Awesome Open Source
Awesome Open Source


Java utilities for Bioinformatics

Build Status

Last commit


Documentation is available at:


February 2019. I'm moving to java OpenJdk. See the [[NEWS]] file.

Each tool is compiled independently of each other.

See the documentation for each tool at All the pages should include a paragraph titled 'Download and Compile'

You shouldn't try to compile all the tools because some of them are not tested, deprecated, or just too specific to my lab.


Pierre Lindenbaum PhD


Related Awesome Lists
Top Programming Languages
Top Projects

Get A Weekly Email With Trending Projects For These Topics
No Spam. Unsubscribe easily at any time.
Java (388,770
Compile (9,069
Bioinformatics (4,555
Genomics (1,720
Biology (1,231
Openjdk (1,223
Ngs (863
Next Generation Sequencing (104