Hi Richard,
where did you get the sources? I could not find them on any of the download
pages.
Peter
Von: freesurfer-boun...@nmr.mgh.harvard.edu
im Auftrag von R Edgar
Gesendet: Samstag, 3. Dezember 2016 01:22
An: Freesurfer support list
Betreff: Re:
On 5 December 2016 at 03:07, Parzer, Peter
wrote:
> where did you get the sources? I could not find them on any of the download
> pages.
Instructions on accessing the read-only git server:
http://surfer.nmr.mgh.harvard.edu/fswiki/freesurfer_linux_developers_page
Richard
_
Hello, freesurfer experts:
I have a question, recently, I use the aparcstats2label comamnd, and get the
result file, and I use tksurfer to display the desikan atlas(?h.aparc.annot),
and I want to corresponds the labels between this two, but in my
aparcstats2label result file, i can not find the
Dear experts,
I am having trouble using --init-reg option in bbregister (FreeSurfer v6 beta
version). It exits with error: must supply subject id.
My command line is:
bbregister --mov my_moveable.nii.gz --s my_subject_id --lta my_lta_out.lta
--dti --init-reg my_initial_lta.lta
I traced the p
Hello,
Is there a way to save the PVC (RBV) output in native PET resolution,
before upsampling?
Would you also be able to share the command that is used for upsampling? I
would like to play with a different type of interpolation.
Thank you very much.
Su
_
Try not including the "-it dicom" arg and see if that works
On 12/05/2016 10:01 AM, Marianna Riello wrote:
> Dear all again,
>
> Thanks for your reply.
> Please check the error attached when trying to convert the DICOM Mosaic in
> .mgz file when using mri_convert.
>
> Thanks in advance,
> Marian
does my_initial_lta.lta have the subject name in it? If not, then put
that argument before the --s
On 12/05/2016 10:34 AM, Antonin Skoch wrote:
> Dear experts,
>
> I am having trouble using --init-reg option in bbregister (FreeSurfer
> v6 beta version). It exits with error: must supply subject
Do you mean aparcstats2table?
On 12/05/2016 10:15 AM, Hao wen wrote:
>
> Hello, freesurfer experts:
>
> I have a question, recently, I use the aparcstats2label comamnd, and
> get the result file, and I use tksurfer to display the desikan
> atlas(?h.aparc.annot), and I want to corresponds the la
Can you upload the dicoms to
https://gate.nmr.mgh.harvard.edu/filedrop2
On 12/05/2016 12:09 PM, Marianna Riello wrote:
> Dear all,
>
> Thank you. I tried but still is showing the same error (check 2Error
> attachment)
> Do you have any other suggestions?
>
> Thanks in advance,
> Marianna
>
> ---
-- Forwarded message --
From:
Date: Fri, Dec 2, 2016 at 5:42 PM
Subject: Edit to wm.seg.mgz.
To: Freesurfer support list
Hello Freesurfer,
I replaced wm.seg.mgz from freesurfer with white matter +lesion (called it
wm.seg.mgz before replacing) from lesion explorer. Do I run recon
Hi Katherine - The error occurs when processing this file:
/media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs.norot
Can you send this file? Thanks!
a.y
From: Katherine Damme [katherine.da...@gmail.com]
Sent: Saturday, December 03, 2016 3:42 PM
To: Freesur
Hi Paul
you should run autorecon2-wm -autorecon3 so you don't have to rerun the
whole aseg stuff. I think that thiw will work as we will see that
wm.seg.mgz is different than wm.auto.mgz, but perhaps one of our recon-all
experts can commment as I've lost track of the various wm*.mgz files we n
Thanks bruce. Any comments from other will also be helpful. Also, other
wm.*.mgz that were generated besides wm.seg.mgz include: wm.asegedit.mgz,
wm.mgz, and wm.parc.mgz.
Best,
Paul
On Mon, Dec 5, 2016 at 2:22 PM, Bruce Fischl
wrote:
> Hi Paul
>
> you should run autorecon2-wm -autorecon3 so you
How did you create sig.mgh? If you used a surface-based mri_glmfit
analysis, then you'll need to convert sig.mgh to the volume (mri_surf2vol)
On 12/05/2016 02:25 PM, Dowling, Kevin Francis wrote:
>
> Hello Freesurfer Experts,
>
> I’m attempting to look at activity in a working memory paradigm us
Dear Doug,
yes, the point is, that my_initial_lta.lta does not have subject name in it.
Your suggestion to rearrange parameters in bbregister indeed helped to get
further, however, later ended with error in bbregister execution in call of
mri_segreg, which does not pass the subject parameter a
On 12/04/2016 05:47 AM, std...@virgilio.it wrote:
> Hi list,
> I wonder whether is possible to:
> 1) obtain cortical thickness from cerebellum and its subregions
No, not with FreeSurfer. Cerebellum has such a fine cortex that you need
resolution on the order of microns to actually get it properl
It is not set up to do it this way, but there is a work-around. Run
mri_gtmpvc without --rbv but with --no-reduce-fov, then run it again
specifying the gtmpvcoutput/seg/seg.nii.gz file as the segmentation and
--regheader instead of --reg.
On 12/05/2016 11:52 AM, SudEEpti wrote:
> Hello,
>
> Is
I think Iman (ccd) has some tools that would let you calculate cerebellar
thickness from our aseg. Not sure how accurate it will be biven how small
some of the foliations are
On Mon, 5 Dec 2016, Douglas N Greve wrote:
>
>
> On 12/04/2016 05:47 AM, std...@virgilio.it wrote:
>> Hi list,
>> I wond
I uploaded the dicom mosaic on Martinos Center.
I am wondering whether you received it
-Original Message-
From: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve
Sent: Monday, December 5, 2016 12:13 PM
To: freesurfer@
Yes, sorry, it is
aparcstats2tabel:)
Do you have any idea where is the corpuscallosum information???
Thanks in advance
De : freesurfer-boun...@nmr.mgh.harvard.edu
de la part de Douglas N Greve
Envoyé : lundi 5 décembre 2016 18:05
À : freesurfer@nmr.mgh.harvar
Dear Hao Wen
the corpus callosum is a subcortical structure and therefore not included in
the parcellations.
but there are volumetric segmentations of the corpus callosum that can be
obtained by using the
asegstats2table command.
Hope this helps
Regards
Jürgen
---
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