Re: [Freesurfer] correlation coefficient R

Try something like

mri_segstats --i pcc.mgh --seg cluster.ocn.mgh --excludeid 0 --sum cluster.pcc.dat

On 04/07/2017 08:35 PM, tom parker wrote:

Hi Doug,

Thank you for your answer!

It would be great if you could send me some instructions.

Thanks for the help!

Douglas N Greve http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=from:%22Douglas+N+Greve%22 Thu, 06 Apr 2017 13:32:07 -0700 http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=date:20170406

I guess you could average it over space (eg, over a cluster). Let me know if you want instructions. Otherwise, I'm not sure what to say.

2017-04-04 11:49 GMT+01:00 tom parker <tomparker540@gmail.com mailto:tomparker540@gmail.com>:

Hi Doug,

Thanks! I realize now I didn't explain myself properly.

I need one single R value for the correlation analysis I made,
similarly to when I correlate two variables with Pearson's R in a
statistical package. I have a referee asking me to put it on a
table with the freesurfer results. Is there a way to get a single
average R value from the pcc.mgh file?

Thank you so much!

Douglas Greve
<http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=from:%22Douglas+Greve%22>
Mon, 03 Apr 2017 18:46:46 -0700
<http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=date:20170403>


Each vertex is a correlation value.


2017-04-04 1:09 GMT+01:00 tom parker <tomparker540@gmail.com
<mailto:tomparker540@gmail.com>>:

    Thanks Doug!

    I have version 6 and got a pcc.mgh file.

    How can I get a correlation R value from this file?

    Thanks again

    Douglas N Greve
    <http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=from:%22Douglas+N+Greve%22>
    Mon, 03 Apr 2017 09:41:41 -0700
    <http://www.mail-archive.com/search?l=freesurfer@nmr.mgh.harvard.edu&q=date:20170403>


    if you are using version 6, then it should have produced a file called
    pcc.mgh. This the partial pearson correlation coef.



    2017-04-03 15:40 GMT+01:00 tom parker <tomparker540@gmail.com
    <mailto:tomparker540@gmail.com>>:

        Dear Freesurfers,

        I made some correlations between cortical thickness and
        age in qdec.

        Is it possible to get the correlation coefficient value of
        this analysis?

        I just need to put it in a table with the significant results.

        Thank you so much!

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