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Bioinformatics. 2010 Nov 1;26(21):2786-7. doi: 10.1093/bioinformatics/btq496. Epub 2010 Aug 27.

XMSF: Structure-preserving noise reduction and pre-segmentation in microscope tomography.

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  • 1Department of Computer Architecture and Electronics, University de Almería, Almería, Spain.



Interpretation of electron tomograms is difficult due to the high noise levels. Thus, denoising techniques are needed to improve the signal-to-noise ratio. XMSF (Microscopy Mean Shift Filtering) is a fast, user-friendly application that succeeds in filtering noise while preserving the structures of interest. It is based on the extension to 3D of a method widely applied in other image processing fields under very different scenarios. XMSF has been tested for a variety of tomograms, showing a great potential to become a state-of-the-art filtering program in electron tomography. Applied iteratively, the algorithm yields pre-segmented volumes facilitating posterior segmentation tasks. Moreover, execution times remain low thanks to parallel computing techniques to exploit current multicore computers.


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