Search Results for "java modelling tools"
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Showing 28 open source projects for "java modelling tools"
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BBMap
BBMap short read aligner, and other bioinformatic tools.
This package includes BBMap, a short read aligner, as well as various other bioinformatic tools. It is written in pure Java, can run on any platform, and has no dependencies other than Java being installed (compiled for Java 6 and higher). All tools are efficient and multithreaded. BBMap: Short read aligner for DNA and RNA-seq data. Capable of handling arbitrarily large genomes with millions of scaffolds. Handles Illumina, PacBio, 454, and other reads; very high sensitivity and tolerant of errors and numerous large indels. ... -
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Stanford Data Miner
Tools for integration and analysis of heterogeneous immunological data
An extensive description of this system is published in the Journal of Translational Medicine (http://www.translational-medicine.com/). In brief, the system consists of two main web applications, a data integration app and a data exploration app. The data integration app is a fully custom Java "Web 2.0" product called Sherpa. Sherpa uses Seam, a platform integrating Asynchronous JavaScript and XML (AJAX), JavaServer Faces (JSF), the Java Persistence API (JPA), and Enterprise Java Beans... -
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OpenVigil
Open pharmacovigilance data extraction, mining and analysis tool
OpenVigil provides a webinterface to analyse pharmacovigilance data, i.e., spontanous or systematic collections of treatments (drugs) and observed adverse events ("drug side effects"). FDA Adverse Event Reporting System (AERS) and other pharmacovigilance data (e.g., Canadian or German) are supported. The OpenVigil web-based analysis tools offer several analysis modes like extraction, filtering, mining of data and analyses via measurements of disproportionality like proportional reporting... -
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sRNAWorkbench
The UEA sRNA Workbench
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 -
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The Development System for Auditory Modelling (DSAM) is a computational library designed specifically for producing simulations of the auditory system. It brings together many established auditory models within a flexible programming platform.
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TIES
A smart search engine for medical documents
TIES (Text Information Extraction System) is a clinical text search engine that uses Natural Language Processing techniques to extract medical concepts from free text clinical reports. It provides secure de-identified access to this information and has in built collaboration tools and honest broker functionality. It is licensed for academic use under the BSD license. For commercial use please contact Nexi at http://nexihub.com *** NOTICE: this software and forum are no longer... -
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Toolboxes for SPM (http://www.fil.ion.ucl.ac.uk/spm/) developed at Freiburg Brain Imaging (http://fbi.uniklinik-freiburg.de/)
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Razor is a set of Java- and JOGL-based medical image tools which can be composed into a standalone application or integrated into other medical imaging applications. Via JOGL, Razor uses OpenGL to enhance and accelerate some medical imaging functions.
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clinicalStudyTracker
Clinical study tracker tracks case study members through activities.
Developed at Medical Research Council UK to meet a common clinical trial need to track various types of clinical data. Users log dates of completed tasks against participant ID. Simple, useable, reduces lost data! Makes graphical progress reports. -
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OpenVista(R) is the open-source version of VistA, an enterprise grade health care information system developed by the U.S. Veterans Affairs and deployed at 1,500 global facilities. OpenVista is a registered trademark of Medsphere Systems Corporation
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HELEN is a flexible framework to support the computer-based management of Clinical Practice Guidelines (CPG). It covers the whole life-cycle of a guideline, providing methods and tools for each step (from development to clinical use).
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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.
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...Chipster’s ability to provide a biologist-friendly access to a powerful analysis platform is technically based on a desktop application user interface, a flexible distributed architecture, and the ability to integrate many types of analysis tools (command line, R/Bioconductor, Java, Web Services etc). The platform is generic and easily extendable to other areas, even beyond bioinformatics. For more information, please see http://chipster.csc.fi and http://genomebiology.com/1471-2164/12/
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Software tools for visual psychophysics research. The focus of these tools is amblyopia research, but they can be used in some related visual neuroscience research tasks.
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This project aims to make open source tools for medical Studies of Diagnostic Accuracy, wich are neglected by most commom statistical tools. Most tools will be based on the STARD.
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Protege is a free, open-source platform that provides a suite of tools to construct domain models and knowledge-based applications with frame-based and Semantic Web ontologies.
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Open Screening Environment is a open source system for management of High Throughput Screening related experiments. The platform consists of new research tools that will enhance significantly management and analysis of HTS data. More information can be f
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OpenTAPAS: Technology Assisted Practice Application Suite (TAPAS) is a term that describes digital tools that assist physicians deliver care in a paper based office. OpenTAPAS builds upon the HL7 compliant Electronic Medical Summary Standard
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A Medical Information System (MIS) Application Server based on Web Services and J2EE and administrative tools (Plugins for Eclipse,...)
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Avian Freeware Suite (AFS) provides two things: Developers with libraries for Java Swing Widgets, XML handling, Fortran95 and Pascal; End users (Medical students, doctors, scientists) with productivity tools they can use (quizzes, XML databasing & PDF)
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OpenCCAM : - Coding tools for the french CCAM (Classification Commune des Actes Médicaux) - Outils d'aide au codage pour la CCAM
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Thea, Tools for High-throughput Experiment Analysis, is an integrated information processing system dedicated to the annotation of data issued from classification systems with biological information coming from a knowledge base.
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this java project creates a simple user interface with some basic statistical tools to access the Eye Express(tm) Eye tracker hardware. Including serial port access, etc.
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In the focus of the AURECON project of GMD FIRST and Humboldt University of Berlin tools for timetabling and resource-scheduling for medical units are developed. To test this tool a hospital-scenario generator was developed that shall offered via sourcef
