Manual

• Contents
• Introdution
• Installation
• Format of input/output files
  • vsf structure file
  • vcf coordinate file
    • Ordered coordinate file
    • Indexed coordinate file
  • Aggregate file (agg)
• Utilities
  • AddToSystem
  • AngleMolecules
  • Aggregates and Aggregates-NotSameBeads
  • Average
  • BondLength
  • Config
  • DensityAggregates
  • DensityBox
  • DensityMolecules
  • DihedralMolecules
  • DistrAgg
  • GenSystem
  • GyrationAggregates
  • GyrationMolecules
  • JoinAggregates
  • JoinRuns
  • lmp_data
  • PairCorrel
  • PotentialAggregates
  • SelectedVcf
  • traject
  • TransformVsf
• Computational details
  • Read system data