AFITT 3.0.1.1

• Overview
• Applications
• Utility Programs
• FLYNN
  • Overview
  • Example Commands
    • Basic Usage
    • Generating Reports
    • Choosing box regions of density
    • Choosing density close to residues
    • Choosing MTZ columns
    • Fragment usage
  • Command Line Help
  • Required Parameters
  • Optional Parameters
    • Input Options
    • MTZ File Options
    • Advanced Options
    • Fragment Fitting Options
    • 3D Construction Options
  • Usage Notes
    • Minimum Requirements
    • Types of input ligands
    • Stereochemistry Enumeration
    • Refinement Dictionaries
    • REFMAC5 refinement dictionaries
    • Looking up known residues
    • MMFF94 versus MMFF94s forcefields
    • FLYNN and writing CIF Files
    • Results on The Gold Test Set
• Coot Integration
  • Overview
  • Using FLYNN
    • FLYNN Advanced Options
  • Using WriteDict
    • WriteDict Advanced Options
    • planarAniline option
  • Using RotFit
    • ROTFIT options
  • Installing Coot Interface
    • Coot
    • WinCoot 0.9.4.1+
    • WinCoot 0.3.3 to 0.8.9.2
• Utilities
  • AlignGrid
    • Overview
    • Example Commands
    • Command Line Help
    • Required Parameters
    • Optional Parameters
  • RotFit
    • Overview
    • Example Commands
    • Command Line Help
    • Required Parameters
    • Optional Parameters
  • Rscc
    • Overview
    • Example Commands
    • Command Line Help
    • Required Parameters
    • Optional Parameters
  • WriteDict
    • Overview
    • Example Commands
    • Command Line Help
    • Required Parameters
    • Optional Parameters
• Theory
  • Fragment Fitting
• Release History
  • AFITT 3.0.1
  • AFITT 3.0.0
    • New Features
  • AFITT 2.6.5
  • AFITT 2.6.4
  • AFITT 2.6.3
  • AFITT 2.6.2
  • AFITT 2.6.1
  • AFITT 2.6.0
    • New features
  • AFITT 2.5.3
    • Minor Bug Fixes
    • Documentation Changes
  • AFITT 2.5.2.0
  • AFITT 2.5.1
  • AFITT 2.5.0
  • AFITT-CL 2.4.1
    • Platform Support
    • Coot Support
    • Bug Fixes
  • AFITT-CL 2.4.0
    • Platform Support
    • FLYNN
    • WRITEDICT
    • ROTFIT
  • AFITT-CL 2.3.0
    • Other
    • WRITEDICT
    • FLYNN
    • COOT Integration
  • AFITT-CL 2.2.0
    • WRITEDICT
    • FLYNN
  • AFITT-CL 2.1.1
    • WRITEDICT
    • FLYNN
  • AFITT-CL 2.1.0
    • WRITEDICT
    • FLYNN
  • AFITT-CL 2.0.1
    • WRITEDICT
    • FLYNN
  • FLYNN 2.0.0
• Citation