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SysFarm Pulse is a web application for implementing Web 2.0 analytical communities (spaces), providing tools to analyze and visualize data and create a (mobile/web) community around it.
Also available as a service at http://pulse.sysfarm.com
IDEA (Interactive Display for Evolutionary Analyses) augments PAML with a graphical interface, phylogeny reconstruction using PhyML or PHYLIP, convenient and efficient parallel processing and visualizations.
PSIGHOS is a Java-based simulation library. PSIGHOS is focused on the simulation of business processes and comprises a parallel core so to reduce the execution time for large models.
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GISpatialNet is a Java-based tool for mapping network data (nodes and edges between them) to spatial coordinates; reformatting network and spatial data together; and calculating spatial network measures.
Install by saving to c:\ drive and typing the following in a command line:
java -jar c:\GISpatialNet-0.9b.jar
Data mining tool for sequences (e.g. trajectories on a map, visited web pages, etc.) that creates a succinct description of the sequences, given a taxonomy (e.g. regions and sub-regions in the map, categories and sub-categories of pages, etc.).
An online database project with database and web interface to archive, manage, search and download individual-based life history data that have been collected from wild primate populations.
A comparative map and trait visualization framework enabling visual integration of genomic data from disparate data sources and allowing rich client-side interactivity and manipulation. Extensible through plugins for new datasources and algorithms.
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
DevLogger is a software framework used to collect, monitor, and log data from any number of instruments or input devices simultaneously. Initial support provides for serial connections to Radio Shack 22-812 multimeters and My Weigh HD Scales.
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.
The NJ toolbox (njTBX) is a matlab object API, built on top of Unidata's Netcdf-Java API to facilitate netCDF model data manipulation. Development of njTBX is a part of 'An Open-Source Community Model for Coastal Sediment Transport' project.
library for capturing, storing and visualizing timeseries data
The JTimeSeries has moved to github
Please go to https://github.com/JTimeSeries/jtimeseries
The SourceForge copy has not been maintained since Sep 2012
A java library to assist with capturing and storing timeseries data/metrics. Provides facilities to publish timeseries data across a network, a lightweight server to persist series data, and client user interface components for real time visualization
DIVAT (Diagnostic Immunohistochemistry Visualization and Analysis Tool) is designed to graphically analyse comprehensive data sets of immunohistochemical results as those used in clinical diagnostic pathology.
JFlux is a java library and graphical user interface to work with flow cytometry data. In particular, it is adapted to the COPAS biosorter and can analyze expression profiles.
Protein Data Bank transformed into an SQL database with a very powerful search engine and a rich web interface. The engine combines chemical, sequence and 3D structure searches. The interface provides statistics, sequence and 3D structure alignments.
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.
The InfoVis Toolkit is a Interactive Graphics Toolkit written in Java/Swing to ease the development of Information Visualization applications and components.
Ontea - Pattern based Semantic Annotation Platform. Ontea search or create semantic meta data from text or documents using pattern based approaches. Implementation currently includes regular expressions (regex) patterns
Graph visualization using hyperbolic geometry (hyperbolic trees, but also general graphs).
Applications cover web site structures, topic maps, organisational charts and wikis.
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.