ObjectDB for Java/JDO is a powerful yet compact Java Data Objects (JDO) Object Database (ODBMS), written entirely in Java, and compliant with the Java Data Objects (JDO) standard developed by Sun (JSR12). ObjectDB for Java/JDO is designed to efficiently handle databases of various sizes, ranging from a few KBs to hundreds of GBs. Among its features are small footprint, high performance, rapid development, easy deployment, and flexible architecture (1-Tier, 2-Tier, or N-Tier).
db4o is an object database for Java and all .NET environments. Its features include ACID transactions, automatic class schema recognition, query-by-example, a S.O.D.A. object querying API, native queries, LINQ support on .NET, callback methods, memory files, cascade-on-delete, multi-threaded access, and Java Webstart and servlet support.
SuperWaba is a VM for PDAs. Because of the way it was written, you can use Java to develop programs for it. It supports exceptions, threads, many user interface controls, double and long 64-bit types, grayscale, color, 3D controls, and JNI and Java libraries, among other features. The project has been superseded and replaced with TotalCross.
Bambookit GUI is a completely XML-scriptable user interface to build real-time interactive Web application front-ends. Applications occupy 100 Kb of device memory and run on any Java-enabled browser. Users can move windows, resize containers, scroll and sort tables, lists, trees, see real-time data display, use a layout manager, and more. All rendering and event handling is managed in the XML scripts.
Piccolo2D is a toolkit that supports the development of 2D structured graphics programs, in general, and Zoomable User Interfaces (ZUIs), in particular. A ZUI is a new kind of interface that presents a huge canvas of information on a traditional computer display by letting the user smoothly zoom in to get more detailed information and zoom out for an overview. It uses a "scene-graph" model that is common to 3D environments. This means that Piccolo maintains a hierarchical structure of objects and cameras.
ProteomeCommons.org IO Framework is a proper Java framework for handling spectra and peak lists. The framework can read and write to a number of different spectra and peak list formats, and it provides a simple, intuitive Java object model for working with spectra or peak lists. All classes support two methods of handling peak list and spectrum data: in-memory or stream. The goal of this framework is to support all the popular MS and MSMS data formats, and to eliminate any time or effort involved in figuring out how to read and write peak list or spectrum files.