I'd convert them to nifti files and then use SPM. SPM won't know the difference between a surface nifti and a volume nifti.
Best Regards, Donald McLaren ================= D.G. McLaren, Ph.D. Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School Postdoctoral Research Fellow, GRECC, Bedford VA Website: http://www.martinos.org/~mclaren Office: (773) 406-2464 ===================== This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773) 406-2464 or email.
On Mon, Jul 29, 2013 at 6:37 PM, Louis Nicholas Vinke vinke@nmr.mgh.harvard.edu wrote:
Forwarding to the list so others can chime in.
---------- Forwarded message ---------- Date: Mon, 29 Jul 2013 18:19:38 -0400 From: Subhabrata Chaudhury subha@scientist.com To: Louis Nicholas Vinke vinke@nmr.mgh.harvard.edu, Aaron Tanenbaum aaron.b.tanenbaum@gmail.com Subject: Re: [Freesurfer] break up time course nifti
Greetings Dr. Vinke and Dr. Tanenbaum, I saw your recent freesurfer posts. I have piped BOLD volumeetric nii files for each TR onto the subject's freesurfer surface using bbregister. The resulting surface files (1 for each TR) are in mgh format. Now I want to do a first level glm analysis on the surface files. I havent come across any tool that will allow me to conduct a first level glm analysis using the mgh files. So I was thinking if there is a way to convert these mgh files to nii files and then be able to read in these 'surface' nii files into fsl or spm or afni. Do you have some experience in this regard that you can share ? I will be highly obliged if you can help me with this and share your thoughts.
Thank you for your help,
Subha
----- Original Message ----- From: Louis Nicholas Vinke Sent: 07/29/13 05:46 PM To: Aaron Tanenbaum Subject: Re: [Freesurfer] break up time course niftiHi Aaron, You can use the -f or -nth flags with mri_convert. -Louis
On Mon, 29 Jul 2013, Aaron Tanenbaum wrote:
hola freesurfers, I have a time course surface nii files. I would like to break up the time course into many nii files for each time frame. Is there an easy way of doing this. Thank you Aaron Tanenbaum
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