jhuguetn/cat12_denoise repository overview

⁠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 an input_directory with a single NIfTI image 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 eith 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 /outdir

⁠Example

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

⁠Credits

Jordi Huguet (BarcelonaBeta Brain Research Center⁠)