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In Systems Biology models are created in various formats (Matlab, Java, C/C++, Python, ...). "Annotate Your Model" will help you to link your model to biological web resources by creating a CSV file containing MIRIAM annotations.
The Virtual Commons (http://commons.asu.edu) is an open software initiative devoted to computational experiments on collective action and resource governance and funded by Arizona State University's Center for Behavior, Institutions, and the Environment (http://cbie.asu.edu).
NOTE: we've moved our development to GitHub at https://github.com/virtualcommons - please look for the latest versions there.
PowerTalk automatically speaks Microsoft PowerPoint presentations. For presenters who find speaking difficult, audiences containing people with visual impairments and fun educational uses. Uses synthesised computer speech provided with Windows
This Project moved to https://sourceforge.net/projects/synbiowave/ because the name GeneWave is a registered trademark... Please do not use this project anymore.
PepT-IDE is a protein analysis tool that is used for multiple sequence alignment, 3D visualization and displaying protein contact maps for protein sequences and structures. It also has feedback communication between the different views of the protein.
JLink lets users author flow charts based on ISO 5807 and IBM standards. Developers can use JLink to add flowcharts to applications, serve a flow chart over the web in PDF or PNG, or dynamically create a flowchart with Javascript, Python or Ruby scripts
Wattos is a collection of mostly Java programs for Structural Biology and NMR Spectroscopy. It's programs analyze, annotate, parse, archive, and disseminate experimental NMR data deposited by authors world wide into the PDB and BMRB.
The goal of zAutomation project is to design/implement hardware, firmware and software for remote control and monitoring of physical objects, by using the ZigBee technology and internet. The field of application is robotics and domotics.
PARs is a bioinformatics tool for the analysis of cis-regulatory DNA sequences. Composed of two parts: a suite of sequence analysis algorithms for predicting cis-binding sites in DNA sequences and a GUI for visualisation and exploration of the results.
DrPangloss is a python implementation of a three operator genetic algorithm, complete with a javaswing GUI for running the GA and visualising performance, generation by generation
The Campaign Simulator is an attempt to statistically model and predict the outcome of an American presidential election; several users assume the roles of competitive candidates and inflict the repercussions of certain decisions on a GSS based dataset.
A configurable knowledge management framework. It works out of the box, but it's meant mainly as a framework to build complex information retrieval and analysis systems. The 3 major components: Crawler, Analyzer and Indexer can also be used separately.
openSputnik is a robust distributed platform for massive scale precalculation of genetic and genomic data using contemporary bioinformatics methods. Annotated DNA, RNA and protein sequences are stored as binary objects in a variery of relational database
A Java software for 3D visualization of graphs/networks. It implements many graph layout algorithms (such as force-directed methods), graph generators (such as scale-free networks) and graph modifiers. Most functions can be accessed through its GUI.
ImageJ is a public domain Java image processing program inspired by NIH Image for the Macintosh. It runs, either as an online applet or as a downloadable application, on any computer with a Java 1.1 or later. HOME @ http://rsb.info.nih.gov/ij/
The OO component based XML processing framework.The goal is to make the XML developer's life easier.It's going ot achieve that by providing reusable components for all stages of XML processsing with easy language and application binding.
idyuts is \"I Dare You to Use This Shell\"; a pre-hibernate approach to replacing an ORM written with jython functors into a pure-Java language command pattern. The \"pipeline codegen artifacts\" are simple IoC templates, and trivial to adapt
This project is an initial reference implementation of the VSI-E protocol. The implementation has been done using the C/C++ language and is in the form of a re-useable library developed on the Linux platform.