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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.
The purpose of SNX is to have a modular series of components that report back to a central repository and 'AI' for pattern recognition and anomoly detection. This is to help with IDS systems, and to move to the next generation of security.
Java Inventor is a Java interface to Open Inventor. Open Inventor (http://oss.sgi.com/projects/inventor/) is a popular API for developers of 3D applications. Java Inventor uses the Java Native Interface (JNI) to access the Open Inventor C++ libraries.
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.
Cytoscape is a software platform for computational biology and
bioinformatics, useful for integrating data, and for visualizing and
performing calculations on molecular interaction networks
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A Java class library for visualizing quantitative data using two-dimensional category charts [pie, line, vertical bar, horizontal bar, scatter-plot (dot), combination, and overlay charts]. Charts are of type JComponent and BufferedImage.
FileConv is a set of utility classes that allow java programmers to load/write 3d files of various formats to/from 3d applications and convert between various file formats so that people using different 3d applications can collaborate on the same project
Xi3D is an X3D renderer and browser for 3D Web content. It contains compliant parsers for VRML'97 types, a java scenegraph, XML bindings using SAX2, a content converter, full runtime and event model, DOM Level 2, vecmath
TouchGraph provides a set of interfaces for graph visualization using force-based layout and focus+context techniques. For now only older code is available, but we are planning to release new versions as well.
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.
Rapid Visual OAI Tool (RVOT) can be used to graphically construct a OAI-PMH repository from a collection of files. The records in the original collection can be in any one of the acceptable format. The format currently supported are RFC1807,Marc,COSATI
JOpenChart is an open source Java library and toolkit for creating different kinds of charts and embedding them into web applications or Swing applications. It further supports interpolating data and plotting mathematical functions etc. pp.
FMC will provide a Model-View-Controller architecture for
developers to make Freality: an extensible metaverse, for
gaming, socializing, exploration and pretty much everything
under the virtual sun.
Atavi is an interactive genealogical data visualization tool. It uses XSLT to transform XML data into SVG (Scable Vector Graphics) images. Deploy it as a Java servlet and explore visualizations from a browser that supports SVG. GEDCOM import is planned.
A UML-based spec (implemented in Java and soon in C++) for managing geometric/geographic objects. See <a href="http://geobject.org">geobject.org</a> (<a href="http://geobject.org/GeobjectPublicLicenseV1_0.htm">Geobject Public License 1.0</a>)
ThunderGraph is another java charting library intended to draw 2D graphs. Additionally, it contains a package that presents a live component implementing zoomable, scrollable and 'hintable' graph. Written for JDK 1.1+, it may be used in MS IE applets.