cat12_denoise-docker

CAT12 image denoising as a Docker container

CAT12_denoise-docker

CAT SANLM denoising filter implementation (Manjon et al. 2010) made available as a dockerized command.

Container default execution expects a NIfTI-formatted image as input_file and an output_directory where the denoised version of the image is created (same name as the input image with _dn suffix). Command is compatible with either 3D or 4D MRI images.

This Docker image derives from the baseline CAT12 standalone Docker image.

Usage

 docker pull jhuguetn/cat12_denoise
 ...
 docker run -v /data:/data jhuguetn/cat12_denoise /indir/image.nii /outdir

Example

 docker run -it --rm -v `pwd`/data:/in -v /tmp:/out \
 jhuguetn/cat12_denoise /in/sub-0001_T1w.nii.gz /out
 
 fslinfo /tmp/sub-0001_T1w_dn.nii.gz

Credits

Jordi Huguet (BarcelonaBeta Brain Research Center)