Hi, Thanks for the great FreeSurfer Course this past week. After running through Tracula and extracted the path stats (by voxel) across all subjects, can I apply mri_glmfit to test the group differences using the generated txt file that has all subject's diffusion meassure (e.g., FA) along particular spline voxels (the pathstats.byvoxel.txt, for example)?

Thanks! ________________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of freesurfer-request@nmr.mgh.harvard.edu [freesurfer-request@nmr.mgh.harvard.edu] Sent: 01 October 2015 12:00 To: freesurfer@nmr.mgh.harvard.edu Subject: Freesurfer Digest, Vol 140, Issue 3

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Today's Topics:

1. WM segmentation error longitudinal stream (Adam, Ruth) 2. Test incoming emails - (pablo najt) 3. Re: dt_recon (Alshikho, Mohamad J.) 4. mri_convert doubles file size when changing TR header information (Shaun Patel) 5. Re: PVE correction tool within the V 6 beta (m.bahri@ulg.ac.be) 6. Re: Error Messages for Accessing Bin (Bruce Fischl) 7. Re: Calculate the cortical thickness in patients with brain tumor (Bruce Fischl) 8. Re: Calculating local gyrification using CIVET's surface file ('.obj') (Bruce Fischl)

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Message: 1 Date: Thu, 1 Oct 2015 14:35:30 +0200 From: "Adam, Ruth" Ruth.Adam@med.uni-muenchen.de Subject: [Freesurfer] WM segmentation error longitudinal stream To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Message-ID: AF867463-A1D8-432B-A4F3-83396DB900B1@med.uni-muenchen.de Content-Type: text/plain; charset="us-ascii"

Hi all,

We have run longitudinal analysis on two time points. The resulting longitudinal WM surface for both time points excludes large parts of the cortex. The cross sectional surfaces and the wm.mgz are correct. The base wm.mgz also seems to be fine, however, the base white and pial surfaces do not follow the wm volume properly.

We have rerun the longitudinal anlaysis (recon-all -long) according to the cheat sheet: 1. marking the base wm.mgz border with 255 voxel value (instead of 110) 2. adding control points to the base wm.mgz but it did not change the original result.

Any idea how this can be fixed? Thank you very much in advance!

Best, ruthi

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Message: 2 Date: Thu, 1 Oct 2015 13:27:37 +0000 From: pablo najt pablonajt@hotmail.com Subject: [Freesurfer] Test incoming emails - To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Message-ID: BLU181-W20EA2FE3E891F70E4CF592AE4C0@phx.gbl Content-Type: text/plain; charset="iso-8859-1"

I am sending this message as a test since my income emails from FS stopped working on the 29 of September.Regards