have you tried changing the permission to be exectuable? chmod a+x mri_fdr On 12/21/2015 02:02 PM, std...@virgilio.it wrote: > Thanks but permission denied persist. > > >> ----Messaggio originale---- >> Da: gr...@nmr.mgh.harvard.edu >> Data: 21-dic-2015 17.33 >> A: <freesurfer@nmr.mgh.harvard.edu> >> Ogg: Re: [Freesurfer] R: R: Re: R: Re: FDR in FS-FAST >> >> >> Try this version for mac >> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/mri_fdr. > osx >> Use mri_surfcluster (or mri_volcluster) to do the clustering >> >> >> On 12/18/2015 05:11 PM, std...@virgilio.it wrote: >>> I have run >>> mri_fdr --help >>> but I obtained this warning: >>> /Applications/freesurfer/bin/mri_fdr: Permission denied. >>> >>> I would also ask you if is possible to threshold the FDR map (p<0. >>> 05), >>> eliminating clusters < 5 voxels. >>> >>> Thanks >>> >>> >>> Stefano >>> >>> >>> >>>>> ----Messaggio originale---- >>>>> Da: gr...@nmr.mgh.harvard.edu >>>>> Data: 11-dic-2015 20.23 >>>>> A: <freesurfer@nmr.mgh.harvard.edu> >>>>> Ogg: Re: [Freesurfer] R: Re: FDR in FS-FAST >>>>> >>>>> $FREESURFER_HOME/bin >>>>> >>>>> On 12/11/15 2:08 PM, std...@virgilio.it wrote: >>>>>> Thanks, in which folder I should put this file? >>>>>> >>>>>> Stefano >>>>>> >>>>>> >>>>>>> ----Messaggio originale---- >>>>>>> Da: gr...@nmr.mgh.harvard.edu >>>>>>> Data: 7-dic-2015 19.23 >>>>>>> A: <freesurfer@nmr.mgh.harvard.edu> >>>>>>> Ogg: Re: [Freesurfer] FDR in FS-FAST >>>>>>> >>>>>>> >>>>>>> >>>>>>> On 12/07/2015 08:35 AM, std...@virgilio.it wrote: >>>>>>>> Hi list, >>>>>>>> I have two concerns, please: >>>>>>>> 1) It is possible to apply FDR correction on rs-fMRI seed > based >>>>>>>> analysis by FS-FAST? If yes, I can I do it? >>>>>>> try this binary >>>>>>> ftp://surfer.nmr.mgh.harvard. >>>> edu/transfer/outgoing/flat/greve/mri_fdr >>>>>>>> 2) I have apply the FS guidelines and I have used Montecarlo >>>>>>>> correction with threshold at 1.3 but in the within group >>> analysis >>>>>> the >>>>>>>> clusters are very large. In the guide I read examples with a >>>>>> threshold >>>>>>>> at 3. Is there a specific reason? >>>>>>> There is not a hard-and-fast criteria for the voxel-wise >>>> threshold. 3 >>>>>> is >>>>>>> fine as is 1.3 >>>>>>>> Thanks >>>>>>>> >>>>>>>> Stefano >>>>>>>> >>>>>>>> >>>>>>>> _______________________________________________ >>>>>>>> Freesurfer mailing list >>>>>>>> Freesurfer@nmr.mgh.harvard.edu >>>>>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>>> -- >>>>>>> Douglas N. Greve, Ph.D. >>>>>>> MGH-NMR Center >>>>>>> gr...@nmr.mgh.harvard.edu >>>>>>> Phone Number: 617-724-2358 >>>>>>> Fax: 617-726-7422 >>>>>>> >>>>>>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>>>>>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>>>>>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>>>>>> Outgoing: ftp://surfer.nmr.mgh.harvard. >>>>>> edu/transfer/outgoing/flat/greve/ >>>>>>> _______________________________________________ >>>>>>> Freesurfer mailing list >>>>>>> Freesurfer@nmr.mgh.harvard.edu >>>>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>>> >>>>>>> >>>>>>> The information in this e-mail is intended only for the person > to >>>>>> whom it is >>>>>>> addressed. If you believe this e-mail was sent to you in error >>> and >>>>>> the e-mail >>>>>>> contains patient information, please contact the Partners >>>> Compliance >>>>>> HelpLine at >>>>>>> http://www.partners.org/complianceline . If the e-mail was sent >>> to >>>>>> you in error >>>>>>> but does not contain patient information, please contact the >>>> sender >>>>>> and properly >>>>>>> dispose of the e-mail. >>>>>>> >>>>>>> >>>>>> _______________________________________________ >>>>>> Freesurfer mailing list >>>>>> Freesurfer@nmr.mgh.harvard.edu >>>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>>> >>>>>> >>>>> _______________________________________________ >>>>> Freesurfer mailing list >>>>> Freesurfer@nmr.mgh.harvard.edu >>>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> >>> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> Phone Number: 617-724-2358 >> Fax: 617-726-7422 >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> Outgoing: ftp://surfer.nmr.mgh.harvard. > edu/transfer/outgoing/flat/greve/ >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >
-- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
