Engineering:WUSTL

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Overview of Washington University Projects (PI: Dan Marcus)

The Neuroinformatics Research Group at Washington University is responsible for developing desktop and enterprise level data management software for research imaging studies. We work in close collaboration with Core 1 engineering investigators to implement seamless integration between our tools and the other components in the NA-MIC kit.

Wash U Projects

Tutorial

• October 2008: develop a tutorial for the following scenario:
  • I have a directory tree full with data on my local machine. They are part of a project. I would like to:

1. . Install xnat on my machine
   1. where to install
   2. where to put the data
2. . configure xnat for a new project
   1. what to consider when thinking about the schema
   2. where does information go like gender or age of the patient
   3. where does information go about the study as a whole
3. import my data into xnat
4. start slicer and use it to get data from xnat
   1. how do I tell slicer where to find my xnat instance?
5. do things in slicer and upload the results into xnat
   1. how to upload a mrml file and all its associated files?
6. on a different day: take the results back into Slicer
   1. how to download a mrml file and all its associated files?

XNAT Enterprise

XNAT is an open source imaging informatics platform designed to facilitate management and exploration of biomedical imaging and related data. XNAT includes a secure database backend and a rich web-based user interface. A REST API provides programmatic access to the image file repository and metadata. A more detailed description of XNAT can be found here.

XNAT 1.4 is scheduled for release on March 1, 2010. Release candidate 3 of this version is currently available for testing. 1.4 includes the full REST API, an improved user interface, and full DICOM integration.

The XNAT project is a joint venture that includes people and support from Washington University, Harvard University, Howard Hughes Medical Institute, the Biomedical Informatics Research Network (BIRN), NA-MIC, and a community of open source developers. More...

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XNAT Desktop

XNAT Desktop (XND) is a desktop application for organizing, sharing, and distributing imaging and related files. It is operating system-independent, easily installed, and has no external dependencies. XND can be used to tag and upload data to XNAT Enterprise systems and to streamline workflows that utilize Slicer and other components of the NA-MIC Kit. XND includes a built-in web server that allows it to act as a file server using the same REST web services API that is being implemented for XNAT Enterprise More...

XND v0.91 is currently available. This version includes an work-in-progress user interface implementation that provides a look-and-feel and operations that more closely align with common medical imaging workstations.

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XNAT Central

XNAT Central is a free, publicly accessible instance of the XNAT Enterprise system. It supports MRI, PET, CT, and a range of other imaging modalities. Researchers are invited to use XNAT Central to share their imaging studies with select colleagues or as open access projects under one of several licenses (public domain, creative commons, etc). XNAT Central is currently in Beta testing. More...

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XCEDE

XCEDE is an XML format and web service API for representing biomedical imaging protocols, raw data, derived data, and related non-imaging measures. Wash U is an active participant in the XCEDE working group and is working to generate a reference implementation of the emerging standard. More...

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