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Task Force Resources

Task Force Projects

Four specific projects to be carried out during 2011 and 2012 have been identified:

1. Create a "One-click share tool" to allow researchers to upload DICOM / NIfTI data to a database hosted by INCF. Once the data is on the central server, a quality control (QC) check is launched and the report is sent to the researcher. The raw data, metadata and QC data will be stored in the DB. The QC may be initially derived from fBIRN recommendations and generalised to other methods.

2. Create a Neuroimaging Data Description Schema and Common API to facilitate communication among databases. A number of efforts have already made progresses towards that goal (XCEDE is probably the most well-known). This standard description would be used to mediate between databases with different data models. Eventually, this will be linked to a set of ontologies to allow for semantic searches and reasoning.

3. Create a mechanism to capture related data under a single container. For example, diffusion data requires additional information in the form of diffusion gradient vectors and b-values. Most dicom conversion utilities will write these out as two separate files. We will attempt to use the Connectome File Format (CFF) Container to store this data. This solution could be applied to other cases such as multi-echo data acquired from a single acquistion that are not handled natively by any major data format. FreeSurfer handles it now by using their own MGZ format that captures such information. We will talk with providers of processing packages to make progress on this.

4. Store the metadata and results of processing stream to a database. Using the quality control workflows as a starting point, ensure that output of these workflows can be pushed to, initially, an XNAT DB. We will augment the processing to use the common API, extended XCEDE schema, and CFF container technology to capture processed data and metadata. First trials will be performed with NiPype and PyXNAT.

Use Cases

Task Force Working Groups

Task Force Events

Upcoming:


Past:

  • SfN 2011 Task Force Meeting, Nov 12, Washington DC
  • INCF Task Force Hackathon, Sept 8, Cambridge (MIT)

We held a Workshop June 25, 2011, in Quebec City, just before the launch of HBM 2011.
All were invited to attend this workshop free of charge. Presentations from the Workshop are now available.
Also at HBM 2011, INCF exhibited at Booth #104, and the Neuroimaging Datasharing Task Force presented its work at an Oral Session (Genetics and Informatics):

  • Abstract 341, Establishing Datasharing Standards in Neuroimaging:
Oral Presentation
Poster

PyXNAT Workshop held July 12-14
Code Sprint held June 1
Notes from Edinburgh meeting, March 25, 2011

Papers and Posters

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