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Volumetric Spectral Signal-To-Noise Ratio

C.Ó. Sánchez Sorzano, S. Jonić, C. El-Bez, S. De Carlo, P. Thévenaz, J. Conway, B.L. Trus, M. Unser

Proceedings of the Thirteenth European Microscopy Congress (EMC'04), Antwerp, Kingdom of Belgium, August 22-27, 2004, vol. I (Instrumentation and Methodology), pp. 427-428.

Measuring the quality of biological macromolecules that were reconstructed in three dimensions (3D) out of electron-microscopy images is still an open problem. We propose a method to compute the 3D frequency distribution of the resolution based on the 3D Spectral Signal-to-Noise Ratio (SSNR 3D) [1]. This had already been done in [2] for the class of reconstruction algorithms operating in Fourier space. Here, we broaden the measure to encompass all reconstruction algorithms. The basis of the method is to measure the consistency between the data and the corresponding set of reprojections computed for the reconstructed 3D map. The idiosyncracies of the reconstruction algorithm are taken explicitly into account by performing a noise-only reconstruction. The information to build the SSNR can be used to produce a Volumetric SSNR (VSSNR). Our method also overcomes the need to partition the data in two sets. Therefore, our measure yields a true resolution estimate and not only a reproducibility measure. The methodology described in this work is integrated in the software package Xmipp.


  1. M. Unser, M.J. Vrhel, J.F. Conway, M. Gross, P. Thévenaz, A.C. Stevens, B.L. Trus, "Resolution Assessment of 3D Reconstructions by Spectral Signal-to-Noise Ratio," Proceedings of the Eleventh European Congress on Microscopy (EUREM'96), Dublin, Eire, August 26-30, 1996, pp. III.260-III.261.

  2. P.A. Penczek, "Three-Dimensional Spectral Signal-to-Noise Ratio for a Class of Reconstruction Algorithms," Journal of Structural Biology, vol. 138, no. 1-2, April-May 2002, pp. 34-46.

The associated software is available here.

AUTHOR="S{\'{a}}nchez Sorzano, C.{\'{O}}. and Joni{\'{c}}, S. and
        El-Bez, C. and De Carlo, S. and Th{\'{e}}venaz, P. and Conway, J.
        and Trus, B.L. and Unser, M.",
TITLE="Volumetric Spectral Signal-To-Noise Ratio",
BOOKTITLE="Proceedings of the Thirteenth European Microscopy Congress
address="Antwerp, Kingdom of Belgium",
month="August 22-27,",

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