[Freesurfer] vertex-wise nuisances
Dear Freesurfer experts, Is there a way using the existing statistical tools in Freesurfer to control for a variable that changes across vertices? For example, looking at the correlation of performance measure X with thickness at each vertex, while correcting for curvature at that specific vertex (as opposed to using a set overall mean curvature that is computed across all vertices of the entire hemisphere)? Thanks a lot, Thomas /PRE html body br / This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email.br / = /body /html PRE ___ 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 addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
[Freesurfer] mri_convert with lists and orientations
Hello, I'm encountering a strange problem with mri_convert. Basically, if I just ask it to convert a set of dicoms into a 4D NIFTI, it does this fine, but if I specify anything about the input and/or output orientation (using --in_orientation or --out_orientation), it only spits out 1 image, not the entire time series. Am I doing something wrong? Thanks, Reza || Reza Farivar, Ph.D. Research Fellow Harvard Medical School Massachusetts General Hospital Dept. of Radiology Building 149, Room 2301 13th Street Charlestown, MA 02129 ___ 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 addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
Re: [Freesurfer] vertex-wise nuisances
Hi Thomas, yes, you can use mri_glmfit with the --pvr option (pvr = per-vertex regressor). Look at the help for more info and email if you need clarification. doug On 2/6/11 4:20 PM, Thesen, Thomas wrote: Dear Freesurfer experts, Is there a way using the existing statistical tools in Freesurfer to control for a variable that changes across vertices? For example, looking at the correlation of performance measure X with thickness at each vertex, while correcting for curvature at that specific vertex (as opposed to using a set overall mean curvature that is computed across all vertices of the entire hemisphere)? Thanks a lot, Thomas This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. = ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ 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 addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
