Open Source Java Scientific/Engineering Software - Page 50

SoftSmithy is a platform for open source Java developers. The core is an extended Java utility library. In the future there may be open source software build on this library.

Sphaerica is an interactive spherical geometry computer software. You can create complex geometric constructions in spherical geometry with this software. It supports orthogonal, stereographic and gnomonic projections to display your construction. It also has a built in scripting language for automated constructions.

Transcription Factor Analysis using SELEX with High-Throughput Sequencing (TFAST) is software developed by the Mobley lab at the University of Michigan designed to assist with transcription factor binding site discovery using data generated from aptamer-free SELEX-seq (afSELEX-seq).

TIES (Text Information Extraction System) is a clinical text search engine that uses Natural Language Processing techniques to extract medical concepts from free text clinical reports. It provides secure de-identified access to this information and has in built collaboration tools and honest broker functionality. It is licensed for academic use under the BSD license. For commercial use please contact Nexi at http://nexihub.com *** NOTICE: this software and forum are no longer maintained, as of 8/15/2019. You are free to continue to use this software under the license for academic use under the BSD license. For commercial use please contact Nexi at http://nexihub.com

The InfoVis Toolkit is a Interactive Graphics Toolkit written in Java/Swing to ease the development of Information Visualization applications and components.

Thea, Tools for High-throughput Experiment Analysis, is an integrated information processing system dedicated to the annotation of data issued from classification systems with biological information coming from a knowledge base.

TopiaryExplorer has moved to GitHub. Find the new project info page here: https://github.com/qiime/Topiary-Explorer. If you need help or would like to add a bug/feature request, please do so there.

TriageTools is a collection of tools for partitioning raw data (fastq reads) from high-throughput sequencing projects. The tools are designed for basic data management as well for prioritizing analysis of certain subsets. The project wiki contains usage information.

The Virtual Math Teams (VMT) Project (vmt.mathforum.org) at the Math Forum enables K-12 math collaborative learning, professional development of educators, & group cognition research. VMT is now integrated with GeoGebra (http://www.geogebra.org/).

Virtual Spaces MWN is a Java tool developed at the MPIWG for the structured representation of knowledge. Texts, images and hyperlinks can be organized in 2D graphs. These graphs are used to generate HTML, PDF or RTF files to create virtual tours.

The WISDOM project is a Grid based production environment used to deploy bio-informatics large scale applications.

Cca-forum unifies the Common Component Architecture tools and tutorial. It includes the CCA specifications, the Ccaffeine framework for HPC, and related tools. These support multilanguage scientific and parallel computing.

JOSM plug-in for importing of map data from Cadastral portal of Slovak Republic. Vector data can used for corrections of Openstreetmap for Slovakia.

Frida is image analysis software. Frida was developed by the Johns Hopkins University Tissue Microarray Core Facility. It is open source and written in 100% Java. Frida makes use of functionality from the NIH's ImageJ application. Note: Frida was integr

This software allows for a user to generate test data. This is useful for testing Hadoop or other data processing clusters.

jFAST is a simple finite automata (FA) graphical simulation utility; it is designed to feature simple mechanisms for creating, editing, and simulating FA. jFAST is ideal for use by students, instructors, and self-guided explorers alike.

The jGpibEnet project is a 100% pure JAVA driver for interfacing an Ethernet to IEEE-488( GPIB ) controller. Current supported controllers: ICS 8065, Agilent E5810A. This project uses the "remotetea" project hosted here for ONC/RPC protocol.

Molecular-based diagnostic assays are the gold standard for infectious diseases today, since they allow a rapid and sensitive identification and typing of various pathogens. While PCR can be designed to be specific for a certain pathogen, a subsequent sequence analysis is frequently required for confirmation or typing. The design of appropriate PCR-based assays is a complex task, especially when conserved discriminating polymorphisms are rare or if the number of types which need to be differentiated is high. One extremely useful but underused method for this purpose is the multiplex pyrosequencing technique. mPSQed is a program developed at the Robert Koch Institute and targeted at facilitating the creation of such assays.

A java OpenGis WMS map client application. Support Web Map Context.Have a look at the 'Home Page' link.

The aim of this project is to be a GUI front-end and visualization tools for the Vienna Ab-Initio Simulation Package, also know as VASP. VASP is density functional software which calculates a variety properties of solid state systems.

Zephyr is a script-driven experiment automation program that works various measurement instruments and actuators. It supports instruments from Agilent, Eco Physics, ICS Electronics, Keithley, Omega, Teledyne and other manufacturers. The script language is XML-based. Syntax highlighting is available. The source code is included in the distribution. Contact the project admin to get SVN access.

JDash is a dead, but ECUTracker is alive and well. A 100% rewrite for mobile devices.

ProStack - a platform for image processing and analysis. It implements various image processing methods as separate modules, that can be joined in a complex image processing scenario by use of a graphical user interface. RPMs are available at https://build.opensuse.org/project/repositories/home:mackoel:compbio

Visage is a human computer interface that aims to replace the traditional mouse with the face. Using a webcam and Visage the movement of the face becomes the movement of the mouse pointer. Left/right Eye blinks fire left/right mouse click events.

SCAN (Smart Content Aggregation and Navigation) is a universal semantic content aggregator. It combines search, text analysis, tagging and metadata functions to provide new user experience of desktop navigation and document management.