Molecule Tutorials - Herong's Tutorial Examples
∟Relocated Tutorials
Provides a list of tutorial notes and example codes that were included in previous versions of this book and are now relocated to other books.
The following tutorial notes and example codes have been moved
to "Cheminformatics Tutorials - Herong's Tutorial Examples"
at
https://www.herongyang.com/Cheminformatics.
- "What Is RDKit"
- Provides a quick introduction of RDKit, a collection of cheminformatics
and machine-learning software written in C++ and Python.
- "RDKit Installation Options"
- Provides a quick introduction of RDKit installation options on Linux systems.
None of them is easy.
- "Build RDKit from Source Code on CentOS System"
- Provides a tutorial example on how to install RDKit from source code
on CentOS Linux systems, using GCC C/C++, make, cmake tools.
- "Compile, Link and Run RDKit C++ API Examples"
- Provides a tutorial example on how to compile, link and run RDKit C++ API
examples provided in the RDKit source package.
- "Try RDKit Python API"
- Provides a tutorial example on how to use the RDKit Python API. Unfortunately,
it is not working because of the missing boost_python library.
Table of Contents
About This Book
Introduction of Molecules
Molecule Names and Identifications
Molecule Mass and Weight
Protein and Amino Acid
Nucleobase, Nucleoside, Nucleotide, DNA and RNA
Gene and Chromosome
Protein Kinase (PK)
DNA Sequencing
Gene Mutation
SDF (Structure Data File)
PyMol Installation
PyMol GUI and CLI
PyMol Selections
PyMol Editing Functions
PyMol Measurement Functions
PyMol Movie Functions
PyMol Python Integration
PyMol Object Functions
ChEMBL Database - European Molecular Biology Laboratory
PubChem Database - National Library of Medicine
PDB (Protein Data Bank)
INSDC (International Nucleotide Sequence Database Collaboration)
HGNC (HUGO Gene Nomenclature Committee)
►Relocated Tutorials
Resources and Tools
Molecule Related Terminologies
References
Full Version in PDF/EPUB