writeNIfTI2: writeNIfTI with default non-reorientation

In neuroconductor-releases/neurobase: 'Neuroconductor' Base Package with Helper Functions for 'nifti' Objects

Description

This function calls the writeNIfTI function from the oro.nifti package, but makes sure to remove .nii extension and warnings can be suppressed.

Usage

writeNIfTI2(nim, filename, dtype = FALSE, compression = 9, ...)

writenii(
  nim,
  filename,
  dtype = TRUE,
  drop_dim = TRUE,
  warn = FALSE,
  compression = 9,
  rm_extensions = TRUE,
  ...
)

Arguments

nim	object of class nifti, passed to writeNIfTI
filename	path to save the NIfTI file. Suffix will be removed
dtype	Should datatyper be run before writing?
compression	compression level for gzipped files.
...	Additional arguments passed to writeNIfTI
drop_dim	Should drop_img_dim be run before writing?
warn	Should warnings from writeNIfTI be printed? If not, suppressWarnings is called
rm_extensions	should niftiExtensions be converted to simple nifti objects before writing?

Value

Nothing

Note

While writeNIfTI2 does not run datatyper as default, writenii does. Additional functionality will be added to writenii likely but will not to writeNIfTI2

Examples

set.seed(5)
dims = rep(10, 3)
arr = array(rnorm(prod(dims)), dim = dims)
nim = oro.nifti::nifti(arr)
rnifti = RNifti::asNifti(nim)
tfile = tempfile(fileext = ".nii.gz")
timg = writenii(nim, tfile, rm_extensions = TRUE, warn = TRUE)
timg = writeNIfTI2(nim, tfile, dtype = TRUE)

neuroconductor-releases/neurobase documentation built on Nov. 12, 2020, 7:47 p.m.