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Hi Dorian, On Tue, 26 May 2009 10:20:40 +0200, Dorian P. <[log in to unmask]> wrote: >Dear Christian, > >Thank you for your response. The VBM toolbox corrects the displayed >p-values like the NS toolbox does, but it can not threshold for >cluster level. That is, the clusters are present even under >significance 0.05. The cluster threshold can be used if you enter values < 1 as extent threshold. This will correspond to the p-threshold. Regards, Christian -- ____________________________________________________________________________ Christian Gaser, Ph.D. Assistant Professor of Computational Neuroscience Department of Psychiatry Friedrich-Schiller-University of Jena Jahnstrasse 3, D-07743 Jena, Germany Tel: ++49-3641-934752 Fax: ++49-3641-934755 e-mail: [log in to unmask] http://dbm.neuro.uni-jena.de > >To remove them I added some code to the spm_getSPM. All clusters not >reaching significance are not present in the results any more (and the >other clusters stay exactly the same). > >Hope I am not doing anything wrong by double thresholding voxels and >remaining clusters. > >Dorian. > >2009/5/26 Christian Gaser <[log in to unmask]>: >> Hi Dorian, >> >> the first hack is implemented in the VBM5.1 toolbox. Use the option "Results with non- >> stationary correction" and optionally skip the non-stationary option (which was thought >> for use of VBM data): >> http://dbm.neuro.uni-jena.de/vbm/download/ >> >> Best regards, >> >> Christian >> >> -- >> ____________________________________________________________________________ >> >> Christian Gaser, Ph.D. >> Assistant Professor of Computational Neuroscience >> Department of Psychiatry >> Friedrich-Schiller-University of Jena >> Jahnstrasse 3, D-07743 Jena, Germany >> Tel: ++49-3641-934752 Fax: ++49-3641-934755 >> e-mail: [log in to unmask] >> http://dbm.neuro.uni-jena.de >> >> >> On Mon, 25 May 2009 12:49:05 +0200, Dorian P. <[log in to unmask]> wrote: >> >>>Hi SPM list, >>> >>>I need some help on two SPM hacks. >>> >>>1. >>>Does anybody have a hack to threshold both at voxel level (normal SPM) >>>and at cluster level at the same time? (I.e. voxel threshold 0.0005 + >>>cluster threshold 0.05) >>> >>>2. >>>And does anybody have a hack to use a ROI as mask? At present SPM can >>>mask only with another contrast. There was a modified version of >>>spm_getSPM by Jan Glascher, but when I looked inside I saw major >>>differences from the actual function of SPM5. >>>https://www.jiscmail.ac.uk/cgi-bin/wa.exe?A2=ind0812&L=SPM&P=R43519 >>> >>> >>>Thank you for any help. >>>Dorian >> >> >>