I wanna to do the registration of a 4D file of fMRI modality ( I used feat from fsl brain but it doesn't transform data to standard space) so if someone know a method that can generate a 4D registred image.
Using Feat tool of FSL, it is possible to register the epi data to standard space (MNI). I think you need to tick the standard space MNI in a part of this tool when you're doing registration. It provides all the registrated images (T1 to MNI, epi to MNI, epi to T1,....). It also gives the transformation matrix that are really useful. You can also use SPM to register your 4D file, but it doesn't give you the epi registered to MNI.
If you mean to have a 4D nifti file, there may be no tool that can generate the 4D registered image as a Nifti file. Any how you can see the registered image in FSL software.
I think it could be probable to take this 4D file using Matlab by some methods.
Thanks @Seyedeh for your reply.
Yes what I need is to have the 4D nifti file and work on it with nilearn (python library)
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