For the stable Slicer documentation, visit the 4.10 page.
Introduction and Acknowledgements
This module offers a simple application of the AAD filter on diffusion-weighted imaging data. Since the noise through the image space is present in the tensorial acquisition, the AAD filter could be applied in order to decrease the noise amplitude and maintain the geometrical details of the image.
NOTE: This module works with NRRD DWI volumes. If your diffusion data is on different file formats (e.g. FSL output files), please convert then in advance. A useful tool to do that on 3D Slicer is the DWI Converter
- Use Case 1: Decrease noise in DWI data
Panels and their use
- Input Volume
- Select the DWI input image
- Output Volume
- Set the output DWI image file which the filters should place the final result
- A float value for edge preservation adjustment. The conductance regulates the diffusion intensity in the neighbourhood area. Choose a higher conductance if the input image has strong noise seem in the whole image space. If you want an automatic evaluation to conductance variable, please select the following methods
- Use Auto Conductance
- Choose if you want to use an automatic adjustment of conductance parameter. If this is checked, the inserted value is ignored and the optimization function below is used.
- Optmization Function
- A set of optimization function for automatic estimation of conductance parameter. This is helpful is you do not have an initial guess on what value is appropriate to the conductance setting. (Canny, MAD and Morphological). Please see the Insight-Journal article that explain each of these automatic conductance adjusment methods.
- Number of Iteractions
- A integer value that defines the number of iterations.
- Time Step
- A double value that regulates the numerical stability of the algorithm. It is safe to maintain the upper limit with the formulation given by Anisotropic Diffusion algorithm (See GradientAnisotropiDiffusionImageFilter in ITK documentation).
- Anomalous Parameter
- A double value that defines the q-Gaussian probability distribution function which is convoluated in each neighborhood in the image.
- Senra Filho, A.C. da S. et al., 2017. Enhancing quality in Diffusion Tensor Imaging with anisotropic anomalous diffusion filter. Research on Biomedical Engineering, 33(3), pp.247–258. DOI: 10.1590/2446-4740.02017
- da S Senra Filho, A.C., Garrido Salmon, C.E. & Murta Junior, L.O., 2015. Anomalous diffusion process applied to magnetic resonance image enhancement. Physics in Medicine and Biology, 60(6), pp.2355–2373. DOI: 10.1088/0031-9155/60/6/2355
Information for Developers
|Section under construction.|
- Da S Senra Filho, A. C., Garrido Salmon, C. E., & Murta Junior, L. O. (2015). Anomalous diffusion process applied to magnetic resonance image enhancement. Physics in Medicine and Biology, 60(6), 2355–2373. doi:10.1088/0031-9155/60/6/2355
- Senra Filho, A. C. da S. et al. (2017) Enhancing quality in Diffusion Tensor Imaging with anisotropic anomalous diffusion filter, Research on Biomedical Engineering. doi: 10.1590/2446-4740.02017.