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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