Thanks for reply bruce.
I got my mistake.Actually i am learning Cortical thickness using freesurfer.In which ROI5.nii n *TT_avg152T1.nii*. image is required which i took from our own data set,but didnt have thickness file for surface to surface mapping.Now i will do recon all on my data set to get complete information.Thanks again for your advice.
cheers Saurabh Thakur,
On Wed, Mar 26, 2014 at 5:59 PM, Bruce Fischl fischl@nmr.mgh.harvard.eduwrote:
Hi Saurabh
I'm not sure I understand. This is the purpose of recon-all - to generate morphomological models, including the thickness estimates in lh.thickness. Is that would you mean? BTW: I wouldn't look at thickness in the hippocampus, the results will be unreliable due to all the internal structure in the hippocampus that is not well-resolved at current resolutions.
cheers Bruce
On Wed, 26 Mar 2014, Saurabh Thakur wrote:
Hello Bruce,
I am referring to link
http://surfer.nmr.mgh.harvard.edu/fswiki/VolumeRoiCorticalThickness
to calculate the cortical thickness of particular area such as Left hippocampus for our own data set.
But i am looking for forward to generate lh.thickness file in freesurfer for own data set which can be used as overlay. (Used for surface to surface overlay)
Can u suggest how to generate lh.thickness file for my own data using freesurfer...?
Thanks in advanced.
cheers Saurabh Thakur,
On Tue, Mar 11, 2014 at 10:28 PM, Bruce Fischl < fischl@nmr.mgh.harvard.edu> wrote: try configure->functional overlay or something like that after loading the thickness into a functional overlay On Tue, 11 Mar 2014, Saurabh Thakur wrote:
I am referring one paper. It mentioned about the freesurfer and cortical thickness they hv got in tksurfer. I m just want to know how to get that done in tksurfer. I hv attached that paper for the reference. cheers Saurabh Thakur, On Tue, Mar 11, 2014 at 7:14 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote: what is it that you want to histogram? If the thickness, tksurfer will do this for you if you load it as an overlay. Or you can read it into matlab and show it there On Tue, 11 Mar 2014, Saurabh Thakur wrote: > Hello Freesurfer Expert, > > Can anyone help me with histogram plotting of different surfaces in > tksurfer. > > I looking to calculate the thickness of cortex. > > Thanks in advance, > > > Saurabh Thakur, > > > > > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu 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 . 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.