Online brain extraction and parcelation tool based on GIF (FIFO Queue)


The GIF algorithm is an online brain extraction, tissue segmentation and parcelation tool for T1-weighted images. GIF, which stands for geodesical information flows, will be deployed as part of NiftySeg. You can download the parcelation labels in xml from here and in excel from here.

The results will be sent to the following e-mail address:


Select files (Maximum of 5 files with 100 Mb each in .nii or nii.gz formats):
[Select files - Select T1 files]
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[Upload files and run the segmentation extraction]

GIF is running at the moment! Your files will be queued.
There are 33 files waiting at the queue and 1 is being processed.
Total files processed so far: 2153/2187

Publications on GIF

We would appreciate it if the following references would be included in any published work that uses this resource:

  • M. Jorge Cardoso, Marc Modat, Robin Wolz, Andrew Melbourne, David Cash, Daniel Rueckert, and Sebastien Ourselin.Geodesic Information Flows: Spatially-Variant Graphs and Their Application to Segmentation and Fusion. IEEE Transactions on Medical Imaging, 34(9), 1976-1988. (2015)
  • Ferran Prados, M. Jorge Cardoso, Ninon Burgos, Claudia AM Wheeler-Kingshott, Sebastien Ourselin. NiftyWeb: web based platform for image processing on the cloud. International Society for Magnetic Resonance in Medicine (ISMRM) 24th Scientific Meeting and Exhibition - Singapore 2016
  • http://cmictig.cs.ucl.ac.uk/niftyweb/

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