I'm using NiftyReg for image registration, and I have several artifacts when applying the warp from a non-linear registering of de facto standard MNI-ICBM-152 atlas.Here are a few slices showing the artifacts:  I tested the registration to the the GG-366-0.7mm T1 atlas (after skull-stripping with BET from FSL)Here are the commands I ran:reg_f3d -ref GG-366-T1-0.7mm.brain.nii.gz -flo MNI-ICBM-152-T1.brain.nii.gz -res MNI-ICBM-152-T1.nlin-GG.nii.gz -cpp MNI-ICBM-152-T1.nlin-GG.cpp.nii.gzreg_resample -ref GG-366-T1-0.7mm.brain.nii.gz -flo MNI-ICBM-152-WM.nii.gz -trans MNI-ICBM-152-WM.nlin-GG.cpp.nii.gzThis is using the latest git version of Nifty-Reg. Using the latest stable version (1.3.9) the result is the same, but the reg_resample program takes the -cpp parameter instead of -trans.Any ideas if this is a bug in Nifty-Reg or can be worked-around?
NiftyReg reg_resample results in strange artifacts when registering MNI-ICBM-152 atlas
neuroimaging