pl-N4BiasFieldCorrection

pl-N4BiasFieldCorrection is a ChRIS ds plugin wrapper for the N4BiasFieldCorrection program from ANTs. pl-N4BiasFieldCorrection runs N4BiasFieldCorrection on every .nii and .nii.gz file found in a specified input directory.

Installation

pl-N4BiasFieldCorrection is a ChRIS plugin, meaning it can run from either within ChRIS or the command-line.

Local Usage

To get started with local command-line usage, use Apptainer (a.k.a. Singularity) to run pl-N4BiasFieldCorrection as a container:

apptainer exec docker://fnndsc/pl-N4BiasFieldCorrection n4wrapper input/ output/

To print its available options, run:

apptainer exec docker://fnndsc/pl-N4BiasFieldCorrection n4wrapper --help