[Freesurfer] Help on QDEC: Obtainign mean, sd and p-values from glm result

Hello, I've just started using freesurfer. I've reading the mail list wich helps me a lot, but I can't find how I can obtain a table with the values of my glm analysis. For exemple, in the Qdec's tutorial I have a surface that answer the question "Does the correlation between thickness and age di

[Freesurfer] ERROR: _FindFacePath

Hello, When trying running recon-all I am getting the following error: #...@# Fix Topology rh Sat Aug 14 04:15:31 BRT 2010 ERROR: _FindFacePath: could not find path! Darwin Fernanda-Palhanos-Mac-Pro.local 10.4.0 Darwin Kernel Version 10.4.0: Fri Apr 23 18:28:53 PDT 2010; root:xnu-1504.7.4~1/RELE

[Freesurfer] Clusters - Qdec 1.4

n for each one. Thanks in advance, Fernanda Palhano ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addr

[Freesurfer] Error FsFast Tutorial

/fsfast/fsfast-tutorial/fb1-analysis-study/mgh-101.1/bold/register.dof6.dat I checked all the mgh files in fb1-analysis-study and any of them have register.dof6.dat, there is only register.dat. Where can I obtain these file? Thanks in advance, Fernanda Palhano

[Freesurfer] overlay sig.mgh onto T1 vol

Hello, Does anyone knows if is it possible to overlay the surface file sig.mgh onto a T1 vol? I tried the command: tkmedit fsaverage T1.mgz -fthresh 2 -fmax 5 -overlay qdec/rh-Diff-grupo1-grupo2-Intercept-thickness/sig.mgh (where 2 and 5 were the thresholds I used in qdec), but it seems like I hav

Re: [Freesurfer] overlay sig.mgh onto T1 vol

> > if that's a surface overlay you'll need to sample it into the volume with > mri_surf2vol > > cheers > Bruce > > > > On Mon, 21 Feb 2011, Fernanda Palhano wrote: > > Hello, >> >> Does anyone knows if is it possible to overlay the surface file

[Freesurfer] mri_surfcluster question

Hello, I'm running a cortical thickness analysis using Qdec. When I do Find Clusters and Go to Max, I obtain 9 clusters (min threshold 3, max threshold 5): Generating cluster stats using min threshold of 3... Found 9 clusters Contrast: '

Re: [Freesurfer] Interpreting results from Qdec

Hello, I have a follow up question about using mri_segstats. What is the difference between to use mri_segstats --in SUBJECT/surf/lh.thickness.fwhm10.fsaverage.mgh --slabel fsaverage lh ROI-drawn-on-QDEC-brain.label --avgwf lhSupTempctrls.txt and to use mri_label2label --srclabel fsaverage/label/R

[Freesurfer] mri_segstats error

Hello, I'm trying to use mri_segstats to obtain some subcortical volume stats. When running the command line both in the tutorial data or in my own data, I have the follow error: ERROR: could not open stats/aseg.stats for writing [Fernanda-Palhanos-Mac-Pro:buckner_data/tutorial_subjs/group_analys

[Freesurfer] Question about volumetric group analysis

Hello, I have two questions about volumetric analysis: First: Are the volume measures in the files aseg.stats or ?h.aparc.stats (Gray Matter Volume) already normalized by ICV? Or should I divide all the structure volumes which I want to compare between subjects by the ICV of each subject? Second: