You are right. I found out the same using the wiki http://surfer.nmr.mgh.harvard.edu/fswiki/LabelsClutsAnnotationFiles. However, I discovered that read_annotation.m reads some labels as zeros and 'misses' labels 1639705 and 3294840 defined in the enclosed LUT while reading for example lh.aparc.annot resulting from a standard execution of the pipeline (recon-all -all).
Do you have any thoughts on this? Is this a bug (either in the stored .annot or during the reading process)? Thanks for sharing your thoughts, Best, Martijn On Thu, Dec 22, 2011 at 1:20 PM, Thomas Yeo <[email protected]> wrote: > Hi, I am not sure if your question is about read_annotation or > aparc.annot in particular. > > read_annotation.m reads the labels embedded in the annotation file you > passed to it. The labels embedded in the annotation file may or may > not be the same as those in FreeSurferColorLUT. > > I could be wrong, but in the case of aparc.annot generated by > recon-all, I don't think the labels correspond to those in > FreeSurferColorLUT. > > --Thomas > > On Thu, Dec 22, 2011 at 6:23 PM, Martijn Steenwijk > <[email protected]> wrote: > > Dear all, > > > > I'm trying to read aparc.annot into Matlab using the > > matlab/read_annotation.m function. Is it correct that the labels read by > > this function do not correspond with for example the FreeSurferColorLUT? > > > > Are the labels stored as 16 bit (unsigned)integers, or in another way? > > > > Best, > > Martijn > > > > _______________________________________________ > > Freesurfer mailing list > > [email protected] > > 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. > > >
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