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The 'surveillance' R Package

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The R-package ’surveillance’ is a framework for the development and the evaluation of outbreak detection algorithms in univariate and multivariate routine collected public health surveillance data. Hence, potential users are biostatisticians, epidemiologists and others working in applied infectious disease epidemiology. However, applications could just as well originate from environmetrics, reliability engineering, econometrics or social sciences.


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ezDICOM is a medical viewer for MRI, CT and ultrasound images. It can read images from Analyze, DICOM, GE Genesis, Interfile, Siemens Magnetom, Siemens Somatom and NEMA formats. It also includes tools for converting medical images from proprietary format.


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HAPI (HL7 application programming interface; pronounced "happy") is an open-source, object-oriented HL7 2.x parser and encoder for HL7 version 2.x messages written in Java. This project is not affiliated with the HL7 organization; we are just writing some software that conforms to their specification. The project was initiated by University Health Network (a large multi-site teaching hospital in Toronto, Canada).


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"Mergence is a high performance, open source HL7integration engine and application platform. It was developed to fill the need for an open source, fully transactional healthcare integration system capable of handling millions of messages per day, and thousands of concurrent LLP connections. Mergence is based on Apache ServiceMix, a lightweight enterprise service bus which conforms to the JBI standard, and HAPI, an excellent opensource HL7v2 API. We plan to support HL7v3 in the next release."


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OpenMedSpel is a free and open source USA English medical spelling word list that is released under a GPL license.

It includes nearly 50,000 medical terms ranging from abdominis to zygomatic, which allows you to concentrate on your work instead of looking up words in a medical dictionary that are not in a standard USA English spelling dictionary.

The 'epicalc' R Package

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Functions making R easy for epidemiological calculation.

Datasets from Dbase (.dbf), Stata (.dta), SPSS(.sav), EpiInfo(.rec) and Comma separated value (.csv) formats as well as R data frames can be processed to do make several epidemiological calculations.

Axial 360

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  • Axial 360 is an interface engine and connector library that enables health care systems of all types - hospital systems, lab systems, EHRs, HIEs, etc - to share clinical data when it is needed.
  • Axial 360 is built using best-of-bread open source components that enable improved scalability, extensibility, and modularity relative to other interface engines.
  • Axial 360 will feature a library of free “connectors” developed by the open source community, that will reduce the time required to interface with applications.


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Vurtigo is a four-dimensional (3D + time) real-time visualization software for guiding cardiovascular interventions. It is designed to be part of a pipeline that can connect it to a magnetic resonance imaging (MRI) scanner, actively tracked catheters, and navigational devices.

Written in C++ under the GNU Lesser General Public License v2.1, Vurtigo features a plug-in based architecture, allowing developers to extend the software using an interface to manipulate objects within Vurtigo. The software runs on Win32, Linux and Mac OS X.


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MIView is an OpenGL based medical image viewer that contains useful tools such as a DICOM anonymizer and format conversion utility. MIView can read DICOM, Analyze/Nifti, and raster images, and can write Analyze/Nifti and raster images. It can also read and convert DICOM mosaic images. The main goal of MIView is to provide a platform to load any type of medical image and be able to view and manipulate the image. Volume rendering is the main type of advanced visualization that I'm trying to implement.

Simulation Open Framework Architecture (SOFA)

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SOFA is an Open Source framework primarily targeted at real-time simulation, with an emphasis on medical simulation. It is mostly intended for the research community to help develop newer algorithms, but can also be used as an efficient prototyping tool.