Zurcher Nicole wrote: > > Hi everyone, > > I have two questions regarding FreeSurfer and FSL interoperation and > it would be great if someone could help. > > 1) When displaying subject-level FSL FEAT data onto the FS volume > using the command > "tkmedit blobby orig.mgz lh.white -overlay > ./featdir/stats/zstat1.nii.gz -overlay-reg > featdir/reg/freesurfer/anat2exf.register.dat fthresh 1.3 -fmid 2.3 > -fslope 1” (mentioned on > http://www.fmrib.ox.ac.uk/fsl/freesurfer/index.html) > What /p/-value does the threshold of 1.3 correspond to? Is it a zscore? It is -log10(p), so p=.01 is 2 > > 2) What would be the best way to display FSL group-level FEAT data > (zstats) onto the FreeSurfer surface? > As far as I understand, the FSL and FreeSurfer Interoperation website > explains how to display subject level-feat on the surface. For the > group-level data, it only explains how to run group-level analyses > using mri_glmfit based on lower-level FSL FEAT directories. > Is there a way to directly map the zstats from FSL group-level > analyses onto the FreeSurfer surface? You can use the $FREESURFER_HOME/average/mni152.register.dat. Note that this is for display only. You still have all the shortcomings of doing the analysis in the volume. doug > > Thanks in advance for the help! > Nicole > ------------------------------------------------------------------------ > > _______________________________________________ > 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ 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.
