fnndsc/pl-nii2mnc repository overview

⁠pl-nii2mnc

pl-nii2mnc is a ChRIS ds plugin wrapper around nii2mnc⁠. It converts NIFTI images in its input directory into MINC files in a specified output directory. For every file in its input directory N, the output of the nii2mnc command itself is saved to {N}.nii2mnc.log.

⁠Usage

apptainer exec docker://fnndsc/pl-nii2mnc niis2mncs [--unsigned] [--byte] input/ output/

input/ should be a directory of .nii (NIFTI) or .nii.gz (compressed NIFTI) files.

⁠Examples

mkdir input output
cp examples/incoming/* input/
apptainer exec docker://fnndsc/pl-nii2mnc niis2mncs --unsigned --byte input/ output/