Open Source Java Scientific/Engineering Software - Page 28

NOTE: The IntAct package is now hosted at google code: http://intact.googlecode.com IntAct is an open source package to store and manipulate molecular interaction data.

Interactive Web Physics is a Java, Web-based animation and problem designer tool. Anyone can quickly design mathematics or physics animations and simulations that run in a web browser. Unlike other solutions, no knowledge of programming is required.

The JASI library provides an architecture based on a simulation kernel and elementary classes for simulation elements and event to build event-based simulation systems in Java.

JActor is a high-performance actor framework designed to make vertical scalability easy. JActor achieves its speed, in part, by almost always executing synchronously--though it is easy enough to force asynchronous processing when needed. JActor is divided into several GitHub projects: JActor - https://github.com/laforge49/JActor JID - https://github.com/laforge49/JID JFile - https://github.com/laforge49/JFile JANetty - https://github.com/kumarshantanu/JANetty

Create ports : TCP/UDP/Terminal/File/RS232(txrx)/DB/System/Bluetooth/JNA/ETH(jpcap)/Sound. Simply configure with GUI/SFC XML file/CLI. Display, modify, replay, store (tcpdump), decode flow of bytes or objects. Implement : loop/echo/paddings/... and delai/DB2XML/Stacks/Matrix/... management. Stream conversations with a dynamic packet analyse.

JOrigami is a collection of algorithms for computational origami. Some algorithms studied by computational origami does not have an implementation. JOrigami solves the famous and funny fold-and-cut using Demaine's disk packing implementation.

JPACS, Java Processor and Cache Simulator, was developed to give a simple and clear tool to simulate a processor with a complete associative memory cache at ISA level, using direct memory access or using a program written in assembly.

JPlasma is a Java port of PLASMA (Parallel Linear Algebra for Scalable Multi-core Architectures)

Generates the Reverse Polish Notation (Postfix) expression form of an arithmetic expression in (Infix) form. Performs the computation of the arithmetic expression if Integers or Floating point numbers are used in the expression. Supports PEDMAS order of computation, thus, all the operators of Exponentiation, Division, Multiplication, Addition and Subtraction, as well as using Parentheses for grouping and prioritization is all handled.

A cross-platform, text-interpreting calculator written in the Java programming language. Runs on any computer with Java 6 or higher installed. Functions much like a Ti-84, but without the graphing utility.

Java pic programmer for the pic 16F8X / 16F628 series pic chips. The programmer utilises the parallel port to interface with the pic programmers electronics. The Java programmer will initially be targeted at linux OS but, with help, hope to expand the to

Java Settlers of Catan is a Java version of the classic board game "Settlers of Catan". This game includes challenging computer AI players and supports multitouch inputs for gameplay on multitouch tables.

This program is an offline and stand-alone Java application which simulates the Enigma encryption machine that was used during World War II.

JavaSeis.org: Java based software for processing and storing petroleum industry seismic data.

KalypsoBASE is a Desktop-GIS built on Eclipse. It's focus lies on modelling gis data using GML Application-Schemata. Features contain generic dialogs based on GML, maps based on OGC's SLD, and other tools like a charting framework or API for timeseries

LOOP (Language Object Oriented Parallel) is a visual programming language project dedicated to creating a full suite of components for simulation of hierarchical dynamical systems in discrete time.

An easy to extend, highly graphical, easy to use 2D robot simulator specialized for path planning algorithms. Can be used in testing various robotic algorithms, and already used for comparison of path planning algorithms like RRT, RRTConnect, PRM, RboT..

This project contains applications which allow the user the draw the common geometry graphics (both 2D and 3D) which is available from the library.

Mavscript allows the user to do calculations in a text document. Plain text, LaTeX and OpenOffice Writer files (.odt) are supported. The calculation is done by the algebra system Yacas (default), Jasymca or by the Java interpreter BeanShell.

DataServer is an XML gateway for medical applications. Using Apache Cocoon and Java, it supports SQL, SOAP, HTTP for patient record aggregation, provides distributed caching, custom views, audit, security, and de-identification/anonymization.

MultiDEILD is an Android application that can aid you in having lucid dreams by using special alarms and light flashes. MultiDEILD is also available as a Windows scriptable software. It can turn on your pc, ring alarms, and put your pc in sleep mode again.

Musite provides a bioinformatics tool for predicting both general and kinase-specific protein phosphorylation sites.

The project offers support for NTC thermistor calculations. The Steinhart-Hart equation is a mathematical model for these thermistors. Software to calculate the coefficients based on temp-resistance tables and functions allowing conversion are provided.

The semantic annotation system OPTIMA is the result of Andreas Vlachidis PhD work, (supervised by Prof. Douglas Tudhope, University of Glamorgan, UK). OPTIMA performs the NLP tasks of Named Entity Recognition, Relation Extraction, Negation Detection and Word Sense Disambiguation using hand-crafted rules and SKOS terminological resources (English Heritage Thesauri and Glossaries). The resulted semantic annotations are associated with classes of the (ISO 21127:2006) CIDOC Conceptual Reference Model (CRM) and its archaeological extension, CRM-EH. OPTIMA is also targeted at the detection and recognition of contextual relations between CRM entities. Such relations are modeled with respect to the CRM-EH archaeology extension. The pipeline targets the CIDOC-CRM entities; E19.Physical_Object, E53.Place, E49.Time_Appellation and E57.Material and the CRM-EH entities; EHE1001.Context_Event, EHE1002.Production_Event, EHE1004.Deposition_Event and P45.consists_of material property

ORFer reads the NCBI GenBank XML sequence format and extracts open reading frames for proteins. Sequences can be requested by GI or accession number. ORFprimer is an extended software package for high throughput PCR primer design for biological sequences