A file format for exchanging computational models in systems biology
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.
Octave Eclipse GUI
Octave development environment built upon Eclipse's Dynamic Languages Toolkit (http://www.eclipse.org/dltk/). Distributed as an Update site for Eclipse 3.7 Indigo and Indigo-based package for several platforms. Supports search, autocompletion, launching scripts, interactive console, debug and integrated plotting on Octave versions 3.2.x, 3.4.x and 3.6.x. The current goal is to make it running out-of-box on multiple platforms. Currently only Linux and Windows are supported. Mac support is possible. The project needs a maintainer for Mac version, since I don't have Mac to build Octclipse and test it on this platform. Also, it is worth to support Eclipse 4.0 Juno with DLTK 4.
Projeny (Probablistic Networks Generator in Java) is a graphical (Java SWT) front-end to BNT (Bayes Net Toolbox for Matlab). Projeny requires BNT, JMatLink and a Matlab back-end. There is no installable release package, but source code is available on SVN - please check out from SVN to use Projeny. Projeny was started with BNJ as the base.
The collection of MATLAB compatible routines for Mechanical Trading Systems. Released ta-lib - MATLAB MEX API to www.ta-lib.org . Related projects: http://sourceforge.net/projects/wlmllink and http://sourceforge.net/projects/algotrade.
compariSong is an audio tool to support query by singing/humming. It compares a database of popular songs with a hummed-by-user melody and returns the closest matches.
An open source,platform independent,technical web programming language using MATLAB in background, that supports 3-Tier Architecture (Web-Business-DB) including Distributed Computing and Parallel Processing via remote procedure calls and web services.
A community repository to develop Commodity Grid (CoG) Software for the access of Grids, through high level interfaces. The main repository is maintained at http://www.cogkit.org
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
Cyberaide is a project to develop a simple interface to advanced cyberinfrastructure for developers and users. For more information, please go to: * http://cyberaide.wiki.sourceforge.net/" or chose the "Web Site" menu item
Toolboxes for SPM (http://www.fil.ion.ucl.ac.uk/spm/) developed at Freiburg Brain Imaging (http://fbi.uniklinik-freiburg.de/)
Matlab's MAT-file I/O API in JAVA. Supports Matlab 5 MAT-flie format reading and writing. Written in pure JAVA.
Java-based scientific graphics
Java-based scientific graphics with support for Java, Groovy, MATLAB, Python, the R statistical environment, Scala and SciLab.
This site contains four packages of Mass and mass-based density estimation. 1. The first package is about the basic mass estimation (including one-dimensional mass estimation and Half-Space Tree based multi-dimensional mass estimation). This packages contains the necessary codes to run on MATLAB. 2. The second package includes source and object files of DEMass-DBSCAN to be used with the WEKA system. 3. The third package DEMassBayes includes the source and object files of a Bayesian classifier using DEMass. DEMassBayes.7z has jar file to be used with WEKA and a readme file listing parameters used. The source files are included in DEMassBayes_Source.7z. 4. The four package is MassTER includes source and JAR file to be used with WEKA system..
Plasmodium Typing Utility Software
The goal of PlaTypUS is to establish a unified Plasmodium whole genome analysis tool, that aligns short read sequences in an agreed upon manner, with many quality control steps, and calls both SNVs and CNVs in a community agreed standard way. We also seek to provide this analysis in a stand-alone graphic user interface so that labs around the world can analyze their own whole genome sequencing data, rather than relying on outside institutes.
The Databionics ESOM Tools offer many data mining tasks using Emergent Self-Organizing Maps. Visualization, clustering, and classification of high-dimensional data using databionics principles can be performed interactively or automatically.
niftilib is a collection of i/o routines for the nifti1 neuroimage data format. C (nifticlib), Java (niftijlib), Matlab (niftimatlib), and Python (pynifti) code is available. For nifti format info see: http://nifti.nimh.nih.gov/
The class libraries here provide infrastructure for creating simulations of low energy nuclear physics experiments, as well as some useful working programs that do simple simulations and analysis of experiments performed with magnetic spectrographs.
URBI: Universal Robotic Body Interface. URBI is a scripted command language used to control robots (AIBO, pioneer,...). It is a robot-independant API based on a client/server architecture. Liburbi C++/Java/Matlab are available here. Forum available at ht
Speedy Composer – Artificial Neural Network Melody Composer.
Speedy Composer is a composition software that makes use of artificial neural networks to compose melodies. Using Speedy Composer you can create an infinite number of royalty free compositions that you can use in your own projects, share with friends, or just listen for your enjoyment, all for free! Speedy Composer generates compositions complete with melodies and accompaniment, which you can download as MIDI files or MP3 files. The melodies will be composed according to the chord progression selected by you. You can choose from a number of chord progressions available. Before you can use Speedy Composer, you need to register to Speedy Net, or log-in if you already have a Speedy Net account. The melodies you compose will be saved to your personal folders on Speedy Composer, and if you want you can make your compositions public and share them with your friends. Have fun creating music with Speedy Composer!
ReactionLab is a software package aimed for a unified computer environment to kinetic modeling of chemical reaction systems. The present implementation is founded on Matlab and Java-Swing GUI, with an interface to legacy C (and Fortran) codes.
WE'VE MOVED. The code distributions for BECCA (Brain-Emulating Cognition and Control Architecture) has all been moved to www.sandia.gov/rohrer/ . Come visit!
Sustav za bežično praćenje elektrokardiograma i ranu dijagnostiku Prikaz i pohrana na prijenosnom računalu.
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).
Esra is a 100% pure java library for the interactive analysis of molecular mechanics data. Mangles your data in your favorite scripting language.
PeterHi is an initiative to provide a set of tools for education based on your existing IT infrastructure.