Hi Bruce, I am wondering whether I can get the white matter volume of the single label by using mri_aparc2aseg -s <subjid> --labelwm ... But mri_aparc2aseg only works for annotation not the label. Maybe this is not the right way. Any suggestion would be appreciated.
Wayne On 28/04/09 11:00 AM, "Bruce Fischl" <fis...@nmr.mgh.harvard.edu> wrote: > Hi Wayne, > > why are you trying to convert the label to an annotation? Not sure why > it's not working, but I don't know that I've ever used the tksurfer export > feature. > > Bruce > > On Tue, 28 Apr 2009, Wayne Su wrote: > >> I have the trouble to convert the BA label to annotation file. The >> Freesurfer 4.3.0 is on Mac OS 10.5.6. >> First, I got the BA label: >> mri_label2label --srcsubject fsaverage --srclabel >> fsaverage/label/lh.BA1.label --trgsubject 001 --trglabel >> 001/label/lh.BA1.label --hemi lh --regmethod surface >> This works. I can load the label onto the surface by using tksurfer. >> Select File->Label->Export Annotation. The Terminal window shows ³writing >> color table into annotation file...² and stop here. I checked the >> lh.BA1.annot, it¹s about 1MB. But when I try to load this annotation, the >> surfer warning me no lables imported and annotation was empty. >> I went to the command line and type in: >> mris_label2annot --s 001 --h lh --ctab 001/label/ba1.annot.ctab --l >> 001/label/lh.BA1.label --a BA1 >> Here is the message. >> subject 001 >> hemi lh >> SUBJECTS_DIR /Applications/freesurfer4.3/subjects >> ColorTable 001/label/ba1.annot.ctab >> AnnotName BA1 >> nlables 1 >> Loading /Applications/freesurfer4.3/subjects/001/surf/lh.orig >> 001/label/lh.BA1.label 001/label/lh.BA1.label >> 1 14465659 BA1 >> Mapping unhit to unknown >> Found 129453 unhit vertices >> Writing annot to /Applications/freesurfer4.3/subjects/001/label/lh.BA1.annot >> writing colortable into annotation file... >> >> This seems work because I can load the annotation onto the surface. But what >> are the ³unhit vertices²? Is this normal? >> >> The last question: how can I get the voxel number (volume) of this label? >> >> Thanks. >> >> Wayne >> _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
