Hi all --
Is there a simple way to create an annotation for frontal/temporal/occipital/parietal lobes based off the ?h.aparc.annot files in a FS 'label' dir? Ideally speaking, I'd like to have a ?h.lobar.annot with corresponding lobar.annot.ctab.
Apologies if this question has come up before... a quick google didn't reveal anything.
Many thanks -=R
Try running mri_annotation2label with --lobes lh.lobes.annot
doug
On Thu, 20 May 2010, Rudolph Pienaar wrote:
Hi all --
Is there a simple way to create an annotation for frontal/temporal/occipital/parietal lobes based off the ?h.aparc.annot files in a FS 'label' dir? Ideally speaking, I'd like to have a ?h.lobar.annot with corresponding lobar.annot.ctab.
Apologies if this question has come up before... a quick google didn't reveal anything.
Many thanks -=R
Great -- many thanks, Doug. What are the newly annotated regions named?
Basically, once I do a MatLAB
[list, label, annot] = read_annotation('lh.lobes.annot');
what are the annot.struct_names?
Try running mri_annotation2label with --lobes lh.lobes.annot
doug
On Thu, 20 May 2010, Rudolph Pienaar wrote:
Hi all --
Is there a simple way to create an annotation for frontal/temporal/occipital/parietal lobes based off the ?h.aparc.annot files in a FS 'label' dir? Ideally speaking, I'd like to have a ?h.lobar.annot with corresponding lobar.annot.ctab.
Apologies if this question has come up before... a quick google didn't reveal anything.
Many thanks -=R
The names are below. Also, I should point out that this is a bit "experimental" in that I chose which ROIs went into each "lobe". I'm not an anatomist, and it would be a good idea for someone to check my definitions. Also, I have a "cingulate" lobe because I originally did this as part of a replication of the FSL thalamus DTI-based segmentation.
doug
From: int MRISaparc2lobes(MRIS *surf) in annotation.c
MRISmergeAnnotations(surf, 10, parcnames, "frontal"); MRISmergeAnnotations(surf, 9, parcnames, "temporal"); MRISmergeAnnotations(surf, 4, parcnames, "parietal"); MRISmergeAnnotations(surf, 4, parcnames, "occipital"); MRISmergeAnnotations(surf, 4, parcnames, "cingulate");
Rudolph Pienaar wrote:
Great -- many thanks, Doug. What are the newly annotated regions named?
Basically, once I do a MatLAB
[list, label, annot] = read_annotation('lh.lobes.annot');what are the annot.struct_names?
Try running mri_annotation2label with --lobes lh.lobes.annot
doug
On Thu, 20 May 2010, Rudolph Pienaar wrote:
Hi all --
Is there a simple way to create an annotation for frontal/temporal/occipital/parietal lobes based off the ?h.aparc.annot files in a FS 'label' dir? Ideally speaking, I'd like to have a ?h.lobar.annot with corresponding lobar.annot.ctab.
Apologies if this question has come up before... a quick google didn't reveal anything.
Many thanks -=R
freesurfer@nmr.mgh.harvard.edu
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Doug Greve -
Douglas N Greve
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Rudolph Pienaar