Description Usage Arguments Value
View source: R/spm12_normalize.R
Performs SPM12 (Spatial) Normalization on an Image
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 | spm12_normalize(
filename,
other.files = NULL,
bounding_box = matrix(c(-90, -126, -72, 90, 90, 108), nrow = 2, byrow = TRUE),
biasreg = 0.001,
biasfwhm = 60,
regularization = c(0, 0.001, 0.5, 0.05, 0.2),
affine = c("mni", "eastern", "subj", "none", ""),
smoothness = 0,
sampling_distance = 3,
voxel_size = c(2, 2, 2),
interp = c("bspline4", "nearestneighbor", "trilinear", paste0("bspline", 2:3),
paste0("bspline", 5:7)),
add_spm_dir = TRUE,
spmdir = spm_dir(verbose = verbose, install_dir = install_dir),
clean = TRUE,
verbose = TRUE,
install_dir = NULL,
...
)
|
filename |
File to be normalized to the template |
other.files |
Files to be written using the estimated normalization |
bounding_box |
matrix (2x3) of the bounding box to use. Default is for MNI 2mm template size |
biasreg |
Amount of bias regularization |
biasfwhm |
FWHM of Gaussian smoothness of bias. |
regularization |
parameters for warping regularization |
affine |
Space to register the image to, using an affine registration |
smoothness |
FWHM of smoothing done |
sampling_distance |
smoothness of the warping field. This is used to derive a fudge factor to account for correlations between neighbouring voxels. Approximate distance between sampled points when estimating the model parameters. |
voxel_size |
The voxel sizes (x, y & z, in mm) of the written normalised images. |
interp |
Interpolator for sampling in fixed space |
add_spm_dir |
Add SPM12 directory from this package |
spmdir |
SPM dir to add, will use package default directory |
clean |
Remove scripts from temporary directory after running |
verbose |
Print diagnostic messages |
install_dir |
directory to download SPM12 |
... |
Arguments passed to |
List of output filenames
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