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Hi Paul, FSL version which i am using is 5.0.7 and the output given by atlasquery is : atlasquery -a ¨JHU White-Matter Tractography Atlas¨ -m mask_size2.nii.gz Invalid atlas name. Try one of: Cerebellar Atlas in MNI152 space after normalization with FLIRT Cerebellar Atlas in MNI152 space after normalization with FNIRT Harvard-Oxford Cortical Structural Atlas Harvard-Oxford Subcortical Structural Atlas JHU ICBM-DTI-81 White-Matter Labels JHU White-Matter Tractography Atlas Juelich Histological Atlas MNI Structural Atlas Mars Parietal connectivity-based parcellation Mars TPJ connectivity-based parcellation Neubert Ventral Frontal connectivity-based parcellation Oxford Thalamic Connectivity Probability Atlas Oxford-Imanova Striatal Connectivity Atlas 3 sub-regions Oxford-Imanova Striatal Connectivity Atlas 7 sub-regions Oxford-Imanova Striatal Structural Atlas Sallet Dorsal Frontal connectivity-based parcellation Subthalamic Nucleus Atlas Talairach Daemon Labels # Hi Archana, # # What version of FSL are you using? Could you please give the full output # that atlasquery gives when you run it? # # Thanks, # # Paul # # On Thu, Mar 5, 2015 at 4:00 AM, Archana Malagi <[log in to unmask]> wrote: # #> Hi FSL experts, #> #> I am facing problem while using command atlasquery. I have generated #> mask #> of significant clusters formed by randomise command, #> #> atlasquery -a "JHU White-Matter Tractography Atlas" -m mask_size2.nii.gz #> #> Error given is invalid atlas name used, is there any error in this #> command? #> #> Thanks, #> Archana #> #