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Feel free to use and share it. Hope it helps! Anderson 2013/2/14 zhang mingxia <[log in to unmask]> > This script is so useful! It should be shared to everyone. > > > On Wed, Feb 13, 2013 at 9:02 PM, David Gutman <[log in to unmask]> wrote: > >> So there's a post by Anderson Winkler on the 8th of this year that >> included a script (reattached-- thanks Anderson, this looks useful) that >> helped to automate some of those lookups. >> >> Also--- this topic made me start playing around again with atlasquery... >> and I noticed it doesn't seem to be showing up on my recently installed >> Ubuntu 12.04 system .... >> >> A quick search seems to suggest it's included in the fsl-4.1 version, but >> maybe not the 5.0 Ubuntu package...and at least on my system the 4.1 >> installation simply created a a symbolic link to a directory that doesn't >> exist.... >> >> apt-file search atlasquery yielded: fsl-4.1: >> /usr/lib/fsl/4.1/atlasquery >> >> Then when I checked the installed file... >> ls -al /usr/lib/fsl/4.1/atlasquery >> /usr/lib/fsl/4.1/atlasquery -> ../../../bin/atlasquery >> >> >> >> >> >> >> >> >> ---------- Forwarded message ---------- >> From: Anderson M. Winkler <[log in to unmask]> >> Date: Tue, Jan 8, 2013 at 2:51 PM >> Subject: Re: [FSL] FSL VBM result reports >> To: [log in to unmask] >> >> >> >> On Wed, Feb 13, 2013 at 7:22 PM, zhang mingxia < >> [log in to unmask]> wrote: >> >>> Hi Mark, >>> >>> I have one more question of atlasquery. If the mask has more other one >>> clusters, it is not recommended to use the -m option, right? Because >>> atlasquery will average all voxels in the mask, we can't get the name of >>> every cluster, right? >>> >>> Mingxia >>> >>> >>> On Wed, Feb 13, 2013 at 1:54 PM, Mark Jenkinson < >>> [log in to unmask]> wrote: >>> >>>> Hi, >>>> >>>> This is explained at: >>>> http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/Atlasquery >>>> >>>> All the best, >>>> Mark >>>> >>>> >>>> On 13 Feb 2013, at 21:52, Sandra Petris <[log in to unmask]> >>>> wrote: >>>> >>>> Hi Fsl experts, >>>> >>>> when I run the following: >>>> >>>> atlasquery -a "JHU White-Matter Tractography Atlas" -m >>>> cluster_index_t3_085 >>>> >>>> I get the following and I would like to know what means the number >>>> near the atlas name. >>>> >>>> thanks alot >>>> sandra >>>> >>>> Anterior thalamic radiation L:1.09575 >>>> Anterior thalamic radiation R:0.0030888 >>>> Corticospinal tract L:6.02214 >>>> Corticospinal tract R:0.123295 >>>> Cingulum (cingulate gyrus) L:0.0780352 >>>> Forceps minor:0.511154 >>>> Inferior fronto-occipital fasciculus L:2.84736 >>>> Inferior longitudinal fasciculus L:0.944402 >>>> Superior longitudinal fasciculus L:7.9619 >>>> Superior longitudinal fasciculus R:0.020592 >>>> Uncinate fasciculus L:0.0123552 >>>> Superior longitudinal fasciculus (temporal part) L:3.10425 >>>> Superior longitudinal fasciculus (temporal part) R:0.00669241 >>>> >>>> >>>> >>>> >>> >> >> >> -- >> David A Gutman, M.D. Ph.D. >> Assistant Professor of Biomedical Informatics >> Senior Research Scientist, Center for Comprehensive Informatics >> Emory University School of Medicine >> > >