Dear experts,
I have some questions. I did Qdec group analysis with three nuisance factors. And one region remained after FDR correction. Then I did 'mri_surfcluster' specifying the FDR-determined voxel-wise threshold as the --thmin. After that I ran 'mri_segstats' and got the values.
1)Are these values 'nuisance factors adjusted' values?
2)If not, is there a way to get 'nuisance factors adjusted' values using FreeSurfer?
Best Regards, Hiroki
what are your command lines?
On 01/18/2017 01:39 AM, hiroki.sato@med.tohoku.ac.jp wrote:
Dear experts,
I have some questions. I did Qdec group analysis with three nuisance factors. And one region remained after FDR correction. Then I did 'mri_surfcluster' specifying the FDR-determined voxel-wise threshold as the --thmin. After that I ran 'mri_segstats' and got the values.
1)Are these values 'nuisance factors adjusted' values?
2)If not, is there a way to get 'nuisance factors adjusted' values using FreeSurfer?
Best Regards, Hiroki
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thanks Douglas. My command lines are
'mri_surfcluster --in /Volumes/My_Book_Thunderbolt_Duo/subjects_DCNTDC/qdec/Untitled/rh-Diff-WT-Hetero-Intercept-thickness/sig.mgh --thmin <FDR-determined threshold> --subject fsaverage --hemi rh --ocn ocn.mgh'
'mri_segstats --i /Volumes/My_Book_Thunderbolt_Duo/subjects_DCNTDC/qdec/Untitled/y.mgh --seg ocn.mgh --excludeid 0 --avgwf y.ocn.dat --sum ocn.sum'
I referred previous archives. Are there anything wrong?
Best Regards, Hiroki
On Wed, 18 Jan 2017 15:20:39 -0500, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
what are your command lines?
On 01/18/2017 01:39 AM, hiroki.sato@med.tohoku.ac.jp wrote:
Dear experts,
I have some questions. I did Qdec group analysis with three nuisance factors. And one region remained after FDR correction. Then I did 'mri_surfcluster' specifying the FDR-determined voxel-wise threshold as the --thmin. After that I ran 'mri_segstats' and got the values.
1)Are these values 'nuisance factors adjusted' values?
2)If not, is there a way to get 'nuisance factors adjusted' values
using
FreeSurfer?
Best Regards, Hiroki
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Those will not be adjusted for nuisance values
On 01/18/2017 06:59 PM, hiroki.sato@med.tohoku.ac.jp wrote:
Thanks Douglas. My command lines are
'mri_surfcluster --in /Volumes/My_Book_Thunderbolt_Duo/subjects_DCNTDC/qdec/Untitled/rh-Diff-WT-Hetero-Intercept-thickness/sig.mgh --thmin <FDR-determined threshold> --subject fsaverage --hemi rh --ocn ocn.mgh'
'mri_segstats --i /Volumes/My_Book_Thunderbolt_Duo/subjects_DCNTDC/qdec/Untitled/y.mgh --seg ocn.mgh --excludeid 0 --avgwf y.ocn.dat --sum ocn.sum'
I referred previous archives. Are there anything wrong?
Best Regards, Hiroki
On Wed, 18 Jan 2017 15:20:39 -0500, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
what are your command lines?
On 01/18/2017 01:39 AM, hiroki.sato@med.tohoku.ac.jp wrote:
Dear experts,
I have some questions. I did Qdec group analysis with three nuisance factors. And one region remained after FDR correction. Then I did 'mri_surfcluster' specifying the FDR-determined voxel-wise threshold as the --thmin. After that I ran 'mri_segstats' and got the values.
1)Are these values 'nuisance factors adjusted' values?
2)If not, is there a way to get 'nuisance factors adjusted' values
using
FreeSurfer?
Best Regards, Hiroki
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
Thanks Douglas.
Thank you for your help. I have another question. Is there a way to get 'nuisance factors adjusted' values using FreeSurfer?
Do I have to use other software (Matlab etc.) to get adjusted values?
Best Regards, Hiroki
On Thu, 19 Jan 2017 15:08:49 -0500, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
Those will not be adjusted for nuisance values
On 01/18/2017 06:59 PM, hiroki.sato@med.tohoku.ac.jp wrote:
Thanks Douglas. My command lines are
'mri_surfcluster --in
/Volumes/My_Book_Thunderbolt_Duo/subjects_DCNTDC/qdec/Untitled/rh-Diff-WT-Hetero-Intercept-thickness/sig.mgh
--thmin <FDR-determined threshold> --subject fsaverage --hemi rh --ocn ocn.mgh'
'mri_segstats --i /Volumes/My_Book_Thunderbolt_Duo/subjects_DCNTDC/qdec/Untitled/y.mgh --seg ocn.mgh --excludeid 0 --avgwf y.ocn.dat --sum ocn.sum'
I referred previous archives. Are there anything wrong?
Best Regards, Hiroki
On Wed, 18 Jan 2017 15:20:39 -0500, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
what are your command lines?
On 01/18/2017 01:39 AM, hiroki.sato@med.tohoku.ac.jp wrote:
Dear experts,
I have some questions. I did Qdec group analysis with three nuisance factors. And one region remained after FDR correction. Then I did 'mri_surfcluster' specifying the FDR-determined voxel-wise threshold as the --thmin. After that I ran 'mri_segstats' and got the values.
1)Are these values 'nuisance factors adjusted' values?
2)If not, is there a way to get 'nuisance factors adjusted' values
using
FreeSurfer?
Best Regards, Hiroki
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
-
Douglas N Greve -
hiroki.sato＠med.tohoku.ac.jp