Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with mask

2014-09-11 Thread Jon Alan Wieser
thanks, I'll try that Jon From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Douglas N Greve Sent: Thursday, September 11, 2014 10:03 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with

Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with mask

2014-09-11 Thread Douglas N Greve
f Douglas N Greve > > 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 automatical

Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with mask

2014-09-11 Thread Jon Alan Wieser
: [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

Re: [Freesurfer] mri_glmfit-sim montecarlo analysis with mask

2014-09-11 Thread Douglas N Greve
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

[Freesurfer] mri_glmfit-sim montecarlo analysis with mask

2014-09-11 Thread Jon Alan Wieser
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