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Using AutoDock 3 for Virtual Screening [1%] by morris, 2008-01-29 04:30
This teaches you not only how to use AutoDock 3 to perform virtual screening, but also a lot about using UNIX to organize and process large numbers of files, ...
Introduction to Virtual Screening Tutorial [3 MB, PDF] [1%] by morris, 2006-08-26 00:18
Introduction to Virtual Screening Tutorial -- presentation slides [3 MB] in Adobe PDF format.
Using AutoDock 3.0.5 with AutoDockTools [1%] by morris, 2006-10-16 18:20
This tutorial teaches you how to use AutoDockTools 3.0.5 to set up AutoGrid grid map calculations, how to set up AutoDock dockings, and how to analyse your ...
Input files for the tutorial [4 MB, tar.gz] [1%] by morris, 2006-08-26 00:07
Input files for the tutorial in tar.gz format. On Mac OS X, the StuffIt Expander application will just expand this automatically for you. Otherwise, at the ...
Using AutoDock with AutoDockTools [855 KB, PDF] [1%] by morris, 2006-08-26 00:07
Step-by-step instructions to help you get started [855 KB] in Adobe PDF.
Get Directions [1%] by morris, 2007-05-08 11:35
A Google map showing our location, and a link to "Get Directions".
windowZ Tool [1%] by morris, 2006-08-25 19:59
Map [1%] by morris, 2007-05-08 11:34
This map shows you the location of the Olson Laboratory at The Scripps Research Institute. Click on the placemark to download a PDF map of the TSRI campus.
Programs & Scripts by Mihaly Mezei [1%] by morris, 2008-01-09 10:43
Programs and scripts for virtual screening using AutoDock written by Mihaly Mezei, to help with (i) preparing the ligand set, (ii) running the dockings ...
BDT [1%] by morris, 2006-08-28 18:35
BDT (VaquƩ et al., 2006) helps with such tasks as: (a) using receptor flexibility during docking; (b) the automatic docking of a large library of ligands onto ...
ADT [1%] by morris, 2006-10-16 18:19
ADT / AutoDockTools is the graphical user interface that is developed in the MGL (Molecular Graphics Laboratory) to assist in setting up AutoGrid and AutoDock ...
Links [1%] by morris, 2007-06-20 16:35
Links section.
Error References [1%] by morris, 2006-08-28 18:21
Error reference section.
Cross Docking [1%] by morris, 2006-08-28 18:34
The process of taking a series of complexes of ligand-receptor pairs, and docking every ligand to every receptor. This can be interesting to study the ...
Redocking [1%] by morris, 2006-08-28 18:34
The process by which a ligand taken from the structure of a complex of it with a receptor, and docked to the "induced-fit" form of the receptor. This is often ...
GLG [1%] by morris, 2006-08-28 18:34
Grid LoG file; the file format output by AutoGrid.
DLG [1%] by morris, 2006-08-28 18:34
Docking LoG file; the out file format from AutoDock
GPF [1%] by morris, 2006-08-28 18:34
Grid Parameter File; the input file format used by AutoGrid
DPF [1%] by morris, 2006-08-28 18:34
Docking Parameter File; the input file format used by AutoDock.
Glossary Definitions [1%] by morris, 2006-08-28 18:09
Glossary of terms.
I used "get-dockings" to extract the docked conformations. Where is the macromolecule? [1%] by morris, 2007-03-24 13:30
I used "get-dockings" to extract the docked conformations. Where is the macromolecule?
Reference Manuals [1%] by morris, 2009-02-19 15:28
Reference manuals for larger projects.
Tutorials [1%] by morris, 2006-08-26 00:12
Detailed tutorials.
How-tos [1%] by morris, 2007-12-18 16:48
This section provides step-by-step instructions for how to accomplish common tasks with AutoDock. There are two intended audiences, named "User" and ...
I get very high Reference RMSD values in my DLG; what went wrong? [1%] by morris, 2007-03-24 13:29
I get very high Reference RMSD values in my DLG (docking log file); what went wrong?
FAQs [1%] by morris, 2007-07-19 17:31
Frequently Asked Questions (& Answers!)
How can I prevent a segmentation fault when trying to run AutoDock 3? [1%] by morris, 2007-03-19 22:56
The first time I try to run AutoDock, I get a "segmentation fault" error. How can I fix it?
FAQs & Help [1%] by morris, 2012-11-27 10:05
Click on "latest faqs" to list all the Frequently Asked Questions. Also, check out "http://mgltools.scripps.edu/documentation/" for additional help on ADT.
Introduction [1%] by morris, 2006-08-15 15:11
What's New in AutoDock 4
AutoGrid [1%] by morris, 2006-08-15 10:12
What is AutoGrid?

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