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OmniGene is a set of reausable components that have been packaged into frameworks. These frameworks are used to produce domain specific services for common bioinformatics tasks including: visualization, database access, and pipeline building.
MathGenius is a graphical tool intended to simplify your work in mathematics. By now it includes a graphical function plotter, a mechanism (still in development) to derive functions, and an equation solver. An extension mechanism will be developed.
jATLAS is a Java implementation of ATLAS [Architecture and Tools for Linguistic Analysis Systems]. For more information, see http://jatlas.sourceforge.net.
QRay is an interactive 3D modelling system in Java. It's built-in real-time raytracing engine implements the Quadric-CSG representation model and the Seed-Fill optimization method, which empower QRay to provide cool WYSIWYG 3D modelling functionalities.
Fractal View is a fractal viewing application used for exploration of common fractal sets. It runs in fullscreen, supports four different fractal sets, has 22 different color palettes, saves in png format, does antialiasing, and zooms in all sets.
A ContextTree is a way of dynamically forming relationships between information: the same information can be viewed in different ways, depending on what you want from it.
Cytoscape is a software platform for computational biology and
bioinformatics, useful for integrating data, and for visualizing and
performing calculations on molecular interaction networks
Visualization System is a server application for presenting and manipulating XML-based adapted multimedia data, useful eg. in mobile environement. It is component based framework for additional modules developement.
Pattern recognition software package. It includes several classification and clustering algorithms. It can read data from a
set of images, an ASCII file or a JDBC connection. A small TCP data server with its corresponding JDBC driver is included.
jrgp is a strong-typed Genetic Programming system, which features a graphical interface (gool) to setup and run GP-problems and a tool (fs-d) that greatly simplifies the definition of a GP-problem.
JReferences is a tool to store and retrieve bibliographic references from a file or MySQL database.
It reads BibTeXML, DocBook XML and RIS type references, and can output these and BibTex.
A bibtex like alternative is also provided for DocBook XML docu
A java based digital logic simulator, designed to be used as an educational tool.
uses a GUI to allow users to quickly and easily create and visualise circuits from simple components. User can create custom components
The MathForge Application Environment provides users a broad range of Java-based math tools (calculation, visualization, presentation and communication via MathML) and allows developers to leverage existing code while extending MathForge.
JetSteam-3D is 3D GIS technology developed by Alchemedia. that allows the streaming of image,DEM,X3D,and WFS data to an applet. The javascript enabled applet allows the creation of 3D enabled WebGIS applications using typical AJAX techniques.
Calculates the shape of a telescope mirror from a sequence of Foucault test images. Java-based GUI simplifies entering and organizing measurement data. Logging and comparison functions enable quantification of the effects of various figuring strokes.
JPlot is a multi-purpose data plotting program for use as the graphic front-end of (scientific) software. JPlot is also available as a stand-alone application with a complete and easy-to-use graphic user interface (GUI).
Port of Numerical Python to Jython (Java Python) to support all mathematical operations (linear algebra, matrices, DSP, wavelets, FFT, arrays...) and thus compete with commercial packages such as Matlab. It can be easily embedded in Java programs.
JAMATO : JAva MAtrix TOols package
Provides an easy-to-use class of matrix with MATLAB-like functions.
Jamato also includes Data Plots in 2D or 3D, Histograms in 2D or 3D, an expression parser, and some basic statistic simulation tools.
This program is for generating 3-D regular grid files from scattered data.
It is GUI based, reads scattered data, gets options about how to make the 3-D interpolation.
A clearing house for various pieces of open source software which use the GenCAM data format for input or output of electronic interconnect (PWB, PCB, PWA, PCA) information.
SPedit is a new curation environment for the Swiss-Prot and TrEMBL databases. For more information about these databases see http://www.expasy.ch/sprot/ and http://www.ebi.ac.uk/swissprot/