mrhistmatch

Synopsis

Modify the intensities of one image to match the histogram of another via a non-linear transform

Usage

mrhistmatch [ options ]  input target output
  • input: the input image to be modified
  • target: the input image from which to derive the target histogram
  • output: the output image

Options

  • -mask_input image only generate input histogram based on a specified binary mask image
  • -mask_target image only generate target histogram based on a specified binary mask image
  • -cdfs path output the histogram CDFs to a text file (for debugging).
  • -bins num the number of bins to use to generate the histograms

Standard options

  • -info display information messages.
  • -quiet do not display information messages or progress status.
  • -debug display debugging messages.
  • -force force overwrite of output files. Caution: Using the same file as input and output might cause unexpected behaviour.
  • -nthreads number use this number of threads in multi-threaded applications (set to 0 to disable multi-threading)
  • -failonwarn terminate program if a warning is produced
  • -help display this information page and exit.
  • -version display version information and exit.

References

  • If using inverse contrast normalization for inter-modal (DWI - T1) registration:Bhushan, C.; Haldar, J. P.; Choi, S.; Joshi, A. A.; Shattuck, D. W. & Leahy, R. M. Co-registration and distortion correction of diffusion and anatomical images based on inverse contrast normalization. NeuroImage, 2015, 115, 269-280

Author: Robert E. Smith (robert.smith@florey.edu.au

Copyright: Copyright (c) 2008-2017 the MRtrix3 contributors

This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, you can obtain one at http://mozilla.org/MPL/2.0/.

MRtrix is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

For more details, see http://www.mrtrix.org/.