BioJava is an open-source framework for building tools for biological data analysis; including manipulating sequences, file parsers, CORBA interoperability, DAS, access to ACeDB, dynamic programming, and simple statistical routines. Bioinformatics programs, from simple scripts to complete applications, can be built using BioJava.
To load this software in a Linux environment run the command:
module load biojava
Writing Java classes is outside the scope of this document, but below is an example of how to use a BioJava package in your code:
package org.biojava3.core
or an individual class:
import org.biojava3.core.sequence.ProteinSequence
More information, including documentation and tutorials, may be found at the BioJava homepage
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