BRAINSFit to simpleITK

Goal

We are developing registration tools in Slicer version 4 (which is using ITKv4) for deformable registration of prostate MRI.

We want to reimplement the functionality of BSpline prostate registration in Slicer 3.6 using BRAINSFit (which has been evaluated previously [1]) in SimpleITK.

Details on the registration approach

Registration is applied to align preprocedural and intraoperational MR T2 image volumes. We are using masks the prostate for both image data sets. Registration is done using MMI metric with rigid, affine and B-spline stages applied in sequence. In Slicer3/BRAINSFit we use gradient descent for rigid/affine, and LBFGS for B-spline.

Parameters we are using to call BRAINSFit in Slicer 3.6 can be found here.

Sample data can be found can be found here.

Current status

Latest update: April 28, 2015

References

[1] Fedorov A, Tuncali K, Fennessy FM, Tokuda J, Hata N, et al. (2012) Image registration for targeted MRI-guided transperineal prostate biopsy. J Magn Reson Imaging 36: 987–992. Available: http://dx.doi.org/10.1002/jmri.23688.