AMPAL Documentation

Welcome to the documentation for the AMPAL module. AMPAL stands for Atom, Monomer, Polymer, Assembly and Ligand and is a simple, intuitive and Pythonic framework for representing biomolecular structure.

Contents:

• Installation
  • Basic Install
  • Installing from Source
• Introduction to AMPAL
  • 1. Converting PDB files to AMPAL Objects
  • 2. Basic Analysis
  • 3. Selecting Chains
  • 4. Selecting Residues
  • 5. Selecting Atoms
  • 6. AMPAL Parents
  • 7. Ligands
  • 8. Summary and activities
• Advanced Selections
  • 1. Selecting All Residues or Atoms
  • 2. Analysing Composition
  • 3. Distance Analysis
  • 4. Is Within
  • 5. Geometry in AMPAL
  • 6. Summary and activities
• API Reference
  • ampal package

Indices and Search

• Index

• Module Index

• Search Page