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GIMIAS

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GIMIAS is a workflow-oriented environment for solving advanced biomedical image computing and individualized simulation problems, which is extensible through the development of problem-specific plug-ins. In addition, GIMIAS provides an open source framework for efficient development of research and clinical software prototypes integrating contributions from the Physiome community while allowing business-friendly technology transfer and commercial product development.

GIMIAS suites are collections of prototypes that build a complete platform for one or more clinical applications.

MassChroQ

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MassChroQ (Mass Chromatogram Quantification) software performs quantification of data obtained from mass-spectrometry techniques. It is particularly well suited for peptide quantification of LC-MS (Liquid Chromatography - Mass Spectrometry) data. It performs chromatographic alignment, XIC extraction, peak detection and quantification on identified peptides, with or without isotopic labeling, on high or low resolution data and it takes into account peptide or protein fractionation.

cTAKES

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Apache clinical Text Analysis and Knowledge Extraction System (cTAKES) is an open-source natural language processing system for information extraction from electronic medical record clinical free-text. It processes clinical notes, identifying types of clinical named entities from various dictionaries including the Unified Medical Language System (UMLS) - medications, diseases/disorders, signs/symptoms, anatomical sites and procedures.

PsychoPy

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PsychoPy is an open-source application to allow the presentation of stimuli and collection of data for a wide range of neuroscience, psychology and psychophysics experiments. It’s a free, powerful alternative to Presentation™ or e-Prime™ . It’s written in Python (a free alternative to Matlab™ ) and combines the graphical strengths of OpenGL with the easy Python syntax to give psychophysics a free and simple stimulus presentation and control package.

MRIdb: Medical imaging database

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MRIdb is an end-to-end data management system for MRI, combining the DCM4CHEE DICOM server with a bespoke front-end packaged into an easily deployable virtual machine. It interfaces directly with MRI scanners and handles image storage, retrieval and export. It provides role-based access control, patient-study assignment, and extensive auditing. MRIdb is the result of an ongoing collaboration between the BSS and the Imaging Sciences Department of Imperial College.

Open PHACTS

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What is Open PHACTS?
To reduce the barriers to drug discovery in industry, academia and for small businesses, the Open PHACTS consortium is building the Open PHACTS Discovery Platform. This will be freely available, integrating pharmacological data from a variety of information resources and providing tools and services to question this integrated data to support pharmacological research.
The project is ending in August 2014.

OpenInfoButton

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In the last 20 years, researchers have investigated solutions to enable seamless access to online resources within the context of electronic health record (EHR) systems. “Infobuttons” are among these solutions. Based on contextual attributes that describe the EHR user, the patient, and the care setting, infobuttons anticipate clinicians’ information needs and provide automated links to a set of relevant knowledge resources to assist clinical decision support.

openEHR Ruby

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This is a stable release of Ruby openEHR implementation project. This release is based on openEHR specification release 1.0.2. We implemented almost of the specifications of the openEHR. The work is still in progress to implement related tools, such as archetype validator or serializer. Formerly, we named this package as open_ehr, but changed to openehr from release 1.1.0. 1.0.x versions are obsoleted. The intention is to have a sample EHR to utilize all over the world quickly with Ruby on Rails for many other porject.

This package includes:

ADL 1.4 parser

tranSMART

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tranSMART is a knowledge management platform that enables scientists to develop and refine research hypotheses by investigating correlations between genetic and phenotypic data, and assessing their analytical results in the context of published literature and other work.

The integration, normalization, and alignment of data in tranSMART permits users to explore data very efficiently to formulate new research strategies. Some of tranSMART's specific applications include:

Opereffa

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Opereffa stands for openEHR REFerence Framework and Application. It is a project for creating an open source clinical application which will be driven by the Clinical Review Board of openEHR. The clinical application will be built on top of a Java based open source framework, which is using the existing open source Java reference implementation of openEHR.

This web site contains information about the project, source code and binaries, and finally a demonstration of the current state of Opereffa.

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