smooth.h

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/* Copyright (c) 2008-2022 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/.
 *
 * Covered Software is provided under this License on an "as is"
 * basis, without warranty of any kind, either expressed, implied, or
 * statutory, including, without limitation, warranties that the
 * Covered Software is free of defects, merchantable, fit for a
 * particular purpose or non-infringing.
 * See the Mozilla Public License v. 2.0 for more details.
 *
 * For more details, see http://www.mrtrix.org/.
 */
 
 
#ifndef __fixel_filter_smooth_h__
#define __fixel_filter_smooth_h__
 
#include "fixel/matrix.h"
#include "fixel/filter/base.h"
 
#define DEFAULT_FIXEL_SMOOTHING_FWHM 10.0
#define DEFAULT_FIXEL_SMOOTHING_MINWEIGHT 0.01
 
namespace MR
{
  namespace Fixel
  {
    namespace Filter
    {
 
 
 
      class Smooth : public Base
      { MEMALIGN (Smooth)
 
        public:
          Smooth (Image<index_type> index_image,
                  const Matrix::Reader& matrix,
                  const Image<bool>& mask_image,
                  const float smoothing_fwhm,
                  const float smoothing_threshold);
          Smooth (Image<index_type> index_image,
                  const Matrix::Reader& matrix,
                  const Image<bool>& mask_image);
          Smooth (Image<index_type> index_image,
                  const Matrix::Reader& matrix,
                  const float smoothing_fwhm,
                  const float smoothing_threshold);
          Smooth (Image<index_type> index_image,
                  const Matrix::Reader& matrix);
 
          void set_fwhm (const float fwhm);
 
          void operator() (Image<float>& input, Image<float>& output) const override;
 
        protected:
          Image<bool> mask_image;
          Matrix::Reader matrix;
          vector<Eigen::Vector3f> fixel_positions;
          float stdev, gaussian_const1, gaussian_const2, threshold;
 
      };
 
 
 
    }
  }
}
 
 
#endif