check_dcm2nii: Check Output from 'dcm2nii'

In muschellij2/dcmniir: Conversion of 'DICOM' to 'NIfTI' Imaging Files Through R

Check Output from dcm2nii

Description

This function checks whether the output from dcm2nii runs correctly in that only one nifti file is returned if only one exists

Usage

check_dcm2nii(
  dcm2nii_output,
  include_json = TRUE,
  ignore_roi_if_multiple = FALSE,
  uncorrected = FALSE
)

Arguments

dcm2nii_output	Output from dcm2nii command, must have nii_after element
include_json	Include JSON file if in the output?
ignore_roi_if_multiple	If multiple nifti files are found, ignore any that have the format if 'ROI1.nii', 'ROI2.nii', etc. See https://github.com/rordenlab/dcm2niix/issues/832
uncorrected	If TRUE, then the function will not attempt to grab the "corrected" image (e.g. normalized or tilt corrected).

Value

Character vector of unique nifti filenames

muschellij2/dcmniir documentation built on July 3, 2025, 6:25 p.m.