Most linked-to pages

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Showing below up to 209 results in range #1 to #209.

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  1. GMIN‏‎ (35 links)
  2. OPTIM‏‎ (32 links)
  3. AMBER‏‎ (30 links)
  4. PATHSAMPLE‏‎ (29 links)
  5. CHARMM‏‎ (15 links)
  6. User:Mp466‏‎ (11 links)
  7. User:Csw34‏‎ (10 links)
  8. User:Ss2029‏‎ (8 links)
  9. DisconnectionDPS‏‎ (7 links)
  10. Setting up‏‎ (6 links)
  11. CamCASP‏‎ (6 links)
  12. Pymol‏‎ (6 links)
  13. VMD‏‎ (6 links)
  14. User:Cen1001‏‎ (6 links)
  15. GenCoords‏‎ (5 links)
  16. Finding an initial path with OPTIM and starting up PATHSAMPLE‏‎ (5 links)
  17. Compiling Wales Group codes using cmake‏‎ (5 links)
  18. Preparing an AMBER topology file for a protein plus ligand system‏‎ (5 links)
  19. PY‏‎ (5 links)
  20. PlotGMINms.tcl‏‎ (4 links)
  21. GenCoords Models‏‎ (4 links)
  22. Ellipsoid.model‏‎ (4 links)
  23. SVN setup‏‎ (4 links)
  24. Finding an initial path with OPTIM and starting up PATHSAMPLE (CHARMM)‏‎ (4 links)
  25. A guide to using SLURM to run GPU jobs on pat‏‎ (4 links)
  26. User:Jss43‏‎ (3 links)
  27. Converting between '.crd' and '.pdb'‏‎ (3 links)
  28. Jenkins CI‏‎ (3 links)
  29. Short 'sed' examples‏‎ (3 links)
  30. Submitting jobs, interactively or to a cluster queue system‏‎ (3 links)
  31. Compiling GMIN using CMAKE‏‎ (3 links)
  32. Symmetrising AMBER topology files‏‎ (3 links)
  33. List of output files for PATHSAMPLE‏‎ (3 links)
  34. Performing a normal mode analysis of a biomolecule using OPTIM (AMBER and CHARMM)‏‎ (3 links)
  35. Wales Group Version control‏‎ (3 links)
  36. Compiling GMIN with CHARMM‏‎ (3 links)
  37. Producing sexy ray-traced images‏‎ (3 links)
  38. Connecting two minima with a pathway‏‎ (3 links)
  39. DMACRYS interface‏‎ (3 links)
  40. Creating movies (.mpg) of paths using OPTIM‏‎ (3 links)
  41. Pysites.xyz‏‎ (3 links)
  42. Ellipsoid.model.xyz‏‎ (3 links)
  43. GMIN MOVES module‏‎ (3 links)
  44. Installing and setting up the MMTSB toolset‏‎ (3 links)
  45. Makerestart‏‎ (3 links)
  46. Mutational BH steps‏‎ (3 links)
  47. SuSE 10.1 workstation image‏‎ (3 links)
  48. User:Jmc49‏‎ (3 links)
  49. A guide to using SLURM to run PATHSAMPLE‏‎ (3 links)
  50. Ellipsoid.xyz‏‎ (3 links)
  51. Generating parameters using AMBER's built in General Forcefield (gaff)‏‎ (3 links)
  52. Visualising normal modes using VMD and OPTIM‏‎ (3 links)
  53. Conversion between different data file formats‏‎ (3 links)
  54. Maui compilation‏‎ (3 links)
  55. Perm-prmtop.py‏‎ (3 links)
  56. Conversion between different image file formats‏‎ (3 links)
  57. Python interface for GMIN/OPTIM‏‎ (2 links)
  58. Removing an excessive number of files from a directory - when 'rm' just isn't enough‏‎ (2 links)
  59. Short 'awk' examples‏‎ (2 links)
  60. If things go wrong...‏‎ (2 links)
  61. Removing minima and transition states from the database‏‎ (2 links)
  62. Minimizing a structure using OPTIM and CHARMM‏‎ (2 links)
  63. Alternatively, making the initial path with PATHSAMPLE itself (CHARMM)‏‎ (2 links)
  64. Using GMIN to generate endpoints (CHARMM)‏‎ (2 links)
  65. Backup strategy‏‎ (2 links)
  66. Branching and Merging‏‎ (2 links)
  67. Using AMBER 14 on the GPU and compute clusters‏‎ (2 links)
  68. Computer Office services‏‎ (2 links)
  69. Differences from Clust‏‎ (2 links)
  70. Finding bugs in latex documents that will not compile‏‎ (2 links)
  71. Getting started with SLURM‏‎ (2 links)
  72. Identifying job on a node‏‎ (2 links)
  73. Locating and extracting structures (pdbs) from a REX simulation‏‎ (2 links)
  74. Loading coordinate files into VMD with the help of an AMBER topology file‏‎ (2 links)
  75. Mek-quake initial setup notes‏‎ (2 links)
  76. Path2xyz.py‏‎ (2 links)
  77. Piping and redirecting output from one command or file to another‏‎ (2 links)
  78. Quasi-continuous interpolation for biomolecules‏‎ (2 links)
  79. If you lost file min.data, but still you have points.min‏‎ (2 links)
  80. Using BHINTERP to find minima between two end points‏‎ (2 links)
  81. OPTIM output files‏‎ (2 links)
  82. Expanding the kinetic transition network with PATHSAMPLE‏‎ (2 links)
  83. Pathsampling short paths‏‎ (2 links)
  84. Advanced colouring‏‎ (2 links)
  85. Bash history searching‏‎ (2 links)
  86. Using GMIN and OPTIM with GPUs‏‎ (2 links)
  87. Wales Group‏‎ (2 links)
  88. Computing CHARMM FF energy using GMIN, MMTSB and CHARMM‏‎ (2 links)
  89. Dijkstra test.py‏‎ (2 links)
  90. CamCASP/ToDo‏‎ (2 links)
  91. Producing a free energy surface using WHAM‏‎ (2 links)
  92. Keywords‏‎ (2 links)
  93. Mercurial‏‎ (2 links)
  94. Pathway Gap Filling Post-CHECKSPMUTATE‏‎ (2 links)
  95. Printing files from the command line using 'lpr'‏‎ (2 links)
  96. Producing a PDB from a coordinates and topology file‏‎ (2 links)
  97. Quick guide to awk‏‎ (2 links)
  98. Revamping the modules system‏‎ (2 links)
  99. Running programs in the background‏‎ (2 links)
  100. Simple scripts for LEaP to create topology and coordinate files‏‎ (2 links)
  101. Adding a model for PATHSAMPLE‏‎ (2 links)
  102. Adding a model to OPTIM‏‎ (2 links)
  103. Expanding the kinetic transition network with PATHSAMPLE (CHARMM)‏‎ (2 links)
  104. Bash loop tricks‏‎ (2 links)
  105. Transfering files to and from your workstation‏‎ (2 links)
  106. CHECKSPMUTATE‏‎ (2 links)
  107. Colourdiscon.py‏‎ (2 links)
  108. Global optimization of biomolecules using AMBER9‏‎ (2 links)
  109. User:Vr274‏‎ (2 links)
  110. If you need to change the number of atoms (e.g. making a united-atom charmm19 .crd file, or if atoms are missing)‏‎ (2 links)
  111. Restarting a REX simulation and combining the results‏‎ (2 links)
  112. LDAP plans‏‎ (2 links)
  113. Paramonov-yaliraki‏‎ (2 links)
  114. Pdb to movie.py‏‎ (2 links)
  115. Plotting a quick histogram in gnuplot using the raw data‏‎ (2 links)
  116. REMD with AMBER‏‎ (2 links)
  117. Rigid body input files for proteins using genrigid-input.py‏‎ (2 links)
  118. Simulations using OPEP‏‎ (2 links)
  119. Adding partially finished OPTIM stationary points to a PATHSAMPLE database‏‎ (2 links)
  120. Loading OPTIM's min.data.info files into PATHSAMPLE‏‎ (2 links)
  121. Comprehensive Contents Page‏‎ (2 links)
  122. The effect of calculating less than the maximum number of eigenvalues using ENDHESS n‏‎ (2 links)
  123. Pathsampling short paths (CHARMM)‏‎ (2 links)
  124. Basic linux commands everyone should know!‏‎ (2 links)
  125. Upgrading destiny‏‎ (2 links)
  126. Using VMD to display and manipulate '.pdb' files‏‎ (2 links)
  127. CamCASP/Programming‏‎ (2 links)
  128. SVN Page‏‎ (2 links)
  129. GAMESS‏‎ (2 links)
  130. Global optimization of biomolecules using AMBER9 with Structural Restraints‏‎ (2 links)
  131. Installing GROMACS on Clust‏‎ (2 links)
  132. Running a REX simulation with CHARMM‏‎ (2 links)
  133. PlotGMINMs.tcl‏‎ (2 links)
  134. MMTSB-toolset‏‎ (2 links)
  135. Mounting sharedscratch locally‏‎ (2 links)
  136. Pele‏‎ (2 links)
  137. Plotting data in real time‏‎ (2 links)
  138. Rotamer moves in AMBER‏‎ (2 links)
  139. Sorting a file by multiple columns‏‎ (2 links)
  140. Optimising a path‏‎ (2 links)
  141. DISCOTRESS‏‎ (2 links)
  142. Calculating binding free energy using the FSA method‏‎ (2 links)
  143. Using tar and gzip to compress/uncompress files‏‎ (2 links)
  144. Xfig‏‎ (2 links)
  145. Connecting Sub-databases‏‎ (2 links)
  146. DMAGMIN setup‏‎ (2 links)
  147. CamCASP/Programming/5‏‎ (2 links)
  148. Global optimization of biomolecules using CHARMM‏‎ (2 links)
  149. Latex2html‏‎ (2 links)
  150. Performing a hydrogen-bond analysis‏‎ (2 links)
  151. Progress‏‎ (2 links)
  152. Rama upgrade‏‎ (2 links)
  153. Running GMIN with MD move steps AMBER‏‎ (2 links)
  154. Calculating rate constants (GT and fastest path)‏‎ (2 links)
  155. Path.info file is not read, causes PATHSAMPLE to die‏‎ (2 links)
  156. Debugging odd transition states in OPTIM‏‎ (2 links)
  157. Automatic Rigid Body Grouping‏‎ (2 links)
  158. Biomolecules in PATHSAMPLE‏‎ (2 links)
  159. Uploading non image files to the wiki‏‎ (2 links)
  160. Calculating energy of a conformation‏‎ (2 links)
  161. Xmakemol‏‎ (2 links)
  162. Constructing Free Energy Disconnectivity Graphs‏‎ (2 links)
  163. David's .inputrc file‏‎ (2 links)
  164. User:Ajs1‏‎ (2 links)
  165. GMIN SANITY module‏‎ (2 links)
  166. Gnuplot‏‎ (2 links)
  167. Installing packages on your managed CUC3 workstation‏‎ (2 links)
  168. User:Hk286‏‎ (2 links)
  169. PYGMIN & DMACRYS‏‎ (2 links)
  170. Perm-pdb.py‏‎ (2 links)
  171. Proposed changes to backup and archiving‏‎ (2 links)
  172. Recommended bash aliases‏‎ (2 links)
  173. Calculating rate constants (SGT, DGT, and SDGT)‏‎ (2 links)
  174. Relaxing existing minima with new potential and creating new database‏‎ (2 links)
  175. Instanton tunneling and classical rate calculations with OPTIM‏‎ (2 links)
  176. Setting up (CHARMM)‏‎ (2 links)
  177. Aux2bib‏‎ (2 links)
  178. Biomolecules in the energy landscape framework‏‎ (2 links)
  179. Useful .vmdrc file‏‎ (2 links)
  180. Xmgrace‏‎ (2 links)
  181. CPMD‏‎ (2 links)
  182. Compiling and using GMIN with QUIP‏‎ (2 links)
  183. User:Am592‏‎ (2 links)
  184. Decoding heat capacity curves‏‎ (2 links)
  185. Evaluating different components of AMBER energy function with SANDER‏‎ (2 links)
  186. GMIN TESTS module‏‎ (2 links)
  187. Generating parameters using RESP charges from GAMESS-US‏‎ (2 links)
  188. Linear and non-linear regression in gnuplot‏‎ (2 links)
  189. New mek-quake‏‎ (2 links)
  190. Parameter-scanning script‏‎ (2 links)
  191. Setting up aliases to quickly log you in to a different machine‏‎ (2 links)
  192. Finding an initial path between two end points (minima)‏‎ (2 links)
  193. Relaxing existing transition states with new potential and creating new database‏‎ (2 links)
  194. Minimizing a structure using OPTIM and AMBER9‏‎ (2 links)
  195. Alternatively, making the initial path with PATHSAMPLE itself‏‎ (2 links)
  196. Using GMIN to generate endpoints‏‎ (2 links)
  197. Tardis scheduling policy‏‎ (2 links)
  198. Using 'ssh-keygen' to automatically log you into clusters from your workstation‏‎ (2 links)
  199. Calculating order parameters‏‎ (2 links)
  200. Density of states and thermodynamics from energy distributions at different temperatures‏‎ (2 links)
  201. Extractedmin2pdb.py‏‎ (2 links)
  202. Generating pdb, crd and psf for a peptide sequence‏‎ (2 links)
  203. Extracting information from a REX simulation‏‎ (2 links)
  204. Loading AMBER prmtop and inpcrd files into Pymol‏‎ (2 links)
  205. Mek-quake Queueing system‏‎ (2 links)
  206. Notes on AMBER 12 interface‏‎ (2 links)
  207. Path2pdb.py‏‎ (2 links)
  208. Pgprof‏‎ (2 links)
  209. Preparing an AMBER topology file for a protein system‏‎ (2 links)

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