BioJava Core

BioJava Structure GUI

This module deals with bioinformatics web services that could be used to process Biojava objects in a useful manner.

The Symja io module

The Markdown math enriched document to HTML converter

The BioCommons library contains classes to work with 2D and 3D structural bioinformatics data. There are parsers for PDB and mmCIF files and many formats of 2D structure with classifications and notations used in the literature, as well as ...

TASSEL is a software package to evaluate traits associations, evolutionary patterns, and linkage disequilibrium.

PHG - Practical Haplotype Graph

jmzQC is the Java reference implementation to read, create, validate and write the mzQC format.

InterMine bio modules

Biojava and ADAM integration.