El sáb., 25 dic. 2021 17:01, Miguel Ángel Rivas Fernández <miguelrivasfdez@gmail.com> escribió:

Dear Tim,

Thank you for your reply. I used these two commands and now it seems that everything worked fine:
1) cd glmdir/contrast  fscalc gamma.mgh div ../rstd.mgh -o cohensd.mgh

2) mri_segstats --i cohensd.mgh --seg cluster.sig.ocn.mgh --exclude 0
--sum test.output
After using the second command, I can open the test.output file and see the mean Cohen's D of each significant cluster. Is correct the second command?

mri_segstats --i cohensd.mgh --seg cluster.sig.ocn.mgh --exclude 0

--sum test.output

Thank you very much.

Best regards,

Steve.
El sáb., 25 dic. 2021 15:57, Tim Schäfer <ts+ml@rcmd.org> escribió:

External Email - Use Caution

Hi Steve,

what exactly do you mean by unable to open? What happens if you try to load it as an overlay for fsaverage in FreeView? Is there any error message if you try to open it?

Best,

Tim

--
Dr. Tim Schäfer
Postdoc Computational Neuroimaging
Department of Child and Adolescent Psychiatry, Psychosomatics and Psychotherapy
University Hospital Frankfurt, Goethe University Frankfurt am Main, Germany

> On 12/22/2021 5:02 PM Steve Petersen <marfneuro@gmail.com> wrote:
>
>
> External Email - Use Caution
>
> Dear Freesurfer experts,
>
> I would really appreciate it if anyone can give me some guidance about this
> question that I posted a few days ago. I conducted a One-way ANOVA and now
> I would to report the Cohen's D effect size for each pairwise comparison
> (t-tests). For that purpose, I estimated the Cohen's D effect size of
> significant clusters using the suggested command
> <https://secure-web.cisco.com/1X891GVe1oH7WnmTPBGAEzMHwOsWJmix391s9QJXxMfAcqdheP__HRM8V-6y8Ex3czwzr3E908fS7Hi6Ct_l2LZe2L1p8y8mZ4uVDvXEsKWHFo7SiNOAPFmJ4waZHuZCoE5cUimkRnnEHEc-Bd_uZj6YxAv1UwUF_tNXnGj3YzbePeOge7ccWlp2KlLFS0zYQRZFVrxzjd0jiYy1CIOKm4exZqpE_i1bujkCEzLsXOKy5c7ic5HlkskGnXqAV83lvx60-hNMS3ZrZsjq-eXBRQB1P-dp1KKrgIEBDGUMoItwgqz5YmOmWwE5fOWy-iI8BmK2hHfa1L01J_6bU-Z6ACw/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg52144.html>:
>
>
> fscalc gamma.mgh div rstd.mgh -o cohensd.mgh
>
> Now, I get the cohensd.mgh file but I am not able to open this file. How
> can I see the particular effect size of each significant cluster included
> in the sig.cluster.summary file?.
>
> Thank you very much in advance for your time!
>
> Best regards,
>
> Steve,
>
> El mié, 15 dic 2021 a las 19:14, Steve Petersen (<marfneuro@gmail.com>)
> escribió:
>
> > Dear Freesurfer experts,
> >
> > I am attempting to estimate the Cohen's D effect size of significant
> > clusters using the suggested command
> > <https://secure-web.cisco.com/1X891GVe1oH7WnmTPBGAEzMHwOsWJmix391s9QJXxMfAcqdheP__HRM8V-6y8Ex3czwzr3E908fS7Hi6Ct_l2LZe2L1p8y8mZ4uVDvXEsKWHFo7SiNOAPFmJ4waZHuZCoE5cUimkRnnEHEc-Bd_uZj6YxAv1UwUF_tNXnGj3YzbePeOge7ccWlp2KlLFS0zYQRZFVrxzjd0jiYy1CIOKm4exZqpE_i1bujkCEzLsXOKy5c7ic5HlkskGnXqAV83lvx60-hNMS3ZrZsjq-eXBRQB1P-dp1KKrgIEBDGUMoItwgqz5YmOmWwE5fOWy-iI8BmK2hHfa1L01J_6bU-Z6ACw/https%3A%2F%2Fwww.mail-archive.com%2Ffreesurfer%40nmr.mgh.harvard.edu%2Fmsg52144.html>:
> >
> >
> > fscalc gamma.mgh div rstd.mgh -o cohensd.mgh
> >
> > Now, I get the cohensd.mgh file but I am not able to open this file. How
> > can I see the particular effect size of each significant cluster included
> > in the sig.cluster.summary file?.
> >
> > Thank you very much for your help!
> >
> > Best regards,
> >
> >
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