Online ROI extraction tool based on STEPS (FIFO Queue)


The "Online ROI extraction tool" is a fully automated software-as-service tool, which uses the STEPS algorithm to segment the brain or the hippocampi in T1-weighted images. STEPS is a multi-atlas label propagation and fusion strategy implemented as part of NiftySeg.

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


Area to segment:


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 ROI extraction]

The queue is empty and BRAIN-STEPS is ready to process your files!
Total files processed so far: 2460/2460

Publications on STEPS

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

  • M. Jorge Cardoso, Kelvin Leung, Marc Modat, Shiva Keihaninejad, David Cash, Josephine Barnes, Nick C. Fox, Sebastien Ourselin, for the Alzheimer's Disease Neuroimaging Initiative. STEPS: Similarity and Truth Estimation for Propagated Segmentations and its application to hippocampal segmentation and brain parcelation. Medical Image Analysis 17(6), 671-684 (2013).
  • http://cmictig.cs.ucl.ac.uk/niftyweb/
  • 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
  • "The GPU card used for this research was donated by the NVIDIA Corporation." or "We gratefully acknowledge the support of NVIDIA Corporation with the donation of the GPU card used for this research".

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