Open Source Java Scientific/Engineering Software - Page 23

DomoWare (Domotics softWare ) is a collection of software modules, tools and specifications focused on to model Human Home Interaction (HHI) in a smart home or more generally in Ambient Intelligent (AmI) environments

This project tracks the altitude and position of rockets equipped with an RF signal using the Doppler Effect.

ELMVE is a server-client system which provids 3D virtual environments based on Java.

EXTE recognizes temporal expressions in a text. Temporal expressions are any references to the TIME e.g.: "today", "12th march 2006", "as soon as he woke up". This analyzer will recognize three languages: Spanish, English and French.

Effectopedia is open knowledge aggregation and collaboration tool that provides a means of describing adverse outcome pathways in encyclopedic manner.

A small Java program for reading, analysing, viewing and animating the data from an EEG machine during a psychology experiment.

FAS-DPD is a program to design degenerate primers for PCR.

FM100 is a computer simulation of the Farnsworth-Munsel 100 hue colour (color) vision test. The results of the test can be used to assess the user's colour vision.

FishLAB is an easy-to-use program for tracking aquarium water chemistry. With FishLab you can monitor pH, hardness, NH4, NO2, NO3, Fe, CO2 (the software converts units where needed). The graph function warns you of bad trends in water quality.

Calculates the shape of a telescope mirror from a sequence of Foucault test images. Java-based GUI simplifies entering and organizing measurement data. Logging and comparison functions enable quantification of the effects of various figuring strokes.

A open source, multiplatform, fractal generator and explorer. Includes Mandelbrot, Julia, Lambda and others popular formulas. Also includes formula reader to create new fractals. It can save PNG images. Requires Java Virtual Machine.

Fractals generator written in java

Fractal View is a fractal viewing application used for exploration of common fractal sets. It runs in fullscreen, supports four different fractal sets, has 22 different color palettes, saves in png format, does antialiasing, and zooms in all sets.

FractalJ is an application designed to be an education tool for teaching fractals and chaotic dynamical systems. Fractals, complete bifurcation diagrams, orbit diagrams, iterated function systems as well as the Mandelbrot and Julia sets are provided.

Fractalator is a flexible, java based fractal generator.

GATA is a graphic alignment tool for comparative sequence analysis. It makes use of BLAST to graphically align two DNA sequences, creating box- line- box representations of window scored local alignments. GATA also displays extensive GFF gene annotation.

The GDL editor is multiplatform application that allows users to create, edit and run GDL files. GDL is a formal language designed to represent clinical knowledge for decision support. It is designed to be natural language- and reference terminology- agnostic by leveraging the designs of openEHR Reference Model and Archetype Model. The tool provides an editing and testing environment capable of generating forms based on the elements defined in the GDL. Requirements: Java Runtime Enviroment (JRE) 1.6 or higher

GMOL is an application designed to visualize genome structure in 3D. It allows users to view the genome structure at multiple scales, including: global, chromosome, loci, fiber, nucleosome, and nucleotide. This software was built upon the pre-existing Jmol package by Prof. Cheng's group. The software is developed in Prof. Jianlin Cheng's Bioinformatics, Data Mining and Machine Learning Laboratory in the Computer Science Department at the University of Missouri - Columbia, USA. The project is supported by the National Science Foundation (grant no. DBI1149224). If you use GMOL in your research, please cite: Nowotny, Jackson, Avery Wells, Oluwatosin Oluwadare, Lingfei Xu, Renzhi Cao, Tuan Trieu, Chenfeng He, and Jianlin Cheng. "GMOL: an interactive tool for 3D genome structure visualization." Scientific reports 6 (2016): 20802.

GNAT is a BioNLP/text mining tool to recognize and identify gene/protein names in natural language text. It will detect mentions of genes in text, such as PubMed/Medline abstracts, and disambiguate them to remove false positives and map them to the correct entry in the NCBI Entrez Gene database by gene ID. March 2017: We started to upload GNAT output on Medline. See files/results/medline/.

A Java Library to manipulate GPS units. Intent is to produce a simple to use API that hides the details. This project is currently looking for developers!

Galapago is a Java application that uses LOGO-like scripting to render mathematical-biological structures.

The Garmin GPS Tool is a Java Swing application that allows Garmin GPS users to connect their units to computers and use the Swing application as a tool for downloading and visualizing waypoint, track, and route data on a global scale.

Gavrog stands for "Generation, Analysis and Visualization of Reticular Ornaments using Gavrog". It is a Java library together with a suite of interactive applications for the study of periodic net-like structures in space and their applications.

GeneNetWeaver (GNW) is an open-source tool for in silico benchmark generation and performance profiling of network inference methods. GNW was used to generate the community-wide DREAM3, DREAM4 and DREAM5 In Silico Challenges.

Identification of clines from allele frequency or genome-wide databases. Angular transformation. Sigmoid function. Parameterization of a cline: orientation, Pearson’s product-moment correlation coefficient, linear and sigmoid regression and coefficient of determination. Graphical representation of the cline. Confidence limits. Spatial autocorrelation. Moran's index. Isolation by distance. Exponential regression. Correlation Fst/Distance. Centroid method. Cline's expected vs. predicted heterozygosity. MDS. Sammon projection. Geographical distances. Fst distances. Export data to Arlequin, Phylip, Past and Poptree. User-friendly input data.