cifti.parcel

Create one parcel, i.e. a named set of surface vertices (per structure) and
volume voxels. The name is the only label a parcellated file has: the position in the
list of parcels is the parcel index, and the reader returns the names.

Provides functions to read and write neuroimaging data in various file formats, with a focus on 'FreeSurfer' formats. This includes, but is not limited to, the following file formats: 1) MGH/MGZ/NIFTI format files, which can contain multi-dimensional images or other data. Typically they contain time-series of three-dimensional brain scans acquired by magnetic resonance imaging (MRI). They can also contain vertex-wise measures of surface morphometry data. The MGH format is named after the Massachusetts General Hospital, and the MGZ format is a compressed version of the same format. 2) 'FreeSurfer' morphometry data files in binary 'curv' format. These contain vertex-wise surface measures, i.e., one scalar value for each vertex of a brain surface mesh. These are typically values like the cortical thickness or brain surface area at each vertex. 3) Annotation file format. This contains a brain surface parcellation derived from a cortical atlas. 4) Surface file format. Contains a brain surface mesh, given by a list of vertices and a list of faces.

Tim Schc3<a4>fer

freesurferformats

Read and Write 'FreeSurfer' Neuroimaging File Formats

Tim Schäfer

Van Essen Lab 

Montreal Neurological Institute (MNI) 

cifti.parcel function

<dl><dt>name</dt>
<dd>character string, the parcel name.</dd>
<dt>vertices</dt>
<dd>named list or <code>NULL</code>, the 0-based vertex indices per brain structure,
e.g. <code>list(CORTEX_LEFT = c(0, 1, 2), CORTEX_RIGHT = c(4, 5))</code>. Structures without
vertices are left out.</dd>
<dt>voxel_indices_ijk</dt>
<dd>n x 3 integer matrix or <code>NULL</code>, the 0-based voxel indices of
the parcel, one voxel per row.</dd></dl>

Arguments

Create a CIFTI-2 parcel. — cifti.parcel

<dl>

<dt>name</dt>
<dd>character string, the parcel name.</dd>


<dt>vertices</dt>
<dd>named list or <code>NULL</code>, the 0-based vertex indices per brain structure,
e.g. <code>list(CORTEX_LEFT = c(0, 1, 2), CORTEX_RIGHT = c(4, 5))</code>. Structures without
vertices are left out.</dd>


<dt>voxel_indices_ijk</dt>
<dd>n x 3 integer matrix or <code>NULL</code>, the 0-based voxel indices of
the parcel, one voxel per row.</dd>

</dl>

cifti.parcel: Create a CIFTI-2 parcel.

Description

Usage

Value

Arguments

See Also

Examples