Re: [Freesurfer] Apply mris_apply_reg for a label

ischl : > Hi Alexandre > > try mri_label2label using the ?h.sphere.left_right > > cheers > Bruce > > On Thu, 16 Jun 2016, Alexandre Routier wrote: > > Hello everyone, >> I have a label for the left hemisphere for my subject but I don't >> understand &g

[Freesurfer] Apply mris_apply_reg for a label

Hello everyone, I have a label for the left hemisphere for my subject but I don't understand the syntax to apply mris_apply_reg on this label to obtain the right hemisphere version. mris_left_right_register was performed to get lh.sphere.left_right and lh.sphere.left_right but I don't know how to

Re: [Freesurfer] Symmetric label on fsaverage

Quick update on my situation: it turns out that I have a problem corresponding to the source label: ERROR: Option --src-label unknown Thanks in advance for your help :) 2016-06-09 20:08 GMT+02:00 Alexandre Routier : > Hello, > > Sorry for my late reply but I just tried these commands

Re: [Freesurfer] Symmetric label on fsaverage

ping --randn : replace input with WGN --ones : replace input with ones ?) Alexandre 2016-05-04 21:07 GMT+02:00 Douglas N Greve : > > ive put a copy here > > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mris_apply_reg > > > On 05/03/2016 04:21 AM, Alexand

Re: [Freesurfer] Coordinate system in mris_convert

Thanks ! I tried on the left pial surface and I got the expected result. 2016-06-08 15:38 GMT+02:00 Douglas Greve : > > Try the group analysis tutorial > http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis > > > On 6/8/16 2:39 AM, Dave Yas wrote: > > Hello all, > > I'm new to surfac

Re: [Freesurfer] Coordinate system in mris_convert

y adding --cras_correction to the command line and see if it works. > > > > On 6/7/16 10:27 AM, Alexandre Routier wrote: > > Hello, > > I would like to work with mesh representation of pial and white surfaces > in vtk format. To do that, I use the following syntax:

[Freesurfer] Coordinate system in mris_convert

Hello, I would like to work with mesh representation of pial and white surfaces in vtk format. To do that, I use the following syntax: mris_convert lh.pial lh.pial.vtk However, there is a small issue after conversion: the vector called 'c_ras' (the RAS at the 'center' of the volume according to m

Re: [Freesurfer] Symmetric label on fsaverage

on. I can't remember whether these are in 5.3 (or > whether 5.3 has the --src-label), so let me know if you need updates > > > On 04/28/2016 09:06 AM, Alexandre Routier wrote: > > Hello everyone, > > > > We used tksurfer to draw a specific region on the left hemisphere

[Freesurfer] Symmetric label on fsaverage

Hello everyone, We used tksurfer to draw a specific region on the left hemisphere of fsaverage subject and we would like to automatically register the label from the left hemisphere to the right hemisphere. Since FreeSurfer provides tools to compute a symmetric fsaverage ( https://surfer.nmr.mgh.

Re: [Freesurfer] Some questions about fsaverage

a nice day, > Alexandre > > > 2014-12-04 23:01 GMT+01:00 Bruce Fischl : > >> Hi Alexandre >> >> I'm not entirely sure what you are asking, but the fsaverage Brodmann >> areas and parcellations should all be stored in the directory: >> >> $FREESU

Re: [Freesurfer] Some questions about fsaverage

; I'm not entirely sure what you are asking, but the fsaverage Brodmann > areas and parcellations should all be stored in the directory: > > $FREESURFER_HOME/subjects/fsaverage/label > > cheers > Bruce > > > > On Thu, 4 Dec 2014, Alexandre Routier wrote: > >

[Freesurfer] Some questions about fsaverage

Hello, I am currently working with cortical thickness and more particularly with the fsaverage. Since the thickness has the same number of voxel, I would like to correspond the voxels with some ROI, for instance the Desikan-Killiany Atlas

Re: [Freesurfer] Pial surface with point-to-point correspondance between subjects

t; > > This is not something we support. > > > > On 10/29/2014 10:32 AM, Alexandre Routier wrote: > >> What I wanted to say is that there is the exact number of points of > >> the pial surface for each subject and if I look to the i-th vertex of > >> the pia

Re: [Freesurfer] Pial surface with point-to-point correspondance between subjects

Oh, okay. I thought this kind of data could be obtained since it exists for longitudinal analysis. Thanks for your answer anyway! 2014-10-29 15:35 GMT+01:00 Douglas N Greve : > This is not something we support. > > On 10/29/2014 10:32 AM, Alexandre Routier wrote: > > What I w

Re: [Freesurfer] Pial surface with point-to-point correspondance between subjects

: > > I'm not sure what you mean by working with the pial surfaces with > respect to point-to-point correspondence. Can you give more info? > doug > > On 10/29/2014 06:29 AM, Alexandre Routier wrote: > > Dear all, > > > > I would like to work with the pial surfaces

Re: [Freesurfer] Pial surface with point-to-point correspondance between subjects

t; Bruce > > > On Wed, 29 Oct 2014, Alexandre Routier wrote: > > > Dear all, > > > > I would like to work with the pial surfaces of my database and more > > particularly with a point-to-point correspondance between each subject. > But > > I didn't find h

[Freesurfer] Pial surface with point-to-point correspondance between subjects

Dear all, I would like to work with the pial surfaces of my database and more particularly with a point-to-point correspondance between each subject. But I didn't find how to do that, only for longitudinal analysis of a single subject which I am not interested. Thanks in advance for you help, Ale