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  1. 01mi.in
  2. 04md.in
  3. 2006-2007 AMS-532 Fall-Spring
  4. 2007-2008 AMS-532 Fall-Spring
  5. 2008-2009 AMS-532 Fall-Spring
  6. 2008-2009 LAB
  7. 2008 AMS-535 Fall
  8. 2008 AMS-536 Spring
  9. 2008 RCR GROUP MEETING
  10. 2008 Spring
  11. 2009-2010 AMS-532 Fall-Spring
  12. 2009-2010 GRD-500 Fall-Spring
  13. 2009 AMS-536 Spring
  14. 2009 RCR GROUP MEETING
  15. 2010-2011 AMS-532 Fall-Spring
  16. 2010-2011 GRD-500 Fall-Spring
  17. 2010 AMS-536 Spring
  18. 2010 GRD-500 Spring
  19. 2010 LAB
  20. 2010 RCR GROUP MEETING
  21. 2011-2012 AMS-532 Fall-Spring
  22. 2011-2012 GRD-500 Fall-Spring
  23. 2011 AMS-535 Fall
  24. 2011 AMS-536 Spring
  25. 2011 GRD-500 Spring
  26. 2011 RCR GROUP MEETING
  27. 2012-2013 AMS-532 Fall-Spring
  28. 2012 AMS-535 Fall
  29. 2012 GRD-500 Spring
  30. 2012 RCR GROUP MEETING
  31. 2013-2014 AMS-532 Fall-Spring
  32. 2013 RCR GROUP MEETING
  33. 2014-2015 AMS-532 Fall-Spring
  34. 2014 AMS-535 Fall
  35. 2014 RCR GROUP MEETING
  36. 2015-2016 AMS-532 Fall-Spring
  37. 2015 AMS-535 Fall
  38. 2015 RCR GROUP MEETING
  39. 2016-2017 AMS-532 Fall-Spring
  40. 2016 AMS-535 Fall
  41. 2016 RCR GROUP MEETING
  42. 2017-2018 AMS-532 Fall-Spring
  43. 2017 AMBER tutorial with 4qmz
  44. 2017 AMS-535 Fall
  45. 2017 Denovo design tutorial 1 with PDB 1BJU
  46. 2017 Denovo design tutorial 2 with PDB 4QMZ
  47. 2017 Denovo design tutorial with PDB 1BJU
  48. 2017 Denovo refinement tutorial with PDB 1BJU
  49. 2017 RCR GROUP MEETING
  50. 2018
  51. 2018-2019 AMS-532 Fall-Spring
  52. 2018 AMBER tutorial with 1c87
  53. 2018 AMBER tutorial with 2nnq
  54. 2018 AMS-535 Fall
  55. 2018 DOCK tutorial 1 with PDBID 2NNQ
  56. 2018 Denovo design tutorial 1 with PDB 2NNQ
  57. 2018 Denovo design tutorial 2 with PDB 1C87
  58. 2018 RCR GROUP MEETING
  59. 2019-2020 AMS-532 Fall-Spring
  60. 2019 AMBER tutorial with PDBID 2BXF
  61. 2019 AMS-535 Fall
  62. 2019 Covalent docking tutorial 1 with PDB 2VKG
  63. 2019 Covalent docking tutorial 1 with PDB 5VKG
  64. 2019 DOCK GA tutorial 1 with 2NNQ
  65. 2019 DOCK tutorial 1 with PDBID 2BXF
  66. 2019 DOCK tutorial 2 with PDBID 2P16
  67. 2019 DOCK tutorial 3 with PDBID 3JQZ
  68. 2019 Denovo design tutorial 1 with PDB 2BXF
  69. 2019 Denovo design tutorial 2 with PDB 2P16
  70. 2019 RCR GROUP MEETING
  71. 2020-2021 AMS-532 Fall-Spring
  72. 2020 AMBER tutorial with PDBID 3VJK
  73. 2020 AMS-535 Fall
  74. 2020 DOCK tutorial 1 with PDBID 3VJK
  75. 2020 DOCK tutorial 1 with PDBID XXXX
  76. 2020 DOCK tutorial 2 with PDBID 2GQG
  77. 2020 DOCK tutorial 2 with PDBID XXXX
  78. 2020 DOCK tutorial 3 with PDBID 4F4P
  79. 2020 DOCK tutorial 4 with PDBID 6UZW
  80. 2020 DOCK tutorial 4 with PDBID XXXX
  81. 2020 Denovo tutorial 1 with PDBID 3VJK
  82. 2020 Denovo tutorial 2 with PDBID 2GQG
  83. 2020 Denovo tutorial 3 with PDBID 4F4P
  84. 2020 Denovo tutorial 4 with PDBID 6UZW
  85. 3D Analog Library Generation Using Pubchem and Zinc
  86. AMBER Lipid Tutorials
  87. AMS-531 Laboratory Rotations in Computational Biology
  88. AMS-532: Lab Rotations/Journal Club Guidelines
  89. AMS-532 Guidlines
  90. Activating your Seawulf Account
  91. Amber on Seawulf (compilation)
  92. Amber to mol2 (protein)
  93. Amber to pdb
  94. Analog Library - Pubchem & Zinc
  95. Analysis Tools Repository
  96. Announcements: Fall 2013
  97. Apply for cluster
  98. Archiving old data
  99. AutoDock4 Benchmark Results
  100. AutoDock4 Pose Reproduction Tutorial
  101. AutoDock Vina Benchmark Results
  102. AutoDock Vina Pose Reproduction Tutorial
  103. Automated Families generation from the Protein Databank
  104. Automated Family generation from PDB
  105. BOSS Pure Liquid Simulation Notes
  106. Blocked Standard Error of the Mean
  107. CONGA Parameter List
  108. CVS Commands
  109. C Shell Scripting
  110. Cancer
  111. Chimera
  112. Cluster compilations
  113. Clustering in R
  114. Coming Soon
  115. Common Errors - ctrl M
  116. Compiling Applications for BG/L
  117. Compiling GROMACS on Cluster
  118. Config
  119. DOCK6 POSE Reproduction
  120. DOCK Abbreviations Guide
  121. DOCK Benchmarking
  122. DOCK CV Benchmarking
  123. DOCK CV Development Goals
  124. DOCK CV Input File(s)
  125. DOCK Compilation
  126. DOCK DN Benchmarking
  127. DOCK DN Development Goals
  128. DOCK DN Input File(s)
  129. DOCK DN Parameters
  130. DOCK Denovo Refinement
  131. DOCK Denovo Run
  132. DOCK GA Developer Progress
  133. DOCK GA Development Goals
  134. DOCK GA Parameter List
  135. DOCK GA Parameters
  136. DOCK GIST Parameters
  137. DOCK Installation
  138. DOCK Release Objectives
  139. DOCK VS Benchmarking
  140. DOCK VS Development Goals
  141. De Novo Design
  142. De novo Benchmarking
  143. De novo Developer Progress
  144. Dell 5110cn Printer
  145. Disulfide.txt
  146. Drug-like organic molecules
  147. Energy Scoring Method in Grid
  148. Ethernet Cables
  149. Example of an CONGA Input file
  150. Example of an Ensemble Evolution Input file
  151. Example of an Input file
  152. Example of an Single Molecule Evolution Input file
  153. Example scripts
  154. Families in the Protein Databank
  155. Flex.in
  156. Footprint Plot Visualization
  157. Fourier fit
  158. Fragment Library Generation
  159. Gdb (GNU Debugger)
  160. General Dock Development Goals
  161. Genion.mdp
  162. Get Job ids to use for llcancel
  163. Get time estimate for free blocks
  164. Get time for job completion
  165. Ghostscript
  166. Grid.in
  167. HIV/AIDS
  168. Histograms in R
  169. INSPH
  170. Influenza
  171. Installing DOCK
  172. Installing MSMS for VMD
  173. Integration.pl
  174. Joe and Brian de novo stuff
  175. Joint Group Meeting 2007-2009
  176. Joint Group Meeting 2010
  177. Journal Articles from UCSF
  178. Ligand Enrichment Tutorial
  179. LoadLeveler Chain Jobs
  180. MOE
  181. MPICH
  182. Make Unique script usage
  183. Make surface
  184. Making images for publication using vmd
  185. Method development
  186. NAMD Amber inputs
  187. NAMD to mol2
  188. No t4 step1 inputgen.bash
  189. No t4 step2 equiprod.bash
  190. No t4 step2 min.bash
  191. No t4 step3 inputgen.bash
  192. Nonstandard residues prep
  193. Octave
  194. Optimize Polar Hydrogens
  195. Other Meetings
  196. PDFCreator
  197. Parameter List
  198. Past Announcements
  199. Pdb to mol2
  200. Per-residue energy decompositions
  201. Ps.m2p
  202. Ptraj
  203. Pylab
  204. RGD
  205. Reference.vmd.script
  206. Release
  207. Remove waters from trajectories
  208. Rename files in Unix
  209. Research Foundation
  210. Restraint.vmd.script
  211. Restraint01.pdb
  212. Restraint04.pdb
  213. Rigid.in
  214. Rizzo Lab Members and Contact Information
  215. Rizzo Lab Publications
  216. Rizzo Lab Research
  217. Rotation students Wiki
  218. Rsync
  219. Run.java.csh
  220. SB2011 testset
  221. SDF to mol2
  222. SLURM
  223. Sampling Methods
  224. Scoring Functions
  225. Seawulf Cluster Assessment
  226. Seawulf Items Needed
  227. Seawulf Programs Needed
  228. Secure Shell (ssh)
  229. Sed - Stream Editor in Unix
  230. Semester Checklist
  231. Sequence alignment
  232. Server Administration
  233. Setting up RSA SecureID token
  234. Setting up insurance through Research Foundation
  235. Setup ssh tunnel to NYBlue fen
  236. Showbox.in
  237. Showsph.in
  238. Slick awk tricks
  239. Sphere Generation
  240. Stupid awk tricks
  241. Submitting BlueGene Jobs
  242. TIMD extraction.py
  243. TIMD integration.py
  244. TIMD integration prep.py
  245. Ubq md.mdp
  246. Ubq min.mdp
  247. Ubq npt.mdp
  248. Ubq nvt.mdp
  249. Unix
  250. Unix find

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