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IMAS is a Visual Analytics system for the discovery of knowledge in genomic information. IMAS enables genomic scientists to rapidly analyze and visualize a set of microbial genomic sequences using tools such as Glimmer, Blast, Clustal-W, Primer3.
Chisio is a free editing and layout tool for compound or hierarchically structured graphs based on the Eclipse Graph Editing Framework (GEF) that can be customized to build application-specific graph visualization tools by modifying its code-base.
!!! For latest version, please see !!!
http://code.google.com/p/chied
This projects hosts the worlds fastest algorithms for the labeling of point-features. It especially looks for algorithms thar are free of constraints, applicable to many scenarios (e.g., visualization, maps...) and do not need any preprocessing.
DbViz produces plots of data contained in MySQL databases. Data can be viewed by looking at line graphs, xy scatter plots, and bar graphs. This greatly simplifies data analysis.
All pairs n-body simulation of electromagnetic forces on charged particles, adapted from Nvidia SDK 3.2 sample. Uses Lorentz force from EM fields via the Biot-Savart law for moving charged particles (uses relative velocity). Relativistic.
JGraph is the most powerful, lightweight, feature-rich, and thoroughly documented open-source graph component available for Java. See the project homepage at www.jgraph.com for information and downloads.
A Java library and set of tools to quickly and easily manipulate graphs (set of nodes and edges) and dynamic graphs. The principal trait of this library is its ability to manage (create, edit, layout, display) continuously evolving graphs.
The development of this project now takes place on Github. Visit the official Graphstream website at http://graphstream-project.org
JSatTrak is a Satellite tracking program written in Java. It allows you to predict the position of any satellite in real time or in the past or future. It uses advanced SGP4/SDP4 algorithms developed by NASA/NORAD to propagate the satellite orbits.
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CThruView is an image viewer that allows mouse clicks to go through the image. Use it as tracing paper or splash screen. The image can be made semi-transparent, flipped, rotated, zoomed, always on top, clipped, moved, hidden and centered.
Nounou is a Java library for handling optical imaging data. The core consists of a modular stream of "filter blocks" that each modify or display the data. It is easily called from Mathematica and Matlab, for advanced figure output.
Interactive visualization and analysis tool for large, multidimensional data sets. NDVis integrates with databases and allows users to create visualizations by writing queries. It uses dimensional stacking, pixelization, and interaction techniques.
PyOSG is a python wrapper for the OpenSceneGraph. Version number corresponds to the version of OpenSceneGraph that PyOSG should work with (e.g. PyOSG 2.8 should work with OpenSceneGraph 2.8.x). Still in early stages, so email mday299 if any problems!
Graph visualization using hyperbolic geometry (hyperbolic trees, but also general graphs).
Applications cover web site structures, topic maps, organisational charts and wikis.
Java Data Processing Project aims to manipulate text file containing scientific data such as time/intensity scan or spectrum. Jdpp provide large flexibility to read all possible time duration and date format. It is originally design to treat MS data.
The InfoVis Toolkit is a Interactive Graphics Toolkit written in Java/Swing to ease the development of Information Visualization applications and components.
--UPDATE-- New Version is now integrated in the official PyMOL plugin repository! --UPDATE--
The BNI (Beyond Normal Interaction)- Tools is a plug in for the PyMOL molecular visualization system which adds additional functionalities and presets to the PyMOL GUI and also adds useful extended commands.
Device Independent Virtual Environment - Reconfigurable, Scalable, Extensible. A platform, device, and display independent API for developing 3D virtual environment (VE) applications. DIVERSE is comprised of DTK, DPF, DGL, and DADS.
A Java library that works with Java3D to simulate and visualize, in real-time, dynamics of multiple rigid bodies that are restricted by implicit and explicit constraints (e.g., robotics); designed for efficiency, ease-of-use, and extensibility.
jQuantum is a Java program to simulate a quantum computer, to design quantum circuits, and to visualize the execution of quantum algorithms. Another main purpose, however, is to create images in your head, and thereby - understanding.
AnaglyphCanvas3D is library for adding anaglyphs (red-green, red-cyan and so on) to the Java3D programming language. It utilizes the normal Canvas (-3D) class of Java3D and extends it for stereoscopic effects. A prototypic GUI for testing is also ava