Hi Leorah,
in order to do a 3D registration you really need 3D information, so
intrinsically the registration works in isotropic spaces. That is why
the midspace has isotropic voxels. Maybe try writing out the two
transforms to midspace and then use mri_convert with the -rl flag
(passing one of the images ). It will then reslice the mapped midspace
image as one of the input. This induces a potential, but probably small,
bias. as the input image is selected. You could randomize that across
subjects to be safe.
Best, Martin
On 09/08/2015 11:07 AM, Léorah Freeman wrote:
Hi,
We are using mri_robust_register in one of our pipelines to register
two 2D T2 images from the same patient (2 different timepoints). We
resample both volumes into halfway space to then perform image
subtraction.
Both T2 volumes are 2D images, each with 44 slices. However when
volumes are resampled into halfway space, each volume has over 130
slices. Without going into too much details, I feel that this
"oversampling" is posing some problems in our subsequent subtraction
scheme.
Is there a way to conserve the number of slices from the original
volumes into the one resampled to halfway space?
Thanks a lot,
Leorah Freeman, MD
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--
Martin Reuter, PhD
Assistant Professor of Radiology, Harvard Medical School
Assistant Professor of Neurology, Harvard Medical School
A.A.Martinos Center for Biomedical Imaging
Massachusetts General Hospital
Research Affiliate, CSAIL, MIT
Phone: +1-617-724-5652
Web : http://reuter.mit.edu
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