Open Source Java Scientific/Engineering Software - Page 59

GenoCAD is a CAD software for synthetic biology. This application provides a web-based tool to design plasmids, artificial gene networks, and other synthetic genetic systems composed of standard genetic parts. It includes a parts management system, a rule-based design tool, and a simulation engine. This project has morphed into a SaaS model. The open source code is no longer maintained.

This program will read in data generated by ABI DNA Analyzers using GeneScan or GeneMapper, CEQ 2000 and SCF instruments and construct gel images which are straightened and sized. Please download and view the tutorial, no documentation is included in 2.1

geolocate is a front-end java program that works with google maps to provide dynamic maps to users. Combined with the flexibility of XML and the power of javascript, users can see various relationships on their map to draw conclusions.

GeoPMS is a project based full paper management system to archive, search and manage scientific papers. GeoPMS has full text search, search by author, search by title and citation import functionality direct from the PDF header, PDF text or RIS. Reference list design can be selected for each project.

Geometric Regression Library (GeoRegression) is an open source Java geometry library for scientific computing with a focus on 2D/3D space. GeoRegression provides the ability to estimate the closest point/distance between geometric primitives, best-fit shapes, and best fit geometric transform between sets of objects. It is designed for high performance and ease of use. GeoRegression has been release under an LGPL license for both commercial and non-commercial use.

Provide the building blocks for a GIS system consistent with the current standards from OGISŠ

A program for calculate geometry calculations with different types.

This package contains different tools to add NLP capabilities for Lucene 4.x (it has been tested using Lucene version from 4.6.x to 4.8.1). Although it was originally developed for German, it is, mostly, language independent. It allows the user to lemmatize words to be indexed, to weight termy ba their parts of speech (e.g. weighting nouns mor hevaily than pronouns), and to add synonyms taken from GermaNet or a list you provide to the search index and thereby increase recall of lucene.

GmanDA is a GPL software for performing qualitative data analysis on mailing-lists and mboxes. It was developed to ease the work with large scale mailing-list archives taken from Gmane.org

GoGraph is a tutorial software giving informatics students an easy, interactive and ergonomic way to learn and exercise the graph theory. It is based on JGraph, an open-source graph component for Java.

A Java application/library that can generate PNG tile overlay images for Google Maps from multiple data sources. Inactive because there are better alternatives: Java - http://geotools.codehaus.org/ PHP - http://www.mapserver.org/

A visualization tool for GPS data.

gpx2map is a tool that renders GPS data in the form of way-points, tracks and routes from GPS exchange (GPX) XML documents as Portable Pixmap (PPM) images on a background of map tiles.

GraXML is a Geometric Modeller for handling High Energy Physics experiments' Detector Description and Event data. It containes full 3D visualisation of the managed elements. It uses Java3D to create, render and manipulate SceneGraph.

Provides a GUI interface to grammatical structure and relations (as parsed by the Stanford Parser) of any text. Contains grammatical relation editor to modify, import, export grammatical relation definitions (tregex patterns and features).

Full documentation with tutorials is included in the download package. Graphical Grammar Studio is a tool for applying grammars which behave as words acceptors/consumers and annotators. GGS grammars can be used to find and annotate sequences of words which respect certain conditions, in a given input. Its purpose is for creating NLP tools like phrase chunkers, named entity finders, pronoun co-reference solvers etc. A grammar is represented by a state machine which can be visualized, edited and applied. A grammar is organized in graphs of nodes. Nodes are used for consuming words from the input, for executing jumps to other graphs in the grammar or for creating annotations etc. GGS has a unique feature: It allows the user to write JavaScript code to be executed for nodes of the grammar. This is useful for checking grammatical agreements but not only. The user can: declare variables (including complex js structures), check for boolean conditions, use variables in annotations etc.

A crappy graphing calculator!

Gridnexus provides an easy-to-use graphical interface for collaborating Web Services, Grid (WSRF) Services, local applications, and other operators together in a way that is accessible to a wide-range of applications and users.

HLM is a proof assistant for everyday mathematics, which is currently being developed. It aims for a user experience as close as possible to regular mathematical practice, and proofs which are understandable by humans with little extra effort.

HSRA is a MapReduce-based parallel tool for mapping reads from RNA sequencing (RNA-seq) experiments. RNA-seq analyses typically begin by mapping reads to a reference genome in order to determine the location from which the reads were originated, which is a very time-consuming step. This tool allows bioinformatics researchers to efficiently distribute their mapping tasks over the nodes of a cluster by combining a fast multithreaded spliced aligner (HISAT2) with Apache Hadoop, which is a distributed computing framework for scalable Big Data processing. HSRA currently supports single-end and paired-end read alignments from FASTQ/FASTA datasets. Moreover, our tool uses the Hadoop Sequence Parser (HSP) library (link above) to efficiently read the input datasets stored on the Hadoop Distributed File System (HDFS), being able to process datasets compressed with Gzip and BZip2 codecs.

HadStat is service on the cloud, allow you to analysis the data on the cloud and return the result in nice graph,this service is free, you can redistribute it and/or modify it under the terms of the GNU General Public License. this service using many technologies , like Hadoop mapreduce, HTML, PHP, Web Service applications, linux server, java, eclipse IDE, with many indicators:Simple moving average (SMA),Exponential moving average (EMA),Smoothed simple moving average (SMMA),Linear weighted moving average (LWMA )on DATA from NYSE daily prices.....

Ham's Actor is a software for radio hams. Is a bundle of many functions and tools, so you just have to have one software. Functions: Log Book, GrayLine, satellite tracing, contesting, maps, callbook, and so on...

Hanghe is a marine navigator supporting BSB/KAP chart, GPS, multiple chart display, ship tracking. It is developed in Java 1.6.

HaploGeneMapper is a tool to visualise the genomic proximity of haploinsufficient genes to segmental duplications on a chromosome-by-chromosome basis.