Re: [Freesurfer] Fwd: questions about high resolution atlas on the Freesurfer

2011-07-24 Thread Bruce Fischl
Identity if you want it int the subject's anatomical coords Cheers Bruce On Jul 24, 2011, at 7:27 AM, Jixin Liu wrote: > Hi Bruce, > > Thanks very much for your reply. i want to convert the ".annot" files to > nifti. When i used "mri_label2vol", I used this command > > mri_label2vol

Re: [Freesurfer] Fwd: questions about high resolution atlas on the Freesurfer

2011-07-24 Thread Jixin Liu
Hi Bruce, Thanks very much for your reply. i want to convert the ".annot" files to nifti. When i used "mri_label2vol", I used this command mri_label2vol --subject fsaverage --annot $FREESURFER_HOME/subjects/fsaverage/surf/lh.ic3.annot --o test.img --hemi lh ERROR: you must specify a registr

Re: [Freesurfer] Fwd: questions about high resolution atlas on the Freesurfer

2011-07-22 Thread Bruce Fischl
Hi Jixin, mris_make_face_parcellation uses an icosahedral sampling, so you cannot use it with an arbitrary annotation, and the parcels in it will not correspond to the brain regions in any of the annots but rather will cut across boundaries. You could certainly use matlab for example to compil

[Freesurfer] Fwd: questions about high resolution atlas on the Freesurfer

2011-07-22 Thread Jixin Liu
Dear FS experts, Freesurfer could provide for every participant a standardized partition of the cortex into 66 regional areas. My aim is to use freesurfer to subdivide these regional areas into a set of small and compact regions, resulting in high resolution atlas covering the entire cortex (t