Super resolution consists of merging the DWI information from two orthogonal slices acquired with anisotropic voxel (Scherrer 2011, MICCAI).
In my case, I have acquired a 2x2x6mm3 transversal and coronal planes for 14 slices (large voxels because T2 drops in formalin fixed specimens).
Can I do this to merge the information of both acquistions :
DWI_Tran.mif and DWI_Cor.mif have first been corrected with topup feature and B1 inhomogeneities (dwibiascorrect, dwipreproc)
% flip DWI_Tran.mif (Y and Z axis) into DWI_Cor.mif coordinates
% the 4th axis is the diffusion directions
mrconvert -axes 0,2,1,3 DWI_Tran.mif DWI_Tran_flipped.mif
% merge images
% on which axis I should merge images on ?
% Mrcat does not work when .mif are not in the same dimension which can be problematic when merging anisoptropic voxels
mrcat DWI_Tran_flipped.mif DWI_Cor.mif all_DWIs.mif -axis 4
dwi2response dhollander all_DWIs.mif csd_response_tissue1.txt csd_response_tissue2.txt csd_response_tissue3.txt -voxel csd_response_voxel_investigated_tissues_1_2_3.mif
btw, thank you for making the tractography more accessible to researchers with your software !