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Hi Yumi,

MJ would be the best person to answer, but it would seem that the first 3 lines are ok to get the corrected p value from the fdr command, and then you can simply do: fslmaths p1 -thr fdr_corrp p1_fdr, which should give you the same answer.

To check if you have some significant results in the opposite contrast, simply repeat the same procedure with spmT_0002.

Cheers,
Gwenaëlle
 
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Gwenaëlle Douaud, PhD
FMRIB Centre, University of Oxford
John Radcliffe Hospital, Headington
OX3 9DU Oxford UK
Tel: +44 (0) 1865 222 523
Fax: +44 (0) 1865 222 717
www.fmrib.ox.ac.uk/~douaud
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De : YUMI MAEDA <[log in to unmask]>
À : [log in to unmask]
Envoyé le : Jeudi 1 mars 2012 23h23
Objet : [FSL] FDR for VBM analysis

hi,
I have a question for FDR correction after VBM analysis.
I got the following method from the archive and applied it to my data.

ttologp -logpout spmT_0001_logps spmT_0001.hdr mask.hdr $dof
fslmaths spmT_0001_logps.nii -exp p1
fdr -i p1 -m mask.hdr -q 0.05

Then I did the following to get the image after FDR.

cdf -p2t fitt <pvalue>  $dof
fslmaths spmT_0001.hdr -thr <tvalue> spmT_0001_fdr

It seems that I only got a positive cluster.

Is this correct ?

thank you.

YUMI


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