[Freesurfer] Problem with MATLAB-LGI

External Email - Use Caution Dear Freesurfer team: We are working with a medium-large dataset. All brain scans have been processed on Freesurfer 7.1.0., but we are encountering problems in running LGI using Freesurfer 7.1.0. We are using MATLAB R2021b The error appears after

Re: [Freesurfer] INSULA

a function-based triplicate division: Dorsal Anterior Insula, Ventral Anterior Insula and Posterior Insula. I have attached an image that explains this. best, Alan On Tue, Aug 17, 2021 at 7:45 PM Del Re, Elisabetta mailto:elisabetta_de...@hms.harvard.edu>> wrote: External Email

Re: [Freesurfer] INSULA

might be able to merge some of those labels to get what you want. Otherwise, you can split the big insula label in the aparc with mris_divide_parcellation On 8/13/2021 7:11 AM, Del Re, Elisabetta wrote: External Email - Use Caution External Email - Use Caution Dear Freesurfer

[Freesurfer] INSULA

External Email - Use Caution Dear Freesurfer team, I am looking for segmentation of the anterior versus posterior insula. Does FreeSurfer provide that? Many thanks, regards, Elisabetta From: Del Re, Elisabetta Sent: Friday, August 13, 2021 7:09

Re: [Freesurfer] visualizing regional significant correlation with clinical traits by group

External Email - Use Caution Dear Freesurfer team, I am looking for segmentation of the anterior versus posterior insula. Does FreeSurfer provide that? Many thanks, regards, Elisabetta From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of

Re: [Freesurfer] LGI FS 7.1

? On 6/30/2021 5:05 PM, Del Re, Elisabetta wrote: External Email - Use Caution External Email - Use Caution Thank you so much. I am still in doubt as to whether adjust/normalize for brain volume or otherwise surface area before comparing groups. Thank you for your advise, best wishes

Re: [Freesurfer] LGI FS 7.1

%2Ffswiki%2FReleaseNotes On 6/9/2021 10:17 AM, Del Re, Elisabetta wrote: External Email - Use Caution External Email - Use Caution Dear FS team, what are differences if any between LGI in FS 5.3 and 7.1? Thank you so much, best wishes, Elisabetta

[Freesurfer] LGI FS 7.1

External Email - Use Caution Dear FS team, what are differences if any between LGI in FS 5.3 and 7.1? Thank you so much, best wishes, Elisabetta ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] Hippocampus {Disarmed}

the segmentation in freeview and clicking on what you want the corners to be? On 5/11/2020 2:42 PM, Del Re, Elisabetta wrote: The voxels are boxes In coronal we have been using the uncus to divide in anterior vs posterior. From: freesurfer-boun...@nmr.mgh.harvard.edu

Re: [Freesurfer] Hippocampus {Disarmed}

: [Freesurfer] Hippocampus {Disarmed} And how do you want to define your voxel? As a bounding box around a particular structure (or structures)? Which ones? On 5/11/2020 2:12 PM, Del Re, Elisabetta wrote: Hi Douglas, basically yes. Thank you so much, Elisabetta From

Re: [Freesurfer] Hippocampus {Disarmed}

still not sure what you are asking for. Do you want coordinates for your MRS voxels for each subject? On 5/11/2020 12:53 PM, Del Re, Elisabetta wrote: I'm trying to recreate the same freesurfer subdivision during MRS acquisition of 2 voxels for anterior and posterior hippocampus. I am trying

Re: [Freesurfer] Hippocampus {Disarmed}

=WO-RGvefibhHBZq3fL85hQ=KlJbht4h1i6aPJHMk7qSgoiYID4UiBhKWpU1g8jq1jE=fjWSQLEUevw4V3T7racczK2BUOsPDBmbiqs7qyeR6so=n-1B4u85EejQIkYKzPo5ylvUsNvLpYJY0cfW4xNw9VM=> From: on behalf of "Del Re, Elisabetta" Reply-To: Freesurfer support list Date: Monday, May 11, 2020 at 09:42 To: "freesurfe

[Freesurfer] Hippocampus

Dear Freesurfer team, I have analyzed the anterior/posterior hippocampus successfully utilizing FS6.0. I am trying to translate the same subdivision to MRI acquisition for spectroscopy purposes. Do you have suggestions? Thank you very much, regards, Elisabetta

Re: [Freesurfer] Cortical White matter/corpus callisum

y etc. Best, Alan On Mon, Jan 15, 2018 at 2:11 PM, Del Re, Elisabetta <elisabetta_de...@hms.harvard.edu<mailto:elisabetta_de...@hms.harvard.edu>> wrote: Dear experts, Is the corpus callosum volume included in the 'cortical White matter' volume? Thank you, Best, Elisabetta Ge

[Freesurfer] Cortical White matter/corpus callisum

Dear experts, Is the corpus callosum volume included in the 'cortical White matter' volume? Thank you, Best, Elisabetta Get Outlook for iOS From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of

[Freesurfer] Problem with ambiguous voxels?

Dear FS Team, We are running recon-all for a large dataset and 5 of the cases keep getting stuck at the exact same spot. It is the point at which the following has just been displayed on the screen: #@# WM Segmentation Wed Aug 30 17:34:40 EDT 2017 mri_segment brain.mgz wm.seg.mgz doing

[Freesurfer] FS 6.0

Dear FS team, we are setting up FS 6.0 and have run one test case. The run went through but only after we created a 001.mgz image. It seems somewhat strange to us. Thank you so much, best, Elisabetta From: freesurfer-boun...@nmr.mgh.harvard.edu

Re: [Freesurfer] Cortical white matter

Subject: Re: [Freesurfer] Cortical white matter no, it does not. On 11/07/2016 02:44 PM, Del Re, Elisabetta wrote: > > Dear FreeSurfer team, > > does the cortical white matter volume include the cerebellum? > > Thank yo

[Freesurfer] Cortical white matter

Dear FreeSurfer team, does the cortical white matter volume include the cerebellum? Thank you, regards, Elisabetta ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The

Re: [Freesurfer] FreeSurfer 6.0

Thank you, looking forward to the 6.0! Regards, Elisabetta Elisabetta C. del Re, Ph.D. Instructor, Department of Psychiatry Harvard Medical School phone 617 9675569 mail elisabetta_de...@hms.harvard.edu From: freesurfer-boun...@nmr.mgh.harvard.edu

Re: [Freesurfer] T1 weighted versus T2 weighted

Hi Bruce, thank you, yes, that is OK. But my question rephrased is whether in my recon-all that I use to start processing, can I input both T1 and T2 together. Thank you again, regards, Elisabetta From: freesurfer-boun...@nmr.mgh.harvard.edu

Re: [Freesurfer] FS F.5 error

, Elisabetta del Re -- Elisabetta del Re, instructor, psychiatry, Harvard Medical School ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information

Re: [Freesurfer] FS F.5 error

try -all instead (or -autorecon2 -autorecon3 after what you have already run). cheers Bruce On Wed, 30 Apr 2014, Del Re, Elisabetta wrote: Hi Bruce, thank you. No, the stats have only 2 files and aparc and aseg are missing. Elisabetta C. del Re, Ph.D. Instructor, Department of Psychiatry

[Freesurfer] list of FreeSurfer 5.3 labels

Hi, I am trying to find a list of all the labels available for FreeSurfer 5.3 and am having a hard time finding it. Any suggestions? Thank you, regards, Elisabetta del Re ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu