Welcome to VerMoUTH’s documentation!¶

Contents:

  • General Overview
    • Installation instructions
    • Quickstart
    • General layout
    • Citing
    • References
  • Martinize 2 workflow
    • Pipeline
    • 1) Read input files
    • 2) Repair the input graph
    • 3) Resolution transformation
    • 4) Apply Links
    • 5) Post processing
    • 6) Write output
  • Technical background
    • Processor
    • Data
    • Graph algorithms
  • File formats
    • Data structures and file formats
    • Force field file (.ff)
    • Mapping files (.map & .mapping)
  • Tutorials
    • Basic usage
    • Elastic Networks
    • Gō models
    • Water biasing
    • Mutations and modifications
    • Adding new residues and links
    • Adding new modifications
  • vermouth
    • vermouth package
  • Gromacs variables
    • FLEXIBLE
    • POSRES
    • POSRES_FC

Indices and tables¶

  • Index

  • Module Index

  • Search Page

VerMoUTH

Navigation

Contents:

  • General Overview
  • Martinize 2 workflow
  • Technical background
  • File formats
  • Tutorials
  • vermouth
  • Gromacs variables

Related Topics

  • Documentation overview
    • Next: General Overview
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