I am wondering how to extract beta values from the clusters of task functional data, particularly output of the multiple comparisons correction?
Aava Jahan
Use something like mri_segstats --seg ocn.mgh --i beta.mgh --excludeid 0 --avgwf beta.clusters.dat
See mri_glmfit-sim --help for more info on the OCN file and mri_segstats --help for info on the avgwf file
On 11/29/2018 04:40 PM, Jahan, Bushra wrote:
I am wondering how to extract beta values from the clusters of task functional data, particularly output of the multiple comparisons correction?
Aava Jahan
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
When I ran the following command (with our data), I got the average beta values for each segmentation i.e. only 5 beta values (as opposed to 5 beta values for each subject).
mri_segstats --seg ocn.mgh --i beta.mgh --excludeid 0 --avgwf beta.clusters.dat
That said, is it necessarily to run the previous command for each subject (in order to extract 5 beta values for each subject) or is there way to extract betas for each subject from the group analysis?
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Greve, Douglas N.,Ph.D. DGREVE@mgh.harvard.edu Sent: Thursday, November 29, 2018 11:19:33 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Beta extraction
Use something like mri_segstats --seg ocn.mgh --i beta.mgh --excludeid 0 --avgwf beta.clusters.dat
See mri_glmfit-sim --help for more info on the OCN file and mri_segstats --help for info on the avgwf file
On 11/29/2018 04:40 PM, Jahan, Bushra wrote:
I am wondering how to extract beta values from the clusters of task functional data, particularly output of the multiple comparisons correction?
Aava Jahan
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 betas are averages across subject, so you should not get one for each subject
On 2/27/19 4:34 PM, Jahan, Bushra wrote:
When I ran the following command (with our data), I got the average beta values for each segmentation i.e. only 5 beta values (as opposed to 5 beta values for each subject).
mri_segstats --seg ocn.mgh --i beta.mgh --excludeid 0 --avgwf beta.clusters.dat
That said, is it necessarily to run the previous command for each subject (in order to extract 5 beta values for each subject) or is there way to extract betas for each subject from the group analysis?
*From:* freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Greve, Douglas N.,Ph.D. DGREVE@mgh.harvard.edu *Sent:* Thursday, November 29, 2018 11:19:33 AM *To:* freesurfer@nmr.mgh.harvard.edu *Subject:* Re: [Freesurfer] Beta extraction Use something like mri_segstats --seg ocn.mgh --i beta.mgh --excludeid 0 --avgwf beta.clusters.dat
See mri_glmfit-sim --help for more info on the OCN file and mri_segstats --help for info on the avgwf file
On 11/29/2018 04:40 PM, Jahan, Bushra wrote:
I am wondering how to extract beta values from the clusters of task functional data, particularly output of the multiple comparisons correction?
Aava Jahan
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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Greve, Douglas N.,Ph.D. -
Jahan, Bushra