Open Source Java Scientific/Engineering Software - Page 21

Plane frame static and dynamic analysis

java symbolic computing library and math editor, with : polynomial system solving, vectors & matrices, factorization, derivatives, integrals (rational functions), boolean algebra, simplification, MathML output, java code generation, geometric algebra

scientific calculator in j2me for mobile phones - with standard functions(sin,cos,ln etc) - variables, plotting (func,parm,pol etc)

Please cite: An, J., Lai, J., Lehman, M.L. and Nelson, C.C. (2013) miRDeep*: an integrated application tool for miRNA identification from RNA sequencing data. Nucleic Acids Res, 41, 727-737. We will create index for you if you tell us your interested species (j.an@qut.edu.au). download command line version "MDS_command_line_Vxx.zip" clicking "Browse All Files" please find miRPlant in sourceforge for plant miRNA prediction.

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.

openModeller is a complete C++ framework for species potential distribution modelling. The project also includes a graphical user interface, a web service interface and an API for Python.

A suite of tools for analysing small RNA (sRNA) data from Next Generation Sequencing devices. Including expression profiling of known mirco RNA (miRNA), identification of novel miRNA in deep-sequencing data and identification of other interesting landmarks within high-throughput genetic data

The source code for SAMSN can be found in github at https://github.com/miquelrojascherto/samsn

Extensible Modeling and Simulation Framework (XMSF) using Web Services

jamod is an object oriented implementation of the Modbus protocol, realized 100% in Java. It allows to quickly realize master and slave applications in various transport flavors (IP and serial).

Ablator is a suite of software that automates the microscopic detection of cell targets and also directs a 2-photon microscope to lesion these targets in arbitrary patterns for neuroscience research. See Hayes et al 2012 for an example of its usage (http://www.pnas.org/content/109/21/8286.abstract).

It's a program that plots Bode diagrams with an excellent precision. In this new version it's very easy to provide the function to plot thanks to a simply graphic interface in style "what you see is what you got". A smart output window allows to plot more than one graph at the same time, and easily compare them. The plotted graphs can be exported as images, in various format. Language supported: italian. Next version probably will include other languages; certainly english will be the first. This is a beta version, so please report any bug if you find something wrong! Your help will be very appreciated! NEWS! asymptotic diagram plotting function added! the function is in beta test, and does not support complex factor.

COB editor is a collaborative editor for biological ontology (e.g., Gene Ontology) building. Building on the idea of modular ontology from KR research, it supports multiple people to work on the same ontology.

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 development and curation of a range of XML-based tools for using Chemical Markup Language (CML), including XSD XML Schemas for validation, datatyping and constraining CML documents and XSLT Stylesheets for transforming, filtering and rendering.

A project under constant development with the aim of providing end users with a simple intuitive interface for cracking & analysing ciphers from standard types of puzzles

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

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

An Eclipse RCP program for all aspects of a medical practice: electronic medical record (EMR), laboratory findings etc., as well as accounting, billing (swiss TARMED-System, other systems to be developped) and other daily work. A fully functional version may be downloaded via http://download.elexis.info/3.1.0. Users may optionally include a demo database to have a playground for experiments. See also http://wiki.elexis.info/Installation_Elexis_3.0_OpenSource Elexis 3.1.0 was released on May, 4 2017. At http://elexis-forum.ch/ users have a place to share their experiences with other peoples. Developers and anybody trying to compile Elexis from scratch should look at https://github.com/elexis/elexis-3-core/tree/master/ch.elexis.sdk The documentation is found under http://wiki.elexis.info/

GAPI (pronunced gappy) is the Genetic Algorithms Programming Interface - a set of Java classes that allow users to easily integrate Genetic Algorithms into their Java programs. See "GAPI specs" in the Feature Requests forum for more info.

It is a suite to create interfaces (HMI) for production system supervisory and control (SCADA) Systems.

HDLObf is intended to be a HDL Obfuscator and identifier name change utility. Primarily designed for Verilog/SystemVerilog support will be added for VHDL/SystemC in future.

A complete survey administration and data collection system. A fully featured replacement for Quancept, supporting CAPI, Web, CATI, PDA and Paper survey modes. Sonar is the reference implementation of JCaiF for CAPI and Web survey interviewing. Try it!

Life Science Identifier (LSID) resolution protocol, to locate biologically significant data over a network, within middle-ware providing a client A.P.I. for Life Science applications, and server software, for Industry data providers.