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  • DOCK Blaster:Prepare Ligand
    [[Category:Manual]]
    92 bytes (10 words) - 20:02, 8 October 2012
  • DOCK Blaster:Other Input Options
    [[Category:Manual]]
    87 bytes (12 words) - 20:02, 8 October 2012
  • Are critical points/spheres supported in my version of DOCK?
    Try using automated matching if manual matching seems not to work For more information on labeling spheres, go to the DOCK 6 manual on our web site at dock.compbio.ucsf.edu under Sphgen >> Output.
    656 bytes (106 words) - 00:29, 11 January 2019
  • ZINC20
    Point to PDF of the Performance section of the Arthor 3.2 manual.
    116 bytes (17 words) - 22:26, 12 June 2020
  • DOCK Blaster:Other Options
    [[Category:Manual]]
    164 bytes (26 words) - 20:02, 8 October 2012
  • DOCK Blaster:Results
    [[Category:Manual]]
    69 bytes (8 words) - 20:02, 8 October 2012
  • DOCK on cygwin
    The installation section of the DOCK manual specifies details on compiling DOCK, which might be helpful: ...pbio.ucsf.edu/DOCK_6/dock6_manual.htm#Installation Installation section of Manual]
    1 KB (197 words) - 23:38, 22 July 2014
  • DOCK 4
    * Original Manual as PDF [[Image:Dock40.pdf]]
    303 bytes (46 words) - 23:21, 10 January 2019
  • What Can Dock Do
    [[Category:Manual]]
    602 bytes (79 words) - 20:33, 8 October 2012
  • Create decoy tables
    === Old Manual Migration Method (In Case of Errors): ===
    3 KB (437 words) - 05:18, 4 March 2015
  • DOCK 6
    * Manual as a single PDF. [[Image:Dock61.pdf]] = Manual =
    2 KB (343 words) - 22:22, 10 January 2019
  • Identification of Flexible Layers
    ...gment is selected from the rigid segments in an automatic fashion (see see Manual Specification of Non-rotatable Bonds to override this behavior). The molecu
    1 KB (166 words) - 09:55, 13 March 2014
  • Parameter Parser
    [[Category:Manual]]
    1 KB (168 words) - 04:05, 14 February 2014
  • DOCK Blaster:History
    * 1982-1993: DOCK Blaster draws heavily upon the manual docking protocol developed in [[Tack Kuntz]]'s lab. * 1989-2000 Further refinements of the manual protocol in [[Brian Shoichet]]'s lab.
    3 KB (381 words) - 20:02, 8 October 2012
  • Preparing the ligand
    ==Manual way==
    5 KB (747 words) - 00:26, 17 January 2013
  • Output
    [[Category:Manual]]
    1 KB (168 words) - 04:01, 14 February 2014
  • Interacting with Chemaxon dataset
    [[Category:Manual]]
    1 KB (158 words) - 18:05, 15 February 2014
  • Docking Analysis in DOCK3.8
    == Manual Install ==
    5 KB (837 words) - 04:34, 3 March 2023
  • Ligand desolvation
    ...please see the [http://dock.compbio.ucsf.edu/DOCK_6/dock6_manual.htm DOCK6 manual].
    1 KB (227 words) - 05:34, 14 February 2014
  • Identification of rigid segments
    ...nput molecule. Additional bonds may be specified as rigid by the user (see Manual Specification of Non-rotatable Bonds).
    2 KB (239 words) - 20:27, 8 October 2012
  • Delphi electrostatics
    ...please see the [http://dock.compbio.ucsf.edu/DOCK_6/dock6_manual.htm DOCK6 manual].
    2 KB (248 words) - 04:20, 13 March 2014
  • Coloring and Subcluster Matching
    === Manual way to modify colored matching spheres ===
    8 KB (878 words) - 20:37, 12 April 2022
  • Blastermaster files
    [[Category:Manual]]
    2 KB (294 words) - 15:10, 25 March 2014
  • Sphere Matching
    (2) Manual Matching —Specify the distance and node parameters, and DOCK will generat
    2 KB (283 words) - 04:25, 14 February 2014
  • DOCK 3.6 User Manual
    ...from 1994: [http://wiki.bkslab.org/images/4/4e/Dock3_5refman.pdf DOCK 3.5 Manual] {LINK NO LONGER WORKING}
    7 KB (721 words) - 22:17, 2 January 2019
  • Macromolecular Docking
    # Flag to perform automated matching instead of manual matching
    3 KB (357 words) - 18:05, 15 February 2014
  • BKS lab Structure preparation
    ...CK Blaster pipeline. However there are some things that may still require manual intervention.
    2 KB (395 words) - 12:42, 14 March 2014
  • Chemgrid
    [[Category:Manual]]
    3 KB (365 words) - 05:24, 13 March 2014
  • Orienting the Ligand
    (2) Manual Matching &#8212;Specify the distance and node ...ng [yes] (yes, no):<br> # Flag to perform automated matching instead of manual matching
    6 KB (996 words) - 23:44, 23 March 2016
  • DOCK 3.6
    *[[DOCK 3.6 User Manual]]
    2 KB (326 words) - 22:15, 2 January 2019
  • Heather's notes
    Users manual - [http://pymol.sourceforge.net/newman/user/toc.html] or type ''help keywor
    2 KB (435 words) - 20:25, 8 October 2012
  • Omega.py
    [[Category:Manual]]
    3 KB (389 words) - 04:08, 14 February 2014
  • DOCK Blaster:Protocols
    [[Category:Manual]]
    1 KB (209 words) - 03:51, 13 March 2014
  • DOCK 3.8
    * process the results (interaction fingerprint, strain filter, clustering, manual review)
    3 KB (413 words) - 17:06, 8 April 2023
  • DOCK:FAQ
    ...res are supported in all versions of DOCK. Try using automated matching if manual matching seems not to work For more information on labeling spheres, go to the DOCK 6 manual on our web site at dock.compbio.ucsf.edu under Sphgen >> Output.
    7 KB (1,087 words) - 00:29, 11 January 2019
  • Main Page
    | [[:Category:Manual | manuals, as they are ]] || [[:Category:Topic | Topics ]] || [[Special:C
    4 KB (487 words) - 20:36, 7 May 2024
  • How I Migrated Wiki from Centos 6 to Centos 7
    According to the [https://www.mediawiki.org/wiki/Manual:Moving_a_wiki media wiki guide], the safest way to migrate is by using the ...guide on how to install autosqlbackup on Centos and how to do an automatic/manual backup]
    3 KB (537 words) - 21:28, 18 October 2022
  • DOCK Blaster:Philosophy
    * unresolvable problems. the job cannot start without manual changes by you to the input files.
    3 KB (509 words) - 20:02, 8 October 2012
  • Extended Search of Analogs via Bioisosteric Replacements
    # Time investments. Manual search in the databases takes quite some time, especially if you need to fi
    3 KB (538 words) - 06:41, 21 September 2023
  • OCI:Create account
    ...We are using the names "SlurmDynamicGroup" and "SlurmAutoScaling" (use the manual editor):
    4 KB (508 words) - 20:24, 22 March 2023
  • Loading ZINC12
    * This is often a manual step, by email, or download.
    3 KB (408 words) - 23:23, 4 January 2019
  • Omega.parm
    [[Category:Manual]]
    4 KB (557 words) - 04:10, 14 February 2014
  • Erice2010:workshop6
    ...ving an example of experimental low-resolution electron density maps and a manual model building into those maps (DNA-dependent Protein Kinase catalytic subu
    4 KB (549 words) - 20:17, 8 October 2012
  • OUTDOCK 3.7
    [[Category:Manual]]
    3 KB (392 words) - 04:33, 25 February 2014
  • Install DOCK 6
    ...idiosyncrasies in the MPI installation. One corrective approach is to use manual linking; add to the LIBS definition in config.h the link flags (-L and -l)
    4 KB (607 words) - 01:28, 2 September 2020
  • DOCK Blaster:Progress Bar
    [[Category:Manual]]
    4 KB (686 words) - 20:02, 8 October 2012
  • How to use SmallWorld API
    ...orld Documentation is found in Section 6.3 of the SmallWorld version 5.6.2 manual.
    6 KB (917 words) - 02:14, 23 January 2024
  • Arthor Documentation for Future Developer
    ...com/downloads/arthor/documentation/Arthor.pdf Here is the link to Arthor's manual] #* Add these lines in the file. Check the manual for more options.
    16 KB (2,279 words) - 18:01, 2 May 2024
  • INDOCK 3.7
    [[Category:Manual]]
    5 KB (622 words) - 23:49, 10 November 2017
  • Building The 3D Pipeline ZINC22
    ...parameters correspond to torsion driving parameters described in the omega manual: https://docs.eyesopen.com/applications/omega/omega/omega_opt_params.html#t ...to know more about how these parameters function, cross reference with the manual page.
    10 KB (1,616 words) - 18:11, 9 March 2023
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