Open Source Java Scientific/Engineering Software - Page 39
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Java Scientific/Engineering Software
View 202 business solutionsBrowse free open source Java Scientific/Engineering Software and projects below. Use the toggles on the left to filter open source Java Scientific/Engineering Software by OS, license, language, programming language, and project status.
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Bermuda Text-to-Speech
This project includes basic NLP and DSP techniques for Text-to-Speech
See TTS demo at: http://rslp.racai.ro/index.php?page=tts This is an entirely written in JAVA project which includes a set of tools and methods designed to enable Multilingual Text-to-Speech (TTS) synthesis. We currently support English and Romanian but we will soon train more models and make them available for download. If you want to read more about our other NLP and TTS tools check out http://nlptools.racai.ro. -
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A bi-directional BLAST tool for orthologue listing with extended facilities (global alignment; paralogue list; GO onthology; dN/dS; etc) working on Win32 compiled versions of NCBI BLAST,FASTA,EMBOSS, and PAML. FILES AVAILABLE AT THE HOMEPAGE.(JAVA coded)
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Large set of functions for biological records (ECG, EEG, phono), datastore, datamining and analysis (HRV, QT, RR, ST). The application is written in Java, so that it is assumed to work on all devices. It runs as a desktop or client-server application. It
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BiVeS - Biochemical Model Versioning System BiVeS is a tool based on the XMLDiff algorithm. You can think of it as a kind of SVN for models with biological or chemical background encoded in XML.
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Bibkeeper is a tool for editing and using BibTeX databases, with a user-friendly graphical interface, programmed in Java.
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Bibtex Import
Imports bibtex references from MathSciNet
Uses MathSciNet to search for bibtex references. The matching references can then be edited and added to a local file. For information on how to use this software please consult the wiki. Requires a MathSciNet subscription. -
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Bifurcum
Software to run through a directional graph.
This software runs through a directional graph and writes the paths it found as test specifications. It has a simple algorithm (Deep First Search with modifications) and allows sorting children before traversing. This application sums up the authors 4-years experience when programming a commercial tool for graph traversing (which used a much more advanced algorithm) and coaching its users. Technically it is a front end for the library Bifurcumlib. -
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BifurcumLib
A library for running through a directional graph.
This is the library for the project Bifurcum. It does all the work. It has a simple algorithm (Deep First Search with modifications) and allows sorting children before traversing. This library sums up the authors 4-years experience when programming a commercial tool for graph traversing (which used a much more advanced algorithm) and coaching its users. -
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Java arbitrary-precision calculator and expression parser. "Compiles" text equations into functors to be executed using the Java BigDecimal class.
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Big Q Sort
An in-place external sort
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BigAl
a free cross platform calculator for calculating BIG numbers
BigAl is a free open source and platform independent software for calculating really BIG numbers. It supports not only standard arithmetic, but also exact period determination, predefined factorials, fibonacci with seeds, factorization, nth root, etc -
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BinBase
BinBase is a software for the automatic analysis of Massspec data from
BinBase is a software for the automatic analysis of Massspec data from LECO GC-Tofs. All code and documentation has been moved to the google code site of this project: https://code.google.com/p/binbase/ And support is provided by the company coding and more, which can be reached under: contact@codingandmore.org -
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This project is a simple board computer car (emulated) to mobile phones. The goal is offer to the car user that don't have a board computer embeded. With a structor statistics and charts to analyze the performance of car (autonomy, fuels spending, etc)
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A system based on the multiagent approach, to help the biologists with the manual annotation task on genome sequencing projects
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BioAnnote
Annotator Desktop application is able to annotate biomedical texts by
Annotator Desktop application is able to annotate biomedical texts by using different high-quality online resources, such as Medlineplus and Freebase. Users can introduce biomedical documents and obtain annotations for the relevant terms, such as diseases, symptoms and treatments. In addition, users can retrieve more detailed information for each recognized entity (making use of an integrated web browser), including related topics, external links, related bibliography and paper abstracts. -
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BioContext
Software for extraction of biomedical information from literature
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BioDOM is a JAVA library for easy creation of XML files according to simple XML schemas for describing biological data. It can also be used to convert other commonly used biological (possibly non-)XML data into these new formats.
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BioDare
BioDare is Biological Data Repository focused on timeseries data
BioDare (Biological Data Repository) was developed under the multi-site ROBuST project (http://hallidaylab.bio.ed.ac.uk/ROBuST.html) to support data exchange inside the project. It is a web application which allows data-sharing (including public dissemination), data-processing and analysis, with the main focus on time-series data produced in circadian experiments. The main features of BioDare are: - an online repository for experimental data accompanied by extensive metadata - generation of secondary data (normalized, detrended, averaged …) - graphical output of data, secondary data and rhythm analysis - simple text-based search throughout metadata - biology- and conditions-aware search for data - data aggregation and export - group-based privacy settings for collaborative research -
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This is a Java-based project for complex event extraction from text and co-reference resolution. Currently the code can read BioNLP shared task format (http://2011.bionlp-st.org/) and i2b2 Natural Language Processing for Clinical Data shared task format (https://www.i2b2.org/NLP/DataSets/Main.php). Event extraction includes finding events and the parameters for an event in a text. The method is based on SVM but other ML algorithms can be adopted. The method details are explained in the following paper: Ehsan Emadzadeh, Azadeh Nikfarjam, and Graciela Gonzalez. 2011. Double Layered Learning for Biological Event Extraction from Text. In Proceedings of the BioNLP 2011 Workshop Companion Volume for Shared Task, Portland, Oregon, June. Association for Computational Linguistic
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BioExtrac
Support scientific/logistic process to extract samples from a biobank
This application supports the two process scientific and logistic . - register the demand for an analysis - register the targets, load in the database - obtain the best list of samples for those targets (the search can be made with different parameters) - be able to do it again till the list is not satisfied the statistician ( in term of analysis power ... ) - made the list in an excel spreadsheet - upload the list of the picked samples and upload the database - made the list for the laboratory which will made the technical parts -
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BioFace is simple software for editing and analyzing DNA, RNA, and protein sequences that is written in Java using SWT and JFace as libraries. Opening GenBank, FASTA, EMBL, or simple sequence files and analizing these sequences can be done.
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Biological General Repository for Interaction Datasets (BioGRID) is a curated biological database of protein-protein interactions. It strives to provide a comprehensive resource of Protein-Protein interactions for all major species.
