Is lh.lh-rh.thickness.sm00.mgh the left hemisphere overlay or the stack of voxel-wise cortical thickness difference between left and right hemisphere of each subject? I need to see the difference map of left and right (lh-rh) overlaid on both hemispheres!
On Thu, Jul 11, 2013 at 6:01 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu>wrote: > The first command loads the left hemisphere overlay onto the right > hemisphere. Why do you want to do this? > doug > > > On 07/11/2013 11:13 AM, amirhossein manzouri wrote: > >> As I mentioned before in my second question : >> tksurfer fsaverage_sym rh inflated -aparc -overlay >> lh.lh-rh.thickness.sm00.mgh >> tksurfer fsaverage_sym lh inflated -aparc -overlay >> lh.lh-rh.thickness.sm00.mgh >> For Right and Left side! >> BR >> >> >> On Thu, Jul 11, 2013 at 4:38 PM, Douglas Greve >> <gr...@nmr.mgh.harvard.edu<mailto: >> gr...@nmr.mgh.harvard.**edu <gr...@nmr.mgh.harvard.edu>>> wrote: >> >> >> I don't know what you mean by overlaying the results on L & R. >> What is your command line? >> >> >> >> On 7/11/13 3:34 AM, amirhossein manzouri wrote: >> >>> Thanks Doug, >>> When I overlay the results on L & R , I see different patterns on >>> each hemisphere. Is it something that I don't understand correctly? >>> BR >>> >>> >>> On Wed, Jul 10, 2013 at 5:45 PM, Douglas N Greve >>> <gr...@nmr.mgh.harvard.edu >>> <mailto:gr...@nmr.mgh.harvard.**edu<gr...@nmr.mgh.harvard.edu>>> >>> wrote: >>> >>> >>> On 07/10/2013 01:26 AM, amirhossein manzouri wrote: >>> > Dear Doug and FS experts, >>> > I am trying to use Xhemi tool to study asymmetry in the >>> brain. I have >>> > done the exact procedure you mentioned in WiKi for a group >>> of 40 controls. >>> > 1) Is lh.lh-rh.thickness.sm00.mgh the stack of voxel-wise >>> cortical >>> > thickness difference between left and right hemisphere of >>> each subject? >>> Yes. >>> > 2) If yes, shouldn't I see the similar mapping by >>> overlaying this to >>> > lh and rh? >>> > (tksurfer fsaverage_sym rh inflated -aparc -overlay >>> > lh.lh-rh.thickness.sm00.mgh) >>> I don't know what you mean. Can you elaborate/ >>> > 3) How do you interpret the result after analyzing within >>> one group? >>> > ( tksurfer fsaverage_sym lh inflated -aparc -overlay >>> > glm.lh.lh-rh.thickness.sm05/**osgm/sig.mgh) >>> It is the difference between left and right hemisphere at >>> each vertex. >>> > 4) Is there any way to look at the results through the >>> brain per slice >>> > and also the whole brain? >>> Do you mean mapping the difference into the volume and then >>> viewing it >>> as a volume? If so, You can try mri_surf2vol >>> doug >>> > >>> > -- >>> > Best regards, >>> > Amirhossein Manzouri >>> > >>> > >>> > >>> > >>> > ______________________________**_________________ >>> > Freesurfer mailing list >>> > Freesurfer@nmr.mgh.harvard.edu >>> >>> <mailto:freesur...@nmr.mgh.**harvard.edu<Freesurfer@nmr.mgh.harvard.edu> >>> > >>> >>> > https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/** >>> freesurfer<https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> >>> >>> -- >>> Douglas N. Greve, Ph.D. >>> MGH-NMR Center >>> gr...@nmr.mgh.harvard.edu >>> <mailto:gr...@nmr.mgh.harvard.**edu<gr...@nmr.mgh.harvard.edu> >>> > >>> Phone Number: 617-724-2358 <tel:617-724-2358> >>> Fax: 617-726-7422 <tel:617-726-7422> >>> >>> Bugs: >>> surfer.nmr.mgh.harvard.edu/**fswiki/BugReporting<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >>> >>> <http://surfer.nmr.mgh.**harvard.edu/fswiki/**BugReporting<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >>> > >>> FileDrop: >>> https://gate.nmr.mgh.harvard.**edu/filedrop2<https://gate.nmr.mgh.harvard.edu/filedrop2> >>> >>> www.nmr.mgh.harvard.edu/**facility/filedrop/index.html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >>> >>> <http://www.nmr.mgh.harvard.**edu/facility/filedrop/index.**html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >>> > >>> >>> Outgoing: >>> ftp://surfer.nmr.mgh.harvard.**edu/transfer/outgoing/flat/** >>> greve/ <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/> >>> >>> ______________________________**_________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> >>> <mailto:freesur...@nmr.mgh.**harvard.edu<Freesurfer@nmr.mgh.harvard.edu> >>> > >>> >>> >>> https://mail.nmr.mgh.harvard.**edu/mailman/listinfo/**freesurfer<https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> >>> >>> >>> The information in this e-mail is intended only for the >>> person to whom it is >>> addressed. If you believe this e-mail was sent to you in >>> error and the e-mail >>> contains patient information, please contact the Partners >>> Compliance HelpLine at >>> >>> http://www.partners.org/**complianceline<http://www.partners.org/complianceline>. >>> If the e-mail was >>> sent to you in error >>> but does not contain patient information, please contact the >>> sender and properly >>> dispose of the e-mail. >>> >>> >>> >>> >>> -- Best regards, >>> Amirhossein Manzouri >>> >>> >>> >> >> >> >> -- >> Best regards, >> Amirhossein Manzouri >> >> >> > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: > surfer.nmr.mgh.harvard.edu/**fswiki/BugReporting<http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: > https://gate.nmr.mgh.harvard.**edu/filedrop2<https://gate.nmr.mgh.harvard.edu/filedrop2> > www.nmr.mgh.harvard.edu/**facility/filedrop/index.html<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > Outgoing: ftp://surfer.nmr.mgh.harvard.**edu/transfer/outgoing/flat/** > greve/ <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/> > > -- Best regards, Amirhossein Manzouri
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