Open Source Java Scientific/Engineering Software

The Systems Biology Markup Language (SBML) is an XML-based description language for representing computational models in systems biology. Visit the project web site to learn more.

EBF, which stands for Efficient Binary Format, is a binary file format for reading and writing binary data easily. Reading writing routines are currently available in C,C++,Fortran,Java, Python, IDL, MATLAB. A program called ebftkpy which has a set of utility functions to work with the .ebf files , e.g., viewing the contents and getting a summary, is also provided. The EBF specification is designed to be concise and easy to understand to make it easier for others to write their own code if needed. It is also designed to simplify the programming of input output routines in different programming languages. In a nutshell an EBF file is a collection of data objects. Each data object is specified by a unique name and a single file can have multiple data objects. Each data object is preceded by a meta-data or header which describes the binary data associated with it. Among other things, this header allows the files to be portable across systems with different endianess.

Tools for mass spectrometry, especially for protein mass spectrometry and proteomics: Quantification tools, converters for Applied Biosystems (Q Star and Q Trap), calculation of in-silico fragmentation spectra, converter for Mascot result files

APEX Tools is a collection of utilities used in conjunction with the processing of airborne hyperspectral data developed for the ESA-Prodex supported Airborne Prism EXperiment (APEX).

Hardware controller software for electronic music, games and special needs users. - Firmware for NXP ARM - USB data transfer to host with a custom protocol - Open Sound Control server on host (Mac or Win) for access to device data and device control.

A service-oriented, single-source, Java integration server with virtual Service Stores(TM) that expose services via web services, HTTP and more. Service Flows provide process automation. Mainframe, database, email, web, soap & ftp adapters are included.

The Virtual Laboratory for Earth and Planetary Materials (VLab) collaborative GRID-based environment. Concentrating on scientific computation workflows and auto-generation of visualization services. http://vlab.msi.umn.edu