If you already have both white and pial surfaces for the subjects as generated by freesurfer, calculation of thickness is just the distance between corresponding vertices, and freesurfer should have already calculated this (I don't know freesurfer's file naming conventions, so I can't say what file it would be in). It is not defined or calculated in the volume, so it is never mapped from volume to surface.
If you want/need to recalculate it for some reason, you can use wb_command -surface-to-surface-3d-distance . Tim On Mon, Jul 11, 2016 at 5:20 AM, Dev vasu < [email protected]> wrote: > Dear Sir, > > > can we used myelin style as a mapping method for Volume to surface mapping > in wb_command to produce cortical thickness files,Unfortunately i only have > T1w images and we have not acquired T2w images, i would like to use T1w > images to generate Cortical thickness , could you please let me know if its > appropriate way generate them using > > wb_command -volume-to-surface-mapping command and Myelin style mapping method > ?. > > > > Thanks > > Vasudev > > > On 8 July 2016 at 17:03, Harms, Michael <[email protected]> wrote: > >> >> Hi, >> For statistical inference, I would recommend that you look into the PALM >> tool. >> >> http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/PALM >> >> >> -- >> Michael Harms, Ph.D. >> ----------------------------------------------------------- >> Conte Center for the Neuroscience of Mental Disorders >> Washington University School of Medicine >> Department of Psychiatry, Box 8134 >> 660 South Euclid Ave. Tel: 314-747-6173 >> St. Louis, MO 63110 Email: [email protected] >> >> From: Dev vasu <[email protected]> >> Date: Friday, July 8, 2016 at 9:56 AM >> To: "Harms, Michael" <[email protected]> >> Cc: "<[email protected]>" <[email protected]> >> Subject: Re: [HCP-Users] create cortical thickness maps for multiple >> subjects in the same template space >> >> Dear Sir, >> >> Is there any way to quantify the changes in cortical thickness between >> healthy controls and non healthy controls ?. >> >> >> Thanks >> Vasudev >> >> On 8 July 2016 at 16:47, Harms, Michael <[email protected]> wrote: >> >>> >>> HI, >>> Cortical thickness maps on the surface mesh are already created for >>> you. You should analyze/view the thickness on the surface; not try to >>> project the thickness back onto the volume. >>> >>> cheers, >>> -MH >>> >>> -- >>> Michael Harms, Ph.D. >>> ----------------------------------------------------------- >>> Conte Center for the Neuroscience of Mental Disorders >>> Washington University School of Medicine >>> Department of Psychiatry, Box 8134 >>> 660 South Euclid Ave. Tel: 314-747-6173 >>> St. Louis, MO 63110 Email: [email protected] >>> >>> From: <[email protected]> on behalf of Dev vasu < >>> [email protected]> >>> Date: Friday, July 8, 2016 at 9:35 AM >>> To: "<[email protected]>" <[email protected]> >>> Subject: [HCP-Users] create cortical thickness maps for multiple >>> subjects in the same template space >>> >>> Dear Sir /madam, >>> >>> I am able to successfully run Structural preprocessing pipeline on a >>> group of 24 subjects, I would like to know how i can create cortical >>> thickness maps for all the subjects in MNI152_T1_0.7mm.nii.gz template. >>> >>> >>> >>> Thanks >>> Vasudev >>> >>> >>> _______________________________________________ >>> HCP-Users mailing list >>> [email protected] >>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >>> >>> >>> ------------------------------ >>> >>> The materials in this message are private and may contain Protected >>> Healthcare Information or other information of a sensitive nature. If you >>> are not the intended recipient, be advised that any unauthorized use, >>> disclosure, copying or the taking of any action in reliance on the contents >>> of this information is strictly prohibited. If you have received this email >>> in error, please immediately notify the sender via telephone or return mail. >>> >> >> >> ------------------------------ >> >> The materials in this message are private and may contain Protected >> Healthcare Information or other information of a sensitive nature. If you >> are not the intended recipient, be advised that any unauthorized use, >> disclosure, copying or the taking of any action in reliance on the contents >> of this information is strictly prohibited. If you have received this email >> in error, please immediately notify the sender via telephone or return mail. >> > > _______________________________________________ > HCP-Users mailing list > [email protected] > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
