In the dlabel.nii file, this information is in the data matrix, not the
header. One way to get this information is from the header of a
ptseries.nii file (or other parcellated file type) resulting from
parcellating with it. The -file-information command should report the
counts of vertices ("nodes" which is terminology we used to use, next
release this will say vertices) and voxels within each parcel, like so:
...
ALONG_COLUMN map type: PARCELS
Has Volume Data: false
CortexLeft: 32492 nodes
L_V1_ROI: Voxel-Count=0
CortexLeft Node-Count=679
L_MSTv_ROI: Voxel-Count=0
CortexLeft Node-Count=40
L_V6_ROI: Voxel-Count=0
CortexLeft Node-Count=122
L_V2_ROI: Voxel-Count=0
CortexLeft Node-Count=731
L_V3_ROI: Voxel-Count=0
CortexLeft Node-Count=492
...
In the Cifti XML (again, of the parcellated file, not the dlabel.nii), the
lists you are looking for look like this:
<MatrixIndicesMap AppliesToMatrixDimension="1"
IndicesMapToDataType="CIFTI_INDEX_TYPE_PARCELS">
<Surface BrainStructure="CIFTI_STRUCTURE_CORTEX_LEFT"
SurfaceNumberOfVertices="32492"/>
<Parcel Name="L_V1_ROI">
<Vertices BrainStructure="CIFTI_STRUCTURE_CORTEX_LEFT">100
101 102 103 104 105 106 107 108 109 1489 1510 1530 1531 1549 1550 1567 1568
1569 1584 1585 1586 1600 1601 1615 23155 23156 23157 23158 23159 23160
23161 23162 23163 23164 23165 23166 23167 23168 23169 23170 23171 23172...
There are some other ways to get the information (getting the dlabel.nii
data and translating indices by the brain models map), but I think this is
the closest to what you are asking without using additional tools.
Tim
On Tue, Jan 6, 2015 at 11:29 AM, Oscar Miranda Dominguez <[email protected]>
wrote:
> Hi
>
>
>
> I need some help with an easy issue!
>
> I have a few parcellations that I am using to make timecourses using
> cifti-parcellate.
>
> However I am interested in knowing either of the following 2 thinks:
>
>
>
> 1. Which grayordinate belongs to each ROI, or
>
> 2. How many grayordinates belong to each ROI
>
>
>
> I know that this info should be in the label file. However, when I read
> the header, I just see the list of ROIs and the ~32k grayordinates that
> belong to each hemisphere.
>
> Any suggestions?
>
>
>
> Thanks in advance for your help and best regards!
>
>
>
> Oscar Miranda-Dominguez
>
> Postdoctoral Researcher
>
> Fair Neuroimaging Lab
>
> Phone: 503.418.1894 Fax: 503.494.9988
>
>
>
> Oregon Health and Science University
>
> Department of Behavioral Neuroscience
>
> *3181 SW Sam Jackson Park Road, L470*
>
> *Portland, OR 97239*
>
> http://www.ohsu.edu/fair-lab
>
>
>
> _______________________________________________
> HCP-Users mailing list
> [email protected]
> http://lists.humanconnectome.org/mailman/listinfo/hcp-users
>
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