mgh.is.conformed

In the FreeSurfer sense, *conformed* means that the volume is in coronal primary slice direction, has dimensions 256x256x256 and a voxel size of 1 mm in all 3 directions. The slice direction can only be determined if the header contains RAS information, if it does not, the volume is not conformed.

internal

Provides functions to read and write neuroimaging data in various file formats, with a focus on 'FreeSurfer' <http://freesurfer.net/> formats. This includes, but is not limited to, the following file formats: 1) MGH/MGZ 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

mgh.is.conformed function

<dl><dt>mgh_header</dt>
<dd>Header of the mgh datastructure, as returned by <code>read.fs.mgh</code>.</dd>
<dt>voxel_size_tolerance</dt>
<dd>double, the tolerance to accept when comparing the voxel size to the required value of `1.0`. Defaults to `1e-4`. Leave this alone unless you know what you are doing.</dd></dl>

Arguments

Determine whether an MGH volume is conformed. — mgh.is.conformed

<dl>

<dt>mgh_header</dt>
<dd>Header of the mgh datastructure, as returned by <code>read.fs.mgh</code>.</dd>


<dt>voxel_size_tolerance</dt>
<dd>double, the tolerance to accept when comparing the voxel size to the required value of `1.0`. Defaults to `1e-4`. Leave this alone unless you know what you are doing.</dd>

</dl>

mgh.is.conformed: Determine whether an MGH volume is conformed.

Description

Usage

Value

Arguments