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jSim for Gromacs is a Graphical User Interface for the Molecular Dynamics Package Gromacs. It has a project style interface to organize your md simulations. It is also possible to start md simulations on remote computers with ssh.
An implementation of "k-Way Merging" as described in "Fundamentals of Data Structures" by Horowitz/Sahni. NOTE: This project has been moved to http://code.google.com/p/kway/
In early stages of software process implantation, is hard to measure the company performance. So, this project aims to help this difficult by providing a measurement process tool for software factories continuos improvement program.
This project is an easy to use Java application framework, providing enough functionalities to be fully usable. It has been developed for a scientific articles library software, but I hope it's sufficiently generic to be usable on different contexts.
Dados Observados is a application to share Climatological data.
Climatological data, especially precipitation and reservoirs volumes measurements, are fundamental input to decision support software to natural resources managers.
Java algorithms to calculate celestial ephemerides, for astronony, and celestial navigation. Also provides the algorithms for DeadReckoning, like calculation of Estimated Altitude and Azimuth.
BioWebAuth (Biometrics for Web Authentication) is an open source Java framework intended to provide single sign-on web authentication based on BioAPI-compliant biometric software or devices. It uses the JA-SIG Central Authentication Service architecture.
The aim of this project is to provide platform independent software that supports the visualization of advanced mathematical concepts (e.g. stochastic processes, random walks, percolation, clusters, etc.).
This program compares two words (Strings), and checks whether they look alike. It is intended to be used mainly by legal/government organizations that allow company registrations and name reservations. Alpha stage - Please read the documentation.
The OpenNLP Interlinear Glossed Text (IGT) Editor software supports transcriptions and interlinear glosses for language documentation with semi-automated annotation.
Now part of Apache's Mahout machine learning project at http://mahout.apache.org/-- please see there for latest info and code and releases and support!
The main objective of the ONE project is to enrich Digital Ecosystems with an decentralised negotiation environment and enabling tools that will allow organisations to create contract agreements for supplying integrated services as a virtual organisation
DNA sequencing quality values, base calling and trace processing
Tracetuner is a tool for base and quality calling of trace files from DNA sequencing instruments. Originally developed by Paracel, a Celera Business, this code base was released as open source in 2006. TraceTuner was used by Celera to call 30+ million reads from both Drosophila and human genome sequencing projects. In 2000, Applied Biosystems bundled TraceTuner with ABI3700 Genome Analyzers and shipped it to the customers of these capillary electrophoresis sequencers. Later versions of...
JColorGrid is a Java application for graphical 2D data exploration and rendering of colorgrids, a generalization of the popular heat-map representation. The software exists as a command-line application, a graphical viewer, and an API for development.
A compiler to improve relation management between mobile users. This compiler will handle data islands for data transportation between a client mobile phone and a server node accesing a cellular network.
The ProM Import Framework allows to extract process enactment event logs from a set of information systems. These can be exported in the MXML format, which is the standard event log data format for Process Mining analysis techniques.
JOELib/JOELib2 is a cheminformatics library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available.
Software tools for visual psychophysics research. The focus of these tools is amblyopia research, but they can be used in some related visual neuroscience research tasks.
VT-Layer is a Java library for discrete-event simulation modeling. VT-Layer allows you to create, visualize, and analyze high-performance discrete-event simulations.
The CodeTime platform covers every aspect of parallel software from authoring, through distribution, to run-time. Its goals are: high programmer productivity; write once, run high performance anywhere; and wide acceptance.