BioJava:Tutorial

From BioJava

The following tutorials are currently available - more are always welcome! While reading these, you will probably also want to refer to the JavaDoc API documentation (latest biojava 1.6).

• Sequence basics
  • Symbols and SymbolLists
  • Sequences and Features
  • Sequence I/O basics
• Changeability basics
  • ChangeEvent overview
  • ChangeEvent example using Distribution objects
  • Implementing Changeable
• Blast-like parsing (NCBI Blast, WU-Blast, HMMER)
  • Blast-like Parsing Cook Book
  • Blast2HTML Example Application
• Walkthrough of one of the dynamic programming examples
• Installing BioSQL
• Multi-Alignment using ClustalW and BioJava
• Approaches to Web Development for Bioinformatics

The BioJava in Anger page offers cookbook-style tutorials about performing many common tasks in BioJava.

Additionally, a number of small demo programs can be found in the demos directory of the BioJava source distribution.

For the German audience: The Java Magazin published in the issue 2.2005 an article about BioJava which is also available online.