Difference between revisions of "Rizzo Lab Information and Tutorials"
From Rizzo_Lab
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| + | == DOCK == | ||
| + | {| cellpadding=0 width=90% | ||
| + | *[http://dock.compbio.ucsf.edu/DOCK_6/dock6_manual.htm Online Users Manual] | ||
| + | *[[Tutorials]] | ||
| + | *[[Benchmarking]] | ||
| + | *[[Testset Protocols]] | ||
| + | *[[Scoring Functions]] | ||
| + | *[[Sampling Methods]] | ||
| + | *[[Analog Library - Pubchem & Zinc]] | ||
| + | *[[ZINC12 Database]] | ||
| + | *[[ZINC15 Database]] | ||
| + | *[[DOCK Installation]] | ||
| + | *[[Optimize Polar Hydrogens]] | ||
| + | *[[Virtual Screening Protocol]] | ||
| + | *[[Footprint Plot Visualization]] | ||
| + | *[[Sphere Generation]] | ||
| + | *[[Release]] | ||
| + | |} | ||
| + | |||
== Visualization Software == | == Visualization Software == | ||
*[[Chimera]] | *[[Chimera]] | ||
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*[[valgrind]] | *[[valgrind]] | ||
*[[Ghostscript]] | *[[Ghostscript]] | ||
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Revision as of 10:21, 5 February 2019
Contents
DOCK
Visualization Software
Basic Linux Tools
De novo Design using DOCK
Molecular Dynamics
GROMACS
Monte Carlo
Analysis Tools
Databases
- PubChem (ligand database)
- NIST (small molecule database)
- ZINC (ligand database)
- Families in the Protein Databank
- Automated Family generation from PDB
- Drug-like organic molecules
