External Email - Use Caution Yes, that must be it. If I calculate the volume of the resulting pial surfaces in the case of CAT12 I get 1080cc and for Freesurfer it is 1154cc which agrees, broadly, with the Freesurfer numbers.
Michael On Fri, Jun 9, 2023 at 11:41 AM Glasser, Matt <glass...@wustl.edu> wrote: > External Email - Use Caution > > Is it possible that CAT12 reports volumes after alignment to MNI space > (incorrect)? That is roughly the magnitude of the difference in total > brain volume. > > > > Matt. > > > > *From: *<freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Michael Mc > Laughlin <mich...@thecurate.com> > *Reply-To: *Freesurfer support list <Freesurfer@nmr.mgh.harvard.edu> > *Date: *Friday, June 9, 2023 at 3:14 AM > *To: *Freesurfer support list <Freesurfer@nmr.mgh.harvard.edu> > *Subject: *Re: [Freesurfer] Huge difference between volumes for > Freesurfer vs CAT12 > > > > * External Email - Use Caution * > > I have used both CAT12 and Freesurfer to segment a particular brain scan > and I get completely different volumes. > > > > CAT12 Freesurfer 7.3.2 > Left Cerebral WM(cc): 209 242 > Left Cerebral Cortex (cc) 444 269 > Left Lateral Ventricle (cc): 28 43 > Right Cerebral WM (cc): 208 242 > Right Cerebral Cortex (cc): 440 270 > Right Lateral Ventricle (cc): 20 28 > ---------------------------------------------- > Total 1350 1095 > > Total brain volume (cc): 1618 1309 > Total Intercranial Volume N/A 1852 > > > > What could be causing this difference? > > > > The brain scan was done with MPRAGE protocol with 176x256x256 voxels of > size 1mmx0.976mmx0.976mm > > > > Which one is correct? > > > > The scan is of a normal adult male aged 62 with chronic migraine. > > > > Resent a second time because table did not work well in either of > previous attempts > > > > > > On Fri, Jun 9, 2023 at 9:00 AM Michael Mc Laughlin <mich...@thecurate.com> > wrote: > > I have used both CAT12 and Freesurfer to segment a particular brain scan > and I get completely different volumes. > > > > *CAT12 (cc)* > > *Freesurfer 7.3.2 (cc)* > > Left Cerebral WM(cc): > > 209 > > 242 > > Left Cerebral Cortex (cc): > > 444 > > 269 > > Left Lateral Ventricle (cc): > > 28 > > 43 > > Right Cerebral WM (cc): > > 208 > > 242 > > Right Cerebral Cortex (cc): > > 440 > > 270 > > Right Lateral Ventricle (cc): > > 20 > > 28 > > Total > > *1350* > > *1095* > > Total volume (cc): > > 1618.09 > > 1309 > > 1852 > > What could be causing this difference? > > > > The brain scan was done with MPRAGE protocol with 176x256x256 voxels of > size 1mmx0.976mmx0.976mm > > > > Which one is correct? > > > > The scan is of a normal adult male aged 62 with chronic migraine. > > > > Resent because table did not work well > > > Michael McLaughlin, > > > > On Fri, Jun 9, 2023 at 8:19 AM Michael Mc Laughlin <mich...@thecurate.com> > wrote: > > I have used both CAT12 and Freesurfer to segment a particular brain scan > and I get completely different volumes. > > > > *CAT12 (cc)* > > *Freesurfer 7.3.2 (cc)* > > Left Cerebral White Matter volume(cc): > > 209 > > Left hemisphere cerebral white matter volume > > 242 > > Left Cerebral Cortex volume(cc): > > 444 > > Left hemisphere cortical gray matter volume > > 269 > > Left Lateral Ventricle volume(cc): > > 28 > > Left-Lateral-Ventricle > > 43 > > Right Cerebral White Matter volume(cc): > > 208 > > Right hemisphere cerebral white matter volume > > 242 > > Right Cerebral Cortex volume(cc): > > 440 > > Right hemisphere cortical gray matter volume > > 270 > > Right Lateral Ventricle volume(cc): > > 20 > > Right-Lateral-Ventricle > > 28 > > Total > > *1350* > > Total > > *1095* > > Total volume (cc): > > 1618.09 > > Brain Segmentation Volume > > 1309 > > Estimated Total Intracranial Volume > > 1852 > > > > What could be causing this difference? > > > > The brain scan was done with MPRAGE protocol with 176x256x256 voxels of > size 1mmx0.976mmx0.976mm > > > > Which one is correct? > > > > The scan is of a normal adult male aged 62 with chronic migraine. > > > Michael McLaughlin, > > > > > ------------------------------ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. 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