Hello,
Simple examples of FLIRT usage are given on the help pages:
https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FLIRT/UserGuide#FLIRT_Examples
you may also want to have a look at the FLIRT practical from the FSL course:
http://fsl.fmrib.ox.ac.uk/fslcourse/lectures/practicals/reg/index.html#inter
Kind Regards
Matthew
> Dear FSL Experts,
>
> I want to register a reference MNI152_T1_2mm to my image space .(test_001)
> I am using FLIRT command and for that it is required to specify the transform matrix with applyxfm.
> Can you please help me with how to calculate this transform matrix.(i.e standard2orig.mat)
>
> flirt -in $FSLDIR/data/standard/MNI152_T1_2mm -out test_ref -ref test_0001 -applyxfm -init <standard2orig.mat>
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