Hi guys,

 

I have a couple of queries regarding the output dimensions for mri_cvs_register.

 

1. If I am registering my images to MNI space, can the command give me a 2mm image, or will I only get a 1mm image which I then need to convert into a 2mm? I am currently getting a 1mm image and resampling it to a 2mm image afterwards (for fMRI analysis), using the following commands, and wanted to double check the procedure:
1. CVS command: mri_cvs_register --mov <subjID> --mni
2. FSL command:

flirt -in <final_CVSmorphed_tocvs_avg35_inMNI152_norm.nii> \

-ref < final_CVSmorphed_tocvs_avg35_inMNI152_norm.nii > -applyisoxfm 2.0 -nosearch \

-out <subject_MNI_2mm.nii>

 

2. I also noticed that when I resample the image this way, though its dimensions are 2mm^3 the voxels in the bounding box are different to the voxels in my 2mm^3 functional image preprocessed in FSL (FS: 128^3 vs FSL: 109 91 109).
1. Is this a problem?
2. If so, is there a way to rectify this?

 

Many thanks!

Liz