Tutorials: Difference between revisions
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* [http://wiki.uoft.bkslab.org/index.php/Tools_for_protein_and_ligand_analysis Oliv's favorite tools for protein and ligand analysis] | * [http://wiki.uoft.bkslab.org/index.php/Tools_for_protein_and_ligand_analysis Oliv's favorite tools for protein and ligand analysis] | ||
== Headline text == | == Headline text == | ||
[[Category:Tutorials]] | [[Category:Tutorials]] | ||
Revision as of 00:16, 12 March 2014
- How to run and analyze a DOCK run by hand
- SGE Cluster Docking
- MUD - Michael's Utilities for Docking
- Automated Database Preparation
- Understanding MakeDOCK, which automates sphere and grid generation
- How to use the QB3 cluster
- How to generate an HEI database
- How to hold a hit picking party
- How to compile DOCK
- Using local Subversion Repository (SVN)
- Eplop
- db2multipdb.py How to decode .db files
- How to run Travel Depth analysis on the lab machines
- How to make your PyMOL background transparent
- How to link the protein targets in ChEMBL to their PDB structures
- Inspecting electron density maps
- How to run DOCK with a focusing term (internal energy) included
- How to generate ssh keys securely
- How to rsync remotely to the cluster
- How to create a vpn/ssh tunnel
- Oliv's favorite tools for protein and ligand analysis