first you have to run recon-all with the T1 On Fri, 17 Oct 2014, Alshikho, Mohamad J. wrote:
Hi Bruce, The T2 is very good and better than T1 So I will use the T2 image in the following command line recon-all -subjid subjid -T2pial
Is this correct? Thanks
Mohamad
From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Bruce Fischl [fischl@nmr.mgh.harvard.edu] Sent: Friday, October 17, 2014 11:52 AM To: Freesurfer support list Subject: Re: [Freesurfer] T1 white matter segmentation
Hi Mohamad
recon-all requires a T1, so use it. If the T2 is good quality you can use it to avoid dura in a subsequent invocation of recon-all with the -T2pial flag
cheers Bruce
On Fri, 17 Oct 2014, Alshikho, Mohamad J. wrote:
Hi FS Experts,
The T1 and T2 images in my data set are as the attached images. Kindly do you recommend that I do segmentation for the white matter using recon-all on my T1 or T2 images or to the output of a registration process between T1 and T2
I highly appreciate any recommendation Looking forward to learn from you and thank you Mohamad
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