5, 2020, 1:09 PM Douglas N. Greve
wrote:
> I don't know what you are asking for. Can you elaboraet?
>
> On 6/5/2020 10:41 AM, Kate Marvel wrote:
>
> External Email - Use Caution
>
> Hi Freesurfer team,
>
> I would like to do a brain render using freesurfe
External Email - Use Caution
Hi Freesurfer team,
I would like to do a brain render using freesurfer ROIs. Is there .mz3
file for freesurfer brain atlas?
Thanks,
--
kate
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https:/
External Email - Use Caution
Hi Iglesias,
I would like to learn the two ways for estimating volumes mentioned in
another post, see below. Please send me the codes in Freesurfer to do this.
Thank you,
Kate
-- Forwarded message -
From: Iglesias Gonzalez, Juan E.
eers,
>
> /Eugenio
>
>
>
>
>
> Juan Eugenio Iglesias
>
> Senior research fellow
>
> CMIC (UCL), MGH (HMS) and CSAIL (MIT)
>
> http://www.jeiglesias.com
>
>
>
>
>
>
>
> *From: * on behalf of Kate Marvel
>
> *Reply-To: *Freesurf
External Email - Use Caution
Hi Freesurfer Community,
I have run Hippocampus subfield segmentation using scans from GE and
Siemens. The field of view (FOV) for GE and Siemens are different, with FOV
of 8 and 9 respectively. Will this affect the analysis since they have
different F
e Section 4.2 here (
> https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROI#IndividualStatsfiles).
>
>
> Regards,
> Thomas
>
> On Sun, Mar 15, 2020 at 7:22 PM Kate Marvel wrote:
>
>> External Email - Use Caution
>>
>>
>> Hi Freesurf
External Email - Use Caution
Hi Freesurfer community,
I would like to know how to compute the
ROI volumes of grey matter using Desikan atlas? Is there a threshold value
set for this? is it 0.2?
Thanks
kate
___
Freesurfer mailing list
F
n info is correct.
> Load one into freeview to assure that the cor view actually shows up as
> cor, etc. One thing you will not be able to check is whether there is a
> left-right flip
>
> On 2/24/2020 3:30 PM, Kate Marvel wrote:
>
> External Email - Use Caution
> Hi
External Email - Use Caution
Hi FreeSurfer Users,
I would like to perform PET analysis using PETSurfer and I have the
following FDG-PET NIfTI files below:
1. TRANSAXIAL_BRAIN_3D_FDG_IR_CTAC+Time-TMGX.nii
2. SAGITTAL_BRAIN_3D_FDG_IR_CTAC+Time-TMGX.nii
3. CORONAL_BRAIN_3D_FDG_IR_
hich will be stored in
> .mgz or .nii). mri_convert or mri_vol2vol can be used to apply the
> registration and/or change the output format (if you specify file.nii or
> file.nii.gz it will write in Nifti)
>
> cheers
> Bruce
>
>
> On Mon, 24 Feb 2020, Kate Marvel wrote:
at for storing images.
>
> On 2/21/2020 7:52 AM, Kate Marvel wrote:
>
> External Email - Use Caution
> Hi All,
>
> How do you convert the registered file (.lta) into NIfTI format in
> PETsurfer.
>
> Thanks,
>
>
> __
External Email - Use Caution
Hi All,
How do you convert the registered file (.lta) into NIfTI format in
PETsurfer.
Thanks,
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/free
External Email - Use Caution
Sorry for that. psf is zero. Thank you very much Douglas.
Kate
On Thu, Feb 20, 2020 at 3:55 PM Douglas N. Greve
wrote:
> yes, they are, thought I don't know why you include "psf6" in the output
> folder.
>
> On 2/20/2020
External Email - Use Caution
Dear All,
I would like to perform no partial volume correction of PET using
PETSURFER.
The steps followed in doing this is shown below:
gtmseg --s Patient_1
mri_concat Patient_1_pet.nii.gz --mean --o Patient_1_pet_tac_vol_mean.nii.gz
mri_coreg --s
MaskThresh is set to 0. MaskThresh should be between 0 and 1
>
> this is all kind of messy and unprincipled and the results are very
> sensitive to the values you set above . which is why I avoid it.
>
> On 1/27/2020 9:23 PM, Kate Marvel wrote:
>
> External Email - Use C
t; Run it with --help. Also look at the PETsurfer wiki page for typical usage
>
> On 1/27/2020 3:54 PM, Kate Marvel wrote:
>
> External Email - Use Caution
> Hi Freesurfer community,
>
> I would like to know the arguments to use for symmetric Geometric Transfer
> Matri
External Email - Use Caution
Hi Freesurfer community,
I would like to know the arguments to use for symmetric Geometric Transfer
Matrix and two-compartment model (Meltzer Method) in the petsurfer command
"mri_gtmpvc".
Thank you,
--
kate
_
parcellation/Schaefer2018_LocalGlobal/Parcellations/project_to_individual
>
> The gcs files will be incorporated into freesurfer at some point.
> Aihuiping (cc-ed) will attach the gcs files in the next email.
>
> Thanks,
> Thomas
>
> On Wed, Jan 15, 2020 at 7:40 AM Kate Marvel wrote:
>
External Email - Use Caution
Dear Freesurfer team,
I would like to include Schaefer atlas into freesurfer. The Schaefer atlas
can be found in the link below:
https://github.com/ThomasYeoLab/CBIG/tree/master/stable_projects/brain_parcellation/Schaefer2018_LocalGlobal/Parcellations
19 matches
Mail list logo