Indicates the dataset prefix of the MRI dataset to use.
The prefix applies to data files: {fbase}_slice_0092.nii.gz, and
{fbase}_slice_0092_mask.nii.gz.
These data files were obtained from the BrainWeb repository of the McConnell
Brain Imaging Center at the Montreal Neurological Institute.
BrainWeb anatomical models uses MRI slices of dimension 181x217 pixels.
The datasets included in the package for demonstration correspond to a
T1 BrainWeb image for slice number 92, with 3% noise and 0% intensity
non-uniformity.
swap
logical variable (default = FALSE) for choosing the
right/left data display convention consistent with FSLVIEW
Value
a list containing
fbase
dataset prefix of the dataset used in the analysis
niislice
slice data at all timepoints
mask
slice mask
nrow
number of rows
ncol
number of columns
swap
relative orientation used in the data setup
Details
The FSL tools may be used to prepare the MRI data and the mask required
as data input. The package oro.nifti is used for reading
gzipped NIFTI files.
References
Brandon Whitcher, Volker Schmid and Andrew Thornton, Package oro.nifti:
Rigorous - NIfTI Input / Output, 2010.