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Hi Yacila, In FSLview, the threshold works just as in cluster, with 1-p, so you'd have to threshold at 0.95. All the best, Anderson -- Anderson M. Winkler FMRIB / Analysis Group [ Blog <http://brainder.org/> | Twitter <http://twitter.com/AndersonWinkler> ] On 3 September 2015 at 16:47, Deza Araujo, Yacila Isabela < [log in to unmask]> wrote: > Dear FSL experts, > > After 5000 permutations I thought I got some significant results (p < > 0.05, TFCE corrected) when I checked them in FSLview. However, when I want > to extract the cluster information, I get some inexistent coordinates and > there are not 1-p values. The script that I am using is: > cluster -i PDL0_tfce_corrp_tstat1.nii.gz -t 0.95 --scalarname="1-p" > > PDL0_visual_neg.txt > > Can it be that the Fslview results (even when the threshold is set at p < > 0.001) are not completely true? I am asking this because I got another > significant results that are visible at a very low threshold in Fslview but > do not appear in the correspondent cluster information extraction. > > I would really appreciate any help or advice. > > Regards > > Yacila Isabela Deza Araujo > PhD Student > TU-Dresden > > >