Hello,
We are attempting to compare surface area for 46 regions of interest in subjects versus controls. We've created a list of p-values for each ROI using R Studio to compare the two groups. Is there any way to visualize these p-values mapped on to the ROI's?
Thanks very much,
Katie Ludovici Postbaccalaureate IRTA National Institute of Mental Health Child Psychiatry Branch 301-435-5557
We don't have a binary that does it. You can do it in matlab, but it will take a bit of programming. doug
On 05/24/2013 10:54 AM, Ludovici, Katharine (NIH/NIMH) [F] wrote:
Hello,
We are attempting to compare surface area for 46 regions of interest in subjects versus controls. We've created a list of p-values for each ROI using R Studio to compare the two groups. Is there any way to visualize these p-values mapped on to the ROI's?
Thanks very much,
Katie Ludovici Postbaccalaureate IRTA National Institute of Mental Health Child Psychiatry Branch 301-435-5557
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Katharine,
Here is some code to do what you want, I think. You need to create regionaldata structure variable.
This has 2 fields, label (label names, which must match the annot file label names) and data (the values you want to project).
I've included the script and the base nifti file. If you look at the script, there are setup instructions and full details of how to run it.
Hope this helps.
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 Fri, May 24, 2013 at 10:54 AM, Ludovici, Katharine (NIH/NIMH) [F] < katharine.ludovici@nih.gov> wrote:
Hello,
We are attempting to compare surface area for 46 regions of interest in subjects versus controls. We've created a list of p-values for each ROI using R Studio to compare the two groups. Is there any way to visualize these p-values mapped on to the ROI's?
Thanks very much,
Katie Ludovici Postbaccalaureate IRTA National Institute of Mental Health Child Psychiatry Branch 301-435-5557
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.
Here is an example regionaldata file. (File with script and dependency is being held for moderator approval)
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 Fri, May 24, 2013 at 10:54 AM, Ludovici, Katharine (NIH/NIMH) [F] < katharine.ludovici@nih.gov> wrote:
Hello,
We are attempting to compare surface area for 46 regions of interest in subjects versus controls. We've created a list of p-values for each ROI using R Studio to compare the two groups. Is there any way to visualize these p-values mapped on to the ROI's?
Thanks very much,
Katie Ludovici Postbaccalaureate IRTA National Institute of Mental Health Child Psychiatry Branch 301-435-5557
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@nmr.mgh.harvard.edu
-
Douglas N Greve -
Ludovici, Katharine (NIH/NIMH) [F] -
MCLAREN, Donald