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ConvertXFM brick

Modify transformation matrix using convert_xfm (FSL)

Mandatory inputs parameters:

• in_transfo (a string representing an existing file)

  Input transformation matrix (valid extensions: [.mat]).

  ex. '/home/username/data/raw_data/epi2struct.mat'
  

Optional inputs with default value parameters:

• output_type (‘NIFTI’ or ‘NIFTI_GZ’, optional, default value is NIFTI)

  Format of the output image (one of NIFTI, NIFTI_GZ).

  - NIFTI: *.nii

  - NIFTI_GZ: *.nii.gz

  ex. NIFTI
  

• invert_xfm (a boolean, optional, default value is False)

  Invert input transformation (exclusive with fix_scale_skew, concat_xfm)

  ex. False
  

• concat_xfm (a boolean, optional, default value is False)

  Write joint transformation of two input matrices (exclusive with fix_scale_skew, invert_xfm). in_trasfo_2 parameter should be used for the second matrix.

  ex. False
  

• fix_scale_skew (a boolean, optional, default value is False)

  Use secondary matrix to fix scale and skew. (exclusive with concat_xfm, invert_xfm). in_trasfo_2 parameter should be used for the second matrix.

  ex. False
  

Optional inputs :

• in_transfo_2 (a string representing an existing file, optional)

  Second input transformation matrix (valid extensions: [.mat]).

  ex. '/home/username/data/raw_data/struc2mni.mat'
  

Outputs parameters:

• out_file (a pathlike object or string representing a file)

  Final transformation matrix

  ex. '/home/username/data/derived_data/epi2struct_concate_struc2mni.mat
  

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Useful links:

FSL convert_xfm

FSL ConvertXFM - nipype