AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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matt cieslak
February 19, 2010 04:34PM
Dear AFNI users,

I've been trying to figure out what structures the label numbers from

FSread_annot -input $FSDIR/ANAT/$subj/label/lh.aparc.a2009s.annot \
-col_1D lh.aparc.a2009s.1D.col \
-roi_1D lh.aparc.a2009s.1D.roi \
-FScmap $FREESURFER_HOME/FreeSurferColorLUT.txt \
-dset annot.lh.niml.dset

correspond to in lh.aparc.a2009s.1D.roi.

The file looks like this:
#NodeID ROI(indexed into labels cmap /usr/local/freesurfer/FreeSurferColorLUT.txt) r g b
0 438 0.705882 0.078431 0.078431
1 438 0.705882 0.078431 0.078431
2 438 0.705882 0.078431 0.078431
3 438 0.705882 0.078431 0.078431
4 438 0.705882 0.078431 0.078431
5 438 0.705882 0.078431 0.078431
6 438 0.705882 0.078431 0.078431
7 438 0.705882 0.078431 0.078431
8 438 0.705882 0.078431 0.078431
9 438 0.705882 0.078431 0.078431

and FreeSurferColorLUT.txt doesn't have any name for label 438 or any of the other labels. The labels also aren't in any of the other FreeSurfer LUTs. Any ideas?

Thanks,
Matt

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Subject Author Posted

Freesurfer a2009s labels

matt cieslak February 19, 2010 04:34PM

Re: Freesurfer a2009s labels

rick reynolds February 19, 2010 06:46PM

Re: Freesurfer a2009s labels

matt cieslak February 23, 2010 01:39PM

Re: Freesurfer a2009s labels

ziad February 23, 2010 07:52PM

Re: Freesurfer a2009s labels

matt cieslak February 26, 2010 02:49PM

Re: Freesurfer a2009s labels

ziad February 26, 2010 02:51PM

Re: Freesurfer a2009s labels

Tim Ellmore March 21, 2010 05:30PM

Re: Freesurfer a2009s labels

ziad March 22, 2010 10:07AM

Re: Freesurfer a2009s labels

Tim Ellmore March 22, 2010 11:02AM