Zeobuilder documentation

Introduction

Zeobuilder is a user-friendly GUI toolkit for the construction of advanced molecular models. The program contains several advanced tools to build, align, manipulate and analyze molecular structures. Most of its novel functionality is based on a hierarchical data-structure of reference frames to represent a molecular structure. Furthermore, Zeobuilder is extensible. The core program is compact and nearly all of the functionality is implemented through a plug-in framework.

If you use Zeobuilder for your research or for the preparation of publications, please cite the following paper: Verstraelen, T.; Van Speybroeck, V.; Waroquier, M. J. Chem. Inf. Model. 2008, 48, 1530-1541. (http://dx.doi.org/10.1021/ci8000748).

For a quick visual introduction please visit:

• Video demonstration of Zeobuilder on youtube
• Zeobuilder Screenshots
• Zeobuilder Quick Tour

Tutorial

• 1. Installation
  • 1.1. Disclaimer
  • 1.2. MolMod dependency
  • 1.3. External dependencies
  • 1.4. Installing the latest version of Zeobuilder
  • 1.5. Testing your installation
• 2. If you encounter a problem
• 3. How to cite Zeobuilder
• 4. Zeobuilder Tutorial – Getting started
  • 4.1. Introduction
  • 4.2. Getting started
  • 4.3. Common tasks
  • 4.4. Measurements
  • 4.5. Working with springs
  • 4.6. Periodic models
• 5. Zeobuilder Tutorial – Advanced
  • 5.1. The connection scanner
  • 5.2. Topological analysis
  • 5.3. Constructing tubes

Links

• IZA frameworks in Zeobuilder format