nii1header.for.mgh

Create a NIFTI v1 header from the header information contained in an fs.volume instance.

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) 

nii1header.for.mgh function

<dl><dt>mgh</dt>
<dd>an <code>fs.volume</code> instance, or a string. If a string, it is interpreted as a filepath to a volume file (NIFTI, MGH or MGZ) that will be loaded with <code>read.fs.volume</code>.</dd>
<dt>endian</dt>
<dd>character string, the endianness to use. Either 'little' or 'big'. Defaults to 'little'.</dd>
<dt>pair</dt>
<dd>logical, whether the header should describe a NIFTI v1 pair (a <code>.hdr</code> header file with the voxel
data in a separate <code>.img</code> file, the variant of the format that FSL and 3D Slicer work with) instead of a single
file (<code>.nii</code>). See <code>ni1header.template</code>.</dd></dl>

Arguments

Create a NIFTI v1 header from the header information contained in an fs.volume instance. — nii1header.for.mgh

<dl>

<dt>mgh</dt>
<dd>an <code>fs.volume</code> instance, or a string. If a string, it is interpreted as a filepath to a volume file (NIFTI, MGH or MGZ) that will be loaded with <code>read.fs.volume</code>.</dd>


<dt>endian</dt>
<dd>character string, the endianness to use. Either 'little' or 'big'. Defaults to 'little'.</dd>


<dt>pair</dt>
<dd>logical, whether the header should describe a NIFTI v1 pair (a <code>.hdr</code> header file with the voxel
data in a separate <code>.img</code> file, the variant of the format that FSL and 3D Slicer work with) instead of a single
file (<code>.nii</code>). See <code>ni1header.template</code>.</dd>

</dl>

nii1header.for.mgh: Create a NIFTI v1 header from the header information contained in an fs.volume instance.

Description

Usage

Value

Arguments

See Also