In the beginning, just one quick paragraph of how to get access to BioJava.
BioJava is open source and you can get the code from Github, however it might be easier this way:
BioJava uses Maven as a build and distribution system. If you are new to Maven, take a look at the Getting Started with Maven guide.
As of version 4, BioJava is available in maven central. This is all you would need to add BioJava dependencies to your project in the pom.xml file:
<dependencies>
...
<dependency>
<!-- This imports the latest SNAPSHOT builds from the protein structure modules of BioJava.
-->
<groupId>org.biojava</groupId>
<artifactId>biojava-structure</artifactId>
<version>4.2.0</version>
</dependency>
<dependency>
<!-- This imports the latest SNAPSHOT builds from the protein modfinder modules of BioJava.
-->
<groupId>org.biojava</groupId>
<artifactId>biojava-modfinder</artifactId>
<version>4.2.0</version>
</dependency>
<!-- other biojava jars as needed -->
</dependencies> If you run
mvn package
on your project, the BioJava dependencies will be automatically downloaded and installed for you.
Navigation: Home | Book 6: The ModFinder Modules | Chapter 1 : Installation
Next: Chapter 2 : How to get the list of supported protein modifications