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| Les deux révisions précédentes Révision précédente Prochaine révision | Révision précédente | ||
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developpement:productions:logiciels:anisotropicblur [2014/12/05 09:29] cicaluga |
developpement:productions:logiciels:anisotropicblur [2015/01/07 10:04] (Version actuelle) |
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| The easiest way is to use a gaussian blur, which will smooth the image intensity. It will indeed remove the noise, but we might also lose some important informations, as the localization of the cell walls. That's why we implement an anisotropic blur, which reduce the noise without blurring the cell walls. | The easiest way is to use a gaussian blur, which will smooth the image intensity. It will indeed remove the noise, but we might also lose some important informations, as the localization of the cell walls. That's why we implement an anisotropic blur, which reduce the noise without blurring the cell walls. | ||
| - | * **References** | ||
| - | The algorithm is based on a filter developed by Weickert, using a formula from Schmidt | ||
| - | - J. Weickert. Anisotropic Diffusion In Image Processing. B.G. Teubner Stuttgart, 1998. | ||
| - | - Schmidt, T., Pasternak, T., Liu, K., Blein, T., Aubry-Hivet, D., Dovzhenko, A., Duerr, J., Teale, W., Ditengou, F. A., Burkhardt, H., Ronneberger, O. and Palme, K. (2014), The iRoCS Toolbox – 3D analysis of the plant root apical meristem at cellular resolution. The Plant Journal, 77: 806–814. doi: 10.1111/tpj.12429 | ||
| The filter develop by Weickert is a diffusion process using a PDE (Partial Differential Equation). The image will evolve in time according to its gradient and a diffusion tensor (anisotropic) or a diffusion coefficient (isotropic). | The filter develop by Weickert is a diffusion process using a PDE (Partial Differential Equation). The image will evolve in time according to its gradient and a diffusion tensor (anisotropic) or a diffusion coefficient (isotropic). | ||
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| Near the cell walls, the diffusion is anisotropic : it is strong along the walls, and small perpendicularly to the walls. | Near the cell walls, the diffusion is anisotropic : it is strong along the walls, and small perpendicularly to the walls. | ||
| + | * **Results** | ||
| + | |||
| + | From left to right : | ||
| + | - original image | ||
| + | - anisotropic blur K=0.1 / sigma=6 / gamma=1 / nb_it=150 | ||
| + | - gaussian blur | ||
| + | |||
| + | {{ :developpement:productions:logiciels:original_zoom.png?nolink&650 |}} | ||
| + | |||
| + | * **References** | ||
| + | The algorithm is based on a filter developed by Weickert, using a formula from Schmidt | ||
| + | - J. Weickert. Anisotropic Diffusion In Image Processing. B.G. Teubner Stuttgart, 1998. | ||
| + | - Schmidt, T., Pasternak, T., Liu, K., Blein, T., Aubry-Hivet, D., Dovzhenko, A., Duerr, J., Teale, W., Ditengou, F. A., Burkhardt, H., Ronneberger, O. and Palme, K. (2014), The iRoCS Toolbox – 3D analysis of the plant root apical meristem at cellular resolution. The Plant Journal, 77: 806–814. doi: 10.1111/tpj.12429 | ||
| + | <note important>This project has been performed during the stage of Master of **Typhaine Moreau** at ENS Lyon (Reproduction et Developpement des Plantes and Centre Blaise Pascal) coordinated by **Annamaria Kiss and Cerasela Calugaru** | ||
| + | </note> | ||