It looks like the pctdiff changed sign which would happen if group.mean.mgh had negatives. Does it?
On 10/3/15 2:38 AM, pablo najt wrote:
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
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