FRED Fast Rigid Exhaustive Docking

Previous: 6.6 Ligand+Structure based design Up: FRED Fast Rigid Exhaustive Next: 7.1 Execute Options

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7. Parameters

This chapter documents all the command line flags FRED can accept.

• 7.1 Execute Options
• 7.2 Input Ligands
  • 7.2.1 MASC Preparation
• 7.3 Receptor Site
  • 7.3.1 Creating Receptor Site
• 7.4 Docking
  • 7.4.1 Exhaustive Search
  • 7.4.2 Optimization
  • 7.4.3 Consensus Structure
  • 7.4.4 Force Field Refinement
• 7.5 Scoring
  • 7.5.1 Standard Scoring Functions
  • 7.5.2 MASC Scoring Functions
• 7.6 Output

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				FRED Fast Rigid Exhaustive Docking

Previous: 6.6 Ligand+Structure based design Up: FRED Fast Rigid Exhaustive Next: 7.1 Execute Options

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Documentation released on August 12, 2008.