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Hello,
I ran a pet longitudinal paired t-test analysis with 2 timepoints using mri_glmfit and I found significant clusters. I want to extract the values of these significant clusters for each timepoints. How do I go about doing this?
Thank you.
Best, Paul.
did you run the correction for multiple comparisons to get your clusters? If so, then there should be a table with a row for each subject and a column for each cluster.
On 6/16/2020 11:03 AM, miracle ozzoude wrote:
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Hello,
I ran a pet longitudinal paired t-test analysis with 2 timepoints using mri_glmfit and I found significant clusters. I want to extract the values of these significant clusters for each timepoints. How do I go about doing this?
Thank you.
Best, Paul.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Thanks Doug.
I ran multiple comparisons to get the clusters. However, I want to extract the clusters values for the individual timepoints. The paired t-test does a paired-difference (timepoint1 - timepoint2) and I presume the significant clusters come from the difference image used in mri_glmfit. My goal is to extract the clusters values for each of the timepoints not paired-difference. This is a surface-based analysis.
Best, Paul
On Tue, Jun 16, 2020 at 11:35 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
did you run the correction for multiple comparisons to get your clusters? If so, then there should be a table with a row for each subject and a column for each cluster.
On 6/16/2020 11:03 AM, miracle ozzoude wrote:
External Email - Use CautionHello,
I ran a pet longitudinal paired t-test analysis with 2 timepoints using mri_glmfit and I found significant clusters. I want to extract the values of these significant clusters for each timepoints. How do I go about doing this?
Thank you.
Best, Paul.
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://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
ok, still pretty easy
mri_segstats --seg ocn.mgh --exclude 0 --i timepoint1.mgh --avgwf timepoint1.table.dat
where ocn.mgh is something like cache.th13.abs.sig.ocn.mgh timepoint1.mgh is the stack of timepoint 1 for all subjects The output will be a table with subjects on the rows and clusters on the columns
On 6/16/2020 12:28 PM, miracle ozzoude wrote:
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Thanks Doug.
I ran multiple comparisons to get the clusters. However, I want to extract the clusters values for the individual timepoints. The paired t-test does a paired-difference (timepoint1 - timepoint2) and I presume the significant clusters come from the difference image used in mri_glmfit. My goal is to extract the clusters values for each of the timepoints not paired-difference. This is a surface-based analysis.
Best, Paul
On Tue, Jun 16, 2020 at 11:35 AM Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
did you run the correction for multiple comparisons to get your clusters? If so, then there should be a table with a row for each subject and a column for each cluster. On 6/16/2020 11:03 AM, miracle ozzoude wrote:External Email - Use Caution Hello, I ran a pet longitudinal paired t-test analysis with 2 timepoints using mri_glmfit and I found significant clusters. I want to extract the values of these significant clusters for each timepoints. How do I go about doing this? Thank you. Best, Paul. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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
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Lovely. Thank you very much Doug. I appreciate your help.
Best, Paul
On Tue, Jun 16, 2020 at 12:41 PM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
ok, still pretty easy
mri_segstats --seg ocn.mgh --exclude 0 --i timepoint1.mgh --avgwf timepoint1.table.dat
where ocn.mgh is something like cache.th13.abs.sig.ocn.mgh timepoint1.mgh is the stack of timepoint 1 for all subjects The output will be a table with subjects on the rows and clusters on the columns
On 6/16/2020 12:28 PM, miracle ozzoude wrote:
External Email - Use CautionThanks Doug.
I ran multiple comparisons to get the clusters. However, I want to extract the clusters values for the individual timepoints. The paired t-test does a paired-difference (timepoint1 - timepoint2) and I presume the significant clusters come from the difference image used in mri_glmfit. My goal is to extract the clusters values for each of the timepoints not paired-difference. This is a surface-based analysis.
Best, Paul
On Tue, Jun 16, 2020 at 11:35 AM Douglas N. Greve dgreve@mgh.harvard.edu wrote:
did you run the correction for multiple comparisons to get your clusters? If so, then there should be a table with a row for each subject and a column for each cluster.
On 6/16/2020 11:03 AM, miracle ozzoude wrote:
External Email - Use CautionHello,
I ran a pet longitudinal paired t-test analysis with 2 timepoints using mri_glmfit and I found significant clusters. I want to extract the values of these significant clusters for each timepoints. How do I go about doing this?
Thank you.
Best, Paul.
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://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 listFreesurfer@nmr.mgh.harvard.eduhttps://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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