Re: [Freesurfer] transverse gyrus and translucent brain renderings

forwarding to the list On Thu, 2009-08-06 at 20:57 +0200, Christophe Destrieux wrote: > Hi Narly > > below are a few explanations on the transverse temporal gyrus in the > a2005 parcellation > > At the superior aspect of the superior temporal gyrus: > > * the transverse temporal *sulcus*

Re: [Freesurfer] transverse gyrus and translucent brain renderings

Hi Narly, You can take a look at the Desikan et al. 2006 paper for boundary definition for the transverse temporal gyrus. Best, Rahul > > Hello, > > I would like to know more about the automatic labelling of the transverse > temporal gyrus is done. I looked at the below article but don't see a

Re: [Freesurfer] Registering aseg to base for volume overlap calc ulations

Martin, This works perfectly! Thanks, Liz -Original Message- From: Martin Reuter [mailto:mreu...@nmr.mgh.harvard.edu] Sent: Thursday, August 06, 2009 1:31 PM To: Elizabeth Selgrade Cc: freesurfer@nmr.mgh.harvard.edu Subject: RE: [Freesurfer] Registering aseg to base for volume overlap

Re: [Freesurfer] Registering aseg to base for volume overlap calc ulations

Hi Liz, try this: mri_convert -T $BASEDIR/transforms/${TP}_to_base.lta -rl $BASEDIR/norm.mgz -rt nearest --out_type nii $TPDIR/mri/aseg.mgz $TPDIR/aseg.base.nii (that should work, if not split it into two steps: transform and then convert into nii). The -rl (reslice like) is important, if you wa

Re: [Freesurfer] FSGDF Format Error ?

It needs "Variables" not "Variable" doug Erick Jorge Canales wrote: > Hi FreeSurfer, > > I am trying to run Glm for a group comparison analysis > > I ran the mris_prepoc and mri_surf2surf and it completed without error. > However, when I run mri_glmfit it gives me the following error: > > > > g

[Freesurfer] transverse gyrus and translucent brain renderings

Hello, I would like to know more about the automatic labelling of the transverse temporal gyrus is done. I looked at the below article but don't see any details about this structure. https://surfer.nmr.mgh.harvard.edu/ftp/articles/fischl04-parcellation.pdf I would for example like to know how

[Freesurfer] FSGDF Format Error ?

Hi FreeSurfer, I am trying to run Glm for a group comparison analysis I ran the mris_prepoc and mri_surf2surf and it completed without error. However, when I run mri_glmfit it gives me the following error: gdfReadHeader: reading comp_groups.fsgd INFO: ignoring tag Variable ERROR: gdfReadV1: Inp

Re: [Freesurfer] Fwd: Re: correction for behavioral varialbles in qdec

Hi Rosa, have you run the qdec analysis? It will create the sig.mgh (as well as many other things) cheers, Bruce On Thu, 6 Aug 2009, Rosa Steimke wrote: sorry, somehome i cannot figure it out... find | grep -f "sig\.mgh in my qdec map but it says that no such file exist. do i have to make

Re: [Freesurfer] Fwd: Re: correction for behavioral varialbles in qdec

sorry, somehome i cannot figure it out... find | grep -f "sig\.mgh in my qdec map but it says that no such file exist. do i have to make it? thanks for your help! rosa Original-Nachricht > Datum: Tue, 04 Aug 2009 13:40:07 -0400 > Von: Nick Schmansky > An: Rosa Steimke > CC: fr

Re: [Freesurfer] Registering aseg to base for volume overlap calc ulations

Hi FreeSurfer Users, I'm still having no luck getting my timepoints to realign to the base space so that I can calculate volume overlap between the timepoints. Here's what I've been trying: BASEDIR=path to base/mri TPDIR=path to timepoint Convert the .lta tpNid_to_baseid.lta transform to .xfm a

Re: [Freesurfer] tksurfer display

Maybe you can try to update your graphic card driver > Date: Wed, 5 Aug 2009 18:24:44 +0100 > From: jerome.sal...@psy.ox.ac.uk > To: freesurfer@nmr.mgh.harvard.edu > Subject: [Freesurfer] tksurfer display > > Help, > Sorry to bother you, but I am looking for my > tksurfer hero! I just installed

Re: [Freesurfer] ascii file

Hi, I change the input and output from curv to surface, but the error is the same. So, how do I do to resolve it? Thank you in advance! Feng-Xian 2009/8/5 Douglas N Greve > The output is not a curvature file, it is a surface. > > doug > > Feng-Xian Yan wrote: > > > > Hi, > > > > I try ag