Cancer Imaging Phenomics Toolkit (CaPTk)  1.9.0
Z-Scoring Normalization

This tool does a z-scoring based normalization on the loaded image.


  1. An input image.


  1. Launch the tool using the 'Preprocessing' -> 'ZScoringNormalizer' menu option.
  2. Specify the input image and the (optional) mask
  3. Specify the parameters (quantization upper/lower and cut-off upper/lower) to remove the outliers
  4. Specify the output image
  5. Click on 'Confirm'.
  6. The output image is saved in the specified folder.
  7. This can also be used from the command line:
    ${CaPTk_InstallDir}/bin/Preprocessing.exe -i C:/test/input.nii.gz -m C:/test/input_binaryMask.nii.gz -o C:/test/output.nii.gz -zn 1 -zq 5,95 -zc 3,3


  1. T.Rohlfing, N.M.Zahr, E.V.Sullivan, A.Pfefferbaum, "The SRI24 multichannel atlas of normal adult human brain structure", Human Brain Mapping, 31(5):798-819, 2010, DOI:10.1002/hbm.20906