One way you can do it is to specify all the GM ROIs with --rescale Id1 Id2 ... Otherwise, you can run fscalc, eg,

fscalc mgx.ctxgm.nii.gz div `cat global.gm.dat ` -mul 100 -o mgx.ctxgm.rescaled.nii.gz

On 11/20/2020 11:44 AM, Boris Rauchmann wrote:

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Dear all,

How can I easily scale the mgx.ctxgm.nii.gz files with the whole brain mean intensity using PETSufer? Is there a command to use in mri_gtmpvc like --rescale X? I know that I can find the mean in global.gm.dat and I can use that value for scaling the atlas based results in gtm.stats.dat but how can I easily scale the image?

Thanks, Boris

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