Part 3: Calculating Registration

#Overview In the home page we identified six elements to this process. The first step is described in Part 1.

1. It is up the user to give a best effort of cropping, zooming and rotating the various experiments by hand, then placing the data into the folder in the right format

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Handled in Part 2:

2. The images volume is partitioned into subvolumes for parallelization and robustness checking in later steps.
3. Keypoints and feature descriptors are calculated per subvolume

*** Explained in the section below:

4. Correspondence calculations per subvolume
5. Affine transformation are calculated on random subsets of the correspondences
6. Non-linear transform applied across the entire sample using the validated correspondences

Calculating Correspondences

Validating Correspondences via Affine Transformation

Applying a Thin Plate Spline

TPS3DWarpWhole.m

Interpolation will be necessary as the degree of warping may often mean that the output image does not have a 1-1 pixel map from the warped moving image. To these means, we have used the nearestInterp.m function written by Fitzgerald J Archibald

References:

Used the core code from TPS3D by Yang Yang

3D interpolation is done by nearestInterp.m, written by Fitzgerald J Archibald