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Hey Anderson, Thank you for your prompt reply. Just to reconfirm : Step 1 : use fdr command (fdr -i input image -m mask -q 0.05 -a p val image ) and then Step 2 : use cluster command (cluster - i p val image -t threshold? --oindex clusterindexffile --olmax clustelocalmaxima.txt ) Does these commands make sense? Moreover, what threshold should I take while using the cluster command.? Thanks Sincerely, Sankalp Sankalp Tikoo, Doctoral student -La Sapienza, University of Rome Human Neuroscience Department v.le dell'Università 3000185 Rome-Italy email:[log in to unmask] cell: +39-3293087110 On Mon, Sep 16, 2019 at 3:53 AM Anderson M. Winkler <[log in to unmask]> wrote: > Hi Sankalp, > > Yes, I think the option -a will allow you to save the adjusted p-values. > You can then use the command "cluster" to see the values within each > cluster (since each cluster has all voxels with the same p-value, the peak > value within the cluster is the number that you want. > > All the best, > > Anderson > > > On Thu, 12 Sep 2019 at 09:00, sankalp tikoo <[log in to unmask]> > wrote: > >> Dear Anderson, >> >> The randomise command in fsl has given me a vox p tstat file and after >> applying FDR correction on it I get significant clusters. I wanted to ask >> , is there any way to extract p values from those significant clusters post >> FDR correction? >> >> Thanks for your prompt response >> >> -- >> >> >> Sankalp Tikoo, >> Doctoral student -La Sapienza, University of Rome >> >> Human Neuroscience Department >> >> v.le dell'Università 3000185 Rome-Italy >> >> email:[log in to unmask] >> cell: +39-3293087110 >> > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1