Use image file or other object to initialise template brain

Use image file or other object to initialise template brain

as.templatebrain(x, ...)

# S3 method for character
as.templatebrain(x, ...)

# S3 method for im3d
as.templatebrain(x, regName = NULL, name = regName, ...)

# S3 method for templatebrain
as.templatebrain(x, ...)

Arguments

x

object used to construct the templatebrain, either a character vector with the path to a file or an im3d object.

...

additional named arguments passed to methods and then on to templatebrain that will be added as fields to the templatebrain object.

name, regName

name and short name of the template brain. Will use the filename (minus final extension) by default for both fields.

Value

A list with class templatebrain

Details

as.templatebrain can extract the key fields defining an template space from an image file. This is generally a much more convenient approach to defining a templatebrain object than specifying all fields by hand.

See also

templatebrain, im3d

Examples

# Make templatebrain object using image info from the template brain NRRD file
nhdr=system.file('images','FCWB.nhdr', package='nat.templatebrains')
as.templatebrain(nhdr, name = "FlyCircuit Whole Brain")
#> === Template Brain === 
#> Name: FlyCircuit Whole Brain 
#> Short Name: FCWB 
#> Type: 
#> Sex:  
#> Dimensions:1769 x 1026 x 108 voxels
#> Voxel size:
#>   x = 0.318967307692308 microns
#>   y = 0.318427024390244 microns
#>   z = 1 microns
#> Bounding box (microns):
#>   x = 0, y = 0, z = 0,
#>   x = 563.9342, y = 326.3877, z = 107.
#> Description: 
#> DOI: