Hi,
It should be
atlasquery -a "Harvard-Oxford Subcortical Structural Atlas" -m yourmask.nii.gz
in this case the probability will averaged over all the voxels in your mask (http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Atlasquery)
Mohamad
________________________________________
From: FSL - FMRIB's Software Library [[log in to unmask]] on behalf of Ray Lee [[log in to unmask]]
Sent: Wednesday, October 01, 2014 4:14 PM
To: [log in to unmask]
Subject: [FSL] atlasquery
What is the exact formula for calculating the probability associated with each label in the output file of atlasquery? Assume that atlasquery uses Harvard-Oxford cortical and subcortical atlas. Thanks in advance.
Ray
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