thanks, I'll try that Jon ________________________________________ From: freesurfer-boun...@nmr.mgh.harvard.edu <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N Greve <gr...@nmr.mgh.harvard.edu> Sent: Thursday, September 11, 2014 10:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with mask
You'll have to use mri_glmfit to do this. QDEC is very limited when it comes to doing something special. QDEC will generate the fsgd file and contrast files for you. You can even look in the QDEC output folder for the mri_glmfit.log file which gives the mri_glmfit command. You'll just need to add a label to that. doug On 09/11/2014 10:59 AM, Jon Alan Wieser wrote: > thanks, but we are using qdec to do the inital analysis , not mri_glmfit > Jon > > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > <freesurfer-boun...@nmr.mgh.harvard.edu> on behalf of Douglas N Greve > <gr...@nmr.mgh.harvard.edu> > Sent: Thursday, September 11, 2014 9:54 AM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with mask > > You do this by specifying a mask or label to mri_glmfit, then > mri_glmfit-sim will automatically use this mask. Note that you have to > run the simulation (ie, you cannot use --cache). In this case you may > want to run mri_mcsim. See > http://surfer.nmr.mgh.harvard.edu/fswiki/BuildYourOwnMonteCarlo > > doug > > On 09/11/2014 10:49 AM, Jon Alan Wieser wrote: >> HI freesurfer experts >> >> >> We were wondering if it is possible to restrict the Monte Carlo >> analysis run by mri_glmfit-sim to a specific region fo the surface , >> instead of the whole surface, by using a mask or label to specify the ROI? >> >> I didn't see a --mask or --label option in mri_glmfit-sim >> >> Thank >> >> Jon >> >> >> >> _______________________________________________ >> 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 > > -- 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
