV:NASSTP ---- {{CVS}} ===Definition=== The simple base-pair step paramete...")
- 12:51, 21 June 2021 CV:NALSTP (hist | edit) [2,211 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Nucleic Acids / CV:NALSTP ---- {{CVS}} ===Definition=== The local base-pair step parameter...")
- 12:02, 21 June 2021 CV:NALBPP (hist | edit) [1,623 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Nucleic Acids / CV:NALBPP ---- {{CVS}} ===Definition=== The local base-pair parameters for...")
- 11:37, 21 June 2021 CV:NASBPPOLD (hist | edit) [1,909 bytes] Kulhanek (talk | contribs) (Created page with "__NOEDITSECTION__ Navigation: Documentation / Collective Variables / Nucleic Acids / CV:NASBPPOLD ---- {{CVS}} ===Definition=== The simple base-pair parameters...")