Online atrophy calculation tool based on BSI (FIFO Queue)


The "Online atrophy tool" is a fully automated software-as-service tool, which uses the boundary shift integral algorithm to compute the atrophy between two timepoints longitudinal studies. BSI is a robust method for measuring brain atrophy rates from longitudinal magnetic resonane imaging scans using linear registration to align the baseline and repeat images and then track the shift of the brain boundary location.

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


Boundary Shift Integral method:


Select the region of interest:


Select files (Maximum of 5 files with 100 Mb each in .nii or nii.gz formats):
[Select files - Baseline T1 images]
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Select files (Maximum of 5 files with 100 Mb each in .nii or nii.gz formats):
[Select files - Follow-up T1 images]
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[Upload files and run the atrophy calculation]

The queue is empty and BSI is ready to process your files!
Total files processed so far: 68/68

Publications on GBSI

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

  • Ferran Prados, M. Jorge Cardoso, Kelvin K. Leung, David M. Cash, Marc Modat, Nick C. Fox, Claudia A.M. Wheeler-Kingshott, Sebastien Ourselin for the Alzheimer's Disease Neuroimaging Initiative. Measuring brain atrophy with a generalized formulation of the boundary shift integral. Neurobiology of aging. (2014).
  • 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".

DISCLAIMER: THIS ONLINE TOOL IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.