BioJava 3 tutorial:
The BioJava 3 tutorial is being hosted and developed at the BioJava tutorial project on github.
BioJava legacy tutorials:
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 1.8.x).
- Sequence basics
- Changeability basics
- Blast-like parsing (NCBI Blast, WU-Blast, HMMER)
- Walkthrough of one of the dynamic programming examples
- Installing BioSQL
- 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.