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Many thanks, Doug! Should I then rely on groups' means to determine the 'direction of the result', and not on the 'max statistical significance' signal? Does 'abs' simulation sum up the results I could get by running 'pos' and 'neg' simulations separately? Best
On Mon, May 14, 2018 at 7:13 PM, Douglas N. Greve dgreve@mgh.harvard.edu wrote:
You have specified "abs" meaning an unsigned "absolute" test, so there is no guarantee that the mean contrast will be pos or neg.
On 05/14/2018 06:11 PM, Pedro Rosa wrote:
Here it is: mri_glmfit-sim --glmdir PEP-HC_Gender_Age.txt.lh.area.mgh.5.mgh.cortex.glmdir --sim-sign abs --cache 1.3 abs
On Mon, May 14, 2018 at 6:59 PM, Douglas N. Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
sorry, one more thing. Can you send your mri_glmfit-sim command line? On 05/14/2018 05:46 PM, Pedro Rosa wrote: > > > Hi, Doug. Many thanks. > Find the fsgd and the contrast attached, as well as the cluster > summary and the individual-based cluster data (which I used to > calculate the groups' means). The cluster I referred to is the second > one (medialorbitofrontal). > I investigated differences in cortical area from groups 1 and 2 in > contrast to groups 3 and 4 (contrast 3 as in > https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf4G1V <https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf4G1V>). > Best, > Pedro Rosa. > > On Mon, May 14, 2018 at 5:42 PM, Douglas N. Greve > <dgreve@mgh.harvard.edu <mailto:dgreve@mgh.harvard.edu> <mailto:dgreve@mgh.harvard.edu <mailto:dgreve@mgh.harvard.edu>>> wrote: > > Can you send your fsgd file and contrasts? > > > On 05/14/2018 01:25 PM, Pedro Rosa wrote: > > > > > > Dear FreeSurfers, > > I got results from a cortical area analysis that intrigued me: Upon > > the inspection of clusters that survived Monte-Carlo simulation, I > > found a cluster with larger area among a first group in contrast > to a > > second group. > > However, when I calculated the cortical areas means from that > cluster > > (as available in the glmdir), the second group had values slightly > > larger than the first group (i.e., showing a difference inthe
> > opposite direction). > > How would you explain such findings? Must I have committed a > mistake > > in the analysis or its interpretation? > > Best, > > Pedro Rosa - University of São Paulo - Brazil. > > > > > > _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> > > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> <mailto:Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> > <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>> > > > The information in this e-mail is intended only for the person to > whom it is > addressed. If you believe this e-mail was sent to you in error and > the e-mail > contains patient information, please contact the Partners > Compliance HelpLine at > http://www.partners.org/complianceline <http://www.partners.org/complianceline> > <http://www.partners.org/complianceline <http://www.partners.org/complianceline>> . If the e-mail was sent > to you in error > but does not contain patient information, please contact the > sender and properly > dispose of the e-mail. > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>
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