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SCIRun

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SCIRun is a problem solving environment or "computational workbench" in which a user selects software modules that can be connected in a visual programing environment to create a high level workflow for experimentation. Each module exposes all the available parameters necessary for scientists to adjust the outcome of their simulation or visualization. The networks in SCIRun are flexible enough to enable duplication of networks and creation of new modules.

Imebra SDK

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Imebra SDK is a multiplatform open source C++ Dicom library.

The full source code of the C++ library, examples and documentation are freely available under the GPL license.

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.

Net4Care

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The research project Net4Care's aim is to develop a ecosystem to make it easy for small and medium sized businesses (SMBs) to build telemedical applications for the home.

The main area of support within the present edition is handling clinical observations in the home and ensuring they become available for clinician's work.

The Net4Care framework helps in this by providing:

ADDIS

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ADDIS is a software developed within the Dutch Escher-project for managing and analyzing clinical trial information.

ADDIS is a proof-of-concept system that allows us to simultaneously discover the possibilities of and the requirements on a database of structured clinical trials data. The automated discovery and (meta-)analysis of trial data, as well as benefit-risk assessment is supported.

ADDIS comes with two built-in examples:

Arden2ByteCode

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The Arden Syntax as a standardized language to represent medical knowledge can be used to express medical knowledge.
Arden2ByteCode is a open source compiler for the Arden Syntax. Arden2ByteCode runs on Java Virtual Machines (JVM) and translates Arden Syntax directly to Java bytecode (JBC)
executable on JVMs. It also serves as runtime environment for execution of the compiled bytecode.

rxncon

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The complexity of cellular networks is an outstanding challenge for documentation, visualisation and mathematical modelling. In this project, we develop a new way to describe these networks that minimises the combinatorial complexity and allows an automatic visualisation and export of mathematical (ODE/rulebased) models.

Features:

  • Automatic visualiztion with Cytoscape.
  • Automatic generation of rule based models for BioNetGen.
  • Storage of biological facts that can be used for modelling.

DicomBrowser

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DicomBrowser is an application for inspecting and modifying DICOM metadata in many files at once. A single imaging session can produce thousands of DICOM files; DicomBrowser allows users to view and edit a whole session—or even multiple sessions—at once. Users can save the original or modified files to disk, or send them across a network to a DICOM C-STORE service class provider, such as a PACS or an XNAT.

ParaView

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ParaView is an open-source, multi-platform data analysis and visualization application. ParaView users can quickly build visualizations to analyze their data using qualitative and quantitative techniques. The data exploration can be done interactively in 3D or programmatically using ParaView's batch processing capabilities.

ParaView was developed to analyze extremely large datasets using distributed memory computing resources. It can be run on supercomputers to analyze datasets of terascale as well as on laptops for smaller data.

STIR

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STIR is Open Source software for use in tomographic imaging. Its aim is to provide a Multi-Platform Object-Oriented framework for all data manipulations in tomographic imaging. Currently, the emphasis is on (iterative) image reconstruction in PET, but other application areas and imaging modalities can and might be added.

STIR is the successor of the PARAPET software library which was the result of a (European Union funded) collaboration between 6 different partners (see Credits).

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