Open Source Java Scientific/Engineering Software - Page 21

Vehikel is a learning environment for behavior based control of mobile robots. A little bit artificial intelligence based on a domain specific language for the c't Bot.

Sight provides a friendly interface to create and connect agents for bioinformatics. The workflow supports multiple responses to a single request, structure transforms, filters and request history access.Can talk with ordinary http servers (get and post)

A 3D wind tunnel simulator created in 2008 by a group of COMP314 students at The University of Waikato. The user is able to insert objects into the windtunnel and view a (very) rough simulation of the wind flowing around it. View the Wiki for detailed instructions on how to use it. Created by: Sam Sarjant, Kias Hafiz, David Spooner, Sam McIntosh, Kieran Ryan, Yong Chun Fu

Yawi 3D (Yet Another Wand for ImageJ) implements a 3D selection tool plugin for ImageJ suitable for CT scanned images; it helps in the selection of 3D Region Of Interest (ROI) containing a tumor mass; it also provides a measure of ROI volume

Adevs is a C++ library for building discrete event and mixed discrete event/continuous simulations. This repository is defunct. We have moved to https://github.com/smiz/adevs

jGABL (the Java Graph Algorithm Base Library) is a java library for the implementation of graph algorithms. It covers a hierarchy of graph concepts, various graph implementations, and algorithm animation.

Microarray Gene Expression Database Group and OMG Gene Expression Standard (MAGE)

The nlpFarm is a Natural Language Processing (NLP) resource where early research prototypes (Java) can evolve into robust and useful open source. Our farmstead collaborates under the OpenNLP initiative, in order to make NLP software publically available.

Open source oBIX server implementation provides an infrastructure that developers can use for device integration in projects with "systems which sense" (to quote oBIX spec).

oj! Algorithms - ojAlgo - is Open Source Java code that has to do with mathematics, linear algebra and optimisation; particularly (but certainly not exclusively) suitable for the financial domain.

Software for modeling pH and buffer capacity in static and dynamic systems.

Verdantium is an OpenDoc-like compound-document framework, and an open-source alternative to frameworks underlying OpenOffice, StarOffice, Corel Office, and Microsoft Office. Written in JUndo / Java JFC/Swing/Java-2D See http://verdantium.blogspot.com/

Our source code is now on GitHub: https://github.com/hci-gnomex/gnomex. Please refer to GitHub for the latest code. GNomEx is Genomic LIMS and Data Repository. It holds annotated experiments and downstream analysis and serves data tracks to popular genome browsers such as IGB, IGV, and UCSC genome browser. The LIMS handles all aspects of the experiment from order through results delivery. Experiment platforms supported include Illumina HiSeq, MiSeq, iScan, ABI Sanger sequencing, Affy and Agilent Microarrays, Sequenom MassArray and Bioanalyzer. GNomEx is a web application with a Flash client user interface and a Java backend that runs on Apache Tomcat. MySQL is used for the database, although any modern RDBMS can be used.

MobileStarChart is a MIDP1.0/2.0 midlet for Java-enabled mobile/cell phones or handheld device. It simulates whole sky at any point on earth with constellations, stars up to 6 mag, solar systems and some other celestial objects.

Biomedical Text Mining (BioTM) is providing valuable approaches to the automated curation of scientific literature.

ALICE utilizes AIML (Artificial Intelligence Markup Language) to form responses to your questions and inputs. Unlike other commercial chat robot software costing thousands of dollars, ALICE is freely available under the terms of the GNU Public License

The project has moved to github https://github.com/EnFlexIT/AgentWorkbench Agent.GUI is a simulation framework and toolkit based on the JADE framework. It provides functionalities for time aspects, agent-environment interaction, visualization and load balancing, Furthermore, the included application focuses the usability for end users.

The Wildfire Management Tool (WMT) predicts the potential fire behavior of a wildland fire. WMT incorporates a 3D terrain viewer, the tenets of the Campbell Prediction System (CPS) and the Rothermel fire spread equations to depict fire behavior. WMT is used to adjust tactics & strategies to ensure the safety of firefighters and the effective use of firefighting resources. Requires Java 8 (included) - http://www.java.com/download

The Decision Deck project aims at developing a generic decision aid platform composed of modular "software components". These software components implement the common functionalities of a large range of multiple criteria decision aid methods. This

Distributed Generic Information Retrieval (DiGIR) - developing and testing a protocol for single point access to distributed data sources. Based on HTTP, XML, and UDDI.

DragMath is a drag and drop equation editor in the form of a Java applet. Once an expression is created the user can convert it into a variety of different linear syntax for mathematics, including MathML, LaTeX, Maple, Maxima or any user defined style. PLEASE NOTE: active code development has moved to GitHub. https://github.com/maths/dragmath

ECMOjo is a simulator and trainer for extracorporeal membrane oxygenation (ECMO). ECMOjo consists of a graphical user interface to allow interaction and train ECMO practitioners.

EyeMap is a visualization and analysis tool for text reading eye movement data. It can process Unicode, proportion/non-proportion and spaced/unspaced reading materials, which supports various languages and experiment methods.

JSim is a Java-based discrete event simulator of an M/M/s queue system. The target audience are students and educators who may use it to explain and understand the basic principles of the system. JSim includes a library of classes that can be used to modify the application to simulate other types of queuing systems as well. Therefore, it may be used as starting point to build larger, application specific simulator.

Robotics software in the Java language. Based on source from book The Definitive Guide to Building Java Robots.