Re: [Freesurfer] monte carlo simulation question

2012-02-15 Thread Douglas N Greve
our help > Regards > Koushik > > > From: Douglas N Greve [gr...@nmr.mgh.harvard.edu] > Sent: Wednesday, February 15, 2012 10:41 AM > To: Govindarajan, Koushik Athreya > Cc: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] monte carlo simulation question > > In pr

Re: [Freesurfer] monte carlo simulation question

2012-02-15 Thread Govindarajan, Koushik Athreya
From: Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: Wednesday, February 15, 2012 10:41 AM To: Govindarajan, Koushik Athreya Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] monte carlo simulation question In principal, it should be the same

Re: [Freesurfer] monte carlo simulation question

2012-02-15 Thread Douglas N Greve
AM > To: Govindarajan, Koushik Athreya > Cc: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] monte carlo simulation question > > Hi Koushik, download this file and copy it into the mri/transforms directory > ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/talaira

Re: [Freesurfer] monte carlo simulation question

2012-02-15 Thread Govindarajan, Koushik Athreya
: [Freesurfer] monte carlo simulation question Hi Koushik, download this file and copy it into the mri/transforms directory ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/talairach.xfm Then rerun mri_glmfit-sim with the --no-sim option so that it picks up where it left off. You will need to give

Re: [Freesurfer] monte carlo simulation question

2012-02-15 Thread Douglas N Greve
Hi Koushik, download this file and copy it into the mri/transforms directory ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/talairach.xfm Then rerun mri_glmfit-sim with the --no-sim option so that it picks up where it left off. You will need to give the "csdbase" which you passed i

[Freesurfer] monte carlo simulation question

2012-02-15 Thread Govindarajan, Koushik Athreya
Hello group, I am running the multiple comparisons simulation after my mri_glmfit finished. I see that it went through all the iterations and then quit with the following error message it could not find the talairach.xfm file in my average brain. I did not use the fsaverage and instead

Re: [Freesurfer] monte-carlo simulation question

2009-07-02 Thread Douglas N Greve
Have you looked at mri_glmfit-sim --help yet? doug Prapti Gautam wrote: Dear Freesurfers, I ran a monte carlo simulation for thickness analyses using mri_glmfit and found new files in the contrast subdirectory. I was able to figure out what the first two represent, but was wondering if a

[Freesurfer] monte-carlo simulation question

2009-07-01 Thread Prapti Gautam
Dear Freesurfers, I ran a monte carlo simulation for thickness analyses using mri_glmfit and found new files in the contrast subdirectory. I was able to figure out what the first two represent, but was wondering if any one could clarify what information the rest of the files show: mc-z.nega