Hi Yerong
the indices and names are all in the FreeSurferColorLUT.txt file. The
indices in [1000,2000) are for lh and in [2000,3000) are rh. For example,
2008 is ctx-rh-inferiorparietal.
cheers
Bruce
On Tue, 8 Jan 2019, Yerong Li wrote:
> External Email - Use Caution
>
> Dear Bruce:
>
> Thank you.
>
> So my question would be if aparc+aseg.mgz is from ?h.aparc.annot and
> aparc.a2009s+aseg.mgz is from
> ?h.aparc.a2009s.annot.
>
> Then how I can find the mapping between labels in aparc+aseg.mgz to
> labels in ?h.aparc.annot?
>
>
> The labels in ?h.aparc.annot are
> 0 6500 660700 1316060 1326300
> 1351760 2146559
> 2647065 3296035 3302420 3302560 3957880
> 3988500 3988540
> 4924360 6553700 6558940 7874740 8204875
> 9180240 9180300
> 9182740 9211105 9221140 9221340 9231540
> 10511485 10542100
> 11146310 11832480 13145750 14423100 14433500
> 14464220 14474380
>
> they have naming:
>
> {'unknown' }
> {'bankssts' }
> {'caudalanteriorcingulate' }
> {'caudalmiddlefrontal' }
> {'corpuscallosum' }
> {'cuneus' }
> {'entorhinal' }
> {'fusiform' }
> {'inferiorparietal' }
> {'inferiortemporal' }
> {'isthmuscingulate' }
> {'lateraloccipital' }
> {'lateralorbitofrontal' }
> {'lingual' }
> {'medialorbitofrontal' }
> {'middletemporal' }
> {'parahippocampal' }
> {'paracentral' }
> {'parsopercularis' }
> {'parsorbitalis' }
> {'parstriangularis' }
> {'pericalcarine' }
> {'postcentral' }
> {'posteriorcingulate' }
> {'precentral' }
> {'precuneus' }
> {'rostralanteriorcingulate'}
> {'rostralmiddlefrontal' }
> {'superiorfrontal' }
> {'superiorparietal' }
> {'superiortemporal' }
> {'supramarginal' }
> {'frontalpole' }
> {'temporalpole' }
> {'transversetemporal' }
> {'insula' }
>
>
> The labels in aparc+aseg.mgz are from 0-2035 and most of them are under 88.
>
> And in lookup tables, labels in aparc+aseg.mgz have different naming.
>
> Do you know how to do find relationship between volumtic labels and
> surface labels?
>
> Yerong
>
> Quoting Bruce Fischl <fis...@nmr.mgh.harvard.edu>:
>
>> Hi Yerong
>>
>> the parcellations are done on the surface to generate the annot files.
>> These are then sampled into the cortical ribbon to extend the aseg so that
>> every voxel in the cortex is given a label from the corresponding annot
>> file (aparc+aseg.mgz from aparc.annot and aparc.a2009s+aseg.mgz from
>> aparc.a2009s.annot)
>>
>> cheers
>> Bruce
>>
>>
>> On
>> Tue, 8 Jan 2019, Yerong Li wrote:
>>
>>> External Email - Use Caution
>>>
>>> Dear Freesurfer experts:
>>>
>>> I am on ROI analysis tutorial:
>>> https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/AnatomicalROIV6.0
>>>
>>> And I am trying to understand the relationship between:
>>>
>>> /label/?h.aparc.annot and /mri/aparc+aseg.mgz
>>> /label/?h.aparc.a2009s.annot and /mri/aparc.a2009s+aseg.mgz
>>>
>>> I understand /label/?h.aparc.annot corresponds to "Desikan-Killiany
>>> atlas" and its labels have 35 different labels (except unknown 0),
>>> while in several cases you mentioned that "/mri/aparc+aseg.mgz"
>>> corresponds to "Desikan-Killiany atlas", which I DO NOT understand.
>>> "/mri/aparc+aseg.mgz" to me are subcortical segmentations while
>>> "/label/?h.aparc.annot" are cortical(surface) parcellations.
>>> "Desikan-Killiany atlas" should mean "cortical (surface)
>>> parcellations". That's why I do not understand why
>>> "/mri/aparc+aseg.mgz" corresponds to "Desikan-Killiany atlas"?
>>>
>>> Could anyone help me understand this?
>>>
>>> Yerong
>>>
>>>
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>>>
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