Hi my message was lost in the long correspondences. Would anyone advice about below, please?

Thank you.

Pablo

From: pablonajt@hotmail.com
To: freesurfer@nmr.mgh.harvard.edu
Date: Thu, 1 Oct 2015 11:47:10 +0000
Subject: [Freesurfer] percent difference adjust to results {Disarmed}

Dear FS experts

I have a query about how can I make that the percent difference results matches the same clusters of my output from my main glm analysis.

I run a glm analysis g4v1 (Male_Pt, Male_HC, Fem_Pt, Fem_HC) with Age and sex as covariates.

My contrasts are as follow

-0.5 0.5 -0.5 0.5 0 0 0 0

This contrast is meant to test "is there a difference between HC and PT controlling for age and sex.

I separately run contrast of PT agains "0"

0.5 0 0.5 0 0 0 0 0

and HC against "0"

0 0.5 0 0.5 0 0 0 0

calculated percent difference as follows

fscalc Pt_group/gamma.mgh add HCgroup/gamma.mgh div 2 -o group.mean.mgh

Then computed the percent difference: fscalc HCgroup/gamma.mgh sub Pt_group/gamma.mgh div group.mean.mgh mul 100 -o pctdiff.mgh

Now when I open my results from the first contrast above and the pctdiff.mgh separately, I am not quite sure they match. How could I adjust the min and saturation values to make them match and show how much percent difference is between the groups in the cluster shown in the main contrast. I have embedded the two results and parameters to give you an idea of how I am setting this up and if there is anything I can tune to improve visualisation.

Thank you very much in advance.

Pablo

results from main contrast

pctdiff

_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu 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 . 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.