External Email - Use Caution Hi, Anastasia. Thanks a lot. Sure I will try your suggestions.
Mudathir > On Mar 31, 2021, at 13:00, Yendiki, Anastasia <ayend...@mgh.harvard.edu> > wrote: > > Hi Mudathir - There are several ways to configure the projection from the > volume to the surface, so you might want to look at the options of > mri_vol2surf to make sure that it's doing exactly what you want. There are > ways to control how deep you go from the surface (projfrac/projdist) and ways > to control what quantity you extract from the volume voxels along that depth > (avg/max). It also gives you the option to smooth the points in the volume > before projecting or on the surface after projecting. You can play with these > things to change the appearance of the end result. > > Anastasia. > From: freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu> > <freesurfer-boun...@nmr.mgh.harvard.edu > <mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> on behalf of バキット・ムダシル > <m-bak...@fmu.ac.jp <mailto:m-bak...@fmu.ac.jp>> > Sent: Tuesday, March 30, 2021 11:02 PM > To: Freesurfer support list <Freesurfer@nmr.mgh.harvard.edu > <mailto:Freesurfer@nmr.mgh.harvard.edu>> > Subject: [Freesurfer] Tract endpoint density map surface overlay > > External Email - Use Caution > Hi everyone, > > I need to confirm if the steps below are correct, so I would like to ask > freesurfer experts help. By using the Left-Cerebral-White-Matter mask > imported from freesurfer as a seed I created a tract end points density image > of the arcuate fasciculus in a NIFTI format (first figure). I want to display > the image on the same subject’s white matter surface. So, I wrote the command > as follows > > > mri_vol2surf --src DensityMAP.nii.gz --out filename.mgh --hemi lh --surf > white --out_type mgh --regheader subject_id > > The output as seen in the second figure. > > Thanks > > Mudathir > > <PastedGraphic-2.png> > > <PastedGraphic-4.png> > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://secure-web.cisco.com/1YyX2WZdXvziwmbRW7WwdQNB5n_CUGHdWhd5wI7m5IGjg7OZ53lZdnUrH4a0kjUeRpzE8tTSudEW6stcPscQ26zvAMSBKfQZBdx0d1q670WimTnhxeSnj6Jh0meANQw-uoS2v891f2cQGScTqpcrRY6TATdxHtr4NxDVUHd8gUK5xGD-iiumG0CmTIk77IMLu7-Y7baA6tRoXI13hnxynNMIoG0ED9qihZ8shjlVa4DXaalktm3MwkhdeexN1BPk_8oOD2q6lnQwnqiz7uh-6-w/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer > > <https://secure-web.cisco.com/1YyX2WZdXvziwmbRW7WwdQNB5n_CUGHdWhd5wI7m5IGjg7OZ53lZdnUrH4a0kjUeRpzE8tTSudEW6stcPscQ26zvAMSBKfQZBdx0d1q670WimTnhxeSnj6Jh0meANQw-uoS2v891f2cQGScTqpcrRY6TATdxHtr4NxDVUHd8gUK5xGD-iiumG0CmTIk77IMLu7-Y7baA6tRoXI13hnxynNMIoG0ED9qihZ8shjlVa4DXaalktm3MwkhdeexN1BPk_8oOD2q6lnQwnqiz7uh-6-w/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
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