Variational Algorithms to Remove Stationary Noise: Applications to Microscopy Imaging

@article{Fehrenbach2012VariationalAT,
  title={Variational Algorithms to Remove Stationary Noise: Applications to Microscopy Imaging},
  author={J{\'e}r{\^o}me Fehrenbach and Pierre Weiss and Corinne Lorenzo},
  journal={IEEE Transactions on Image Processing},
  year={2012},
  volume={21},
  pages={4420-4430}
}
A framework and an algorithm are presented in order to remove stationary noise from images. This algorithm is called variational stationary noise remover. It can be interpreted both as a restoration method in a Bayesian framework and as a cartoon+texture decomposition method. In numerous denoising applications, the white noise assumption fails. For example, structured patterns such as stripes appear in the images. The model described here addresses these cases. Applications are presented with… 

A Variational Model for Multiplicative Structured Noise Removal

TLDR
A novel convex image restoration model based on a maximum a posteriori estimator is proposed for the selective plane illumination microscope which often suffers from severe inhomogeneities due to light absorption and scattering.

Strip the Stripes: Artifact Detection and Removal for Scanning Electron Microscopy Imaging

TLDR
An automatic pipeline designed to detect and correct for beam-aligned striping artifacts in images of the remaining layers while minimally degrading the unknown artifact-free image is presented.

Note: Eliminating stripe artifacts in light-sheet fluorescence imaging.

We report two techniques to mitigate stripe artifacts in light-sheet fluorescence imaging. The first uses an image processing algorithm called the multidirectional stripe remover method to filter

Vertically scanned laser sheet microscopy

TLDR
A two-step procedure which consists of continuously acquiring laser sheet images while vertically displacing the sample, and then using the variational stationary noise remover (VSNR) method to further reduce the remaining stripes is reported.

Noise Analysis and Removal in 3D Electron Microscopy

TLDR
This work gives an analysis of noise, as one of the most important degradations in 3D EM imaging, and proposes a Non-Local Means image restoration algorithm that exploits the derived noise characteristics.

A Convex Variational Approach for Image Deblurring With Multiplicative Structured Noise

TLDR
A convex variational model to recover blurred images with multiplicative structured noise is obtained based on the total variation (TV), the statistical property of the Gamma noise and the maximum a posteriori (MAP) estimator, and an effective alternating direction method of multipliers (ADMM) is employed.

Stripe artifact reduction for digital scanned structured illumination light sheet microscopy.

TLDR
A new approach which will effectively mitigate the artifacts in digital scanned light sheet microscopy and digital scanned structured illumination light sheet microscopeopy (DSLM-SI) is described and the magnitude of stripe artifacts is reduced by an average of 20% across three datasets.

Coherent noise remover for optical projection tomography

TLDR
A novel method to suppress the coherent noises before 3D OPT reconstruction and remove remained coherent noises on the sinogram by using Variational Coherent noise Remover (VSNR) method is proposed.
...

References

SHOWING 1-10 OF 32 REFERENCES

VARIATIONAL ALGORITHMS TO REMOVE STRIPES : A GENERALIZATION OF THE NEGATIVE NORMMODELS

TLDR
A framework and an algorithm to remove stationary noise from images and it is shown that this model generalizes Meyer’s model and its successors in the discrete setting and allows to interpret them in a Bayesian framework.

DeStripe: frequency-based algorithm for removing stripe noises from AFM images

TLDR
The DeStripe denoising effect on AFM images allows extracting extended information from the topographic measurements and implicitly enhances the molecular features in the image, which provides better visualization for image objects without introducing additional artifacts into the restored image.

Optical Sectioning Deep Inside Live Embryos by Selective Plane Illumination Microscopy

Large, living biological specimens present challenges to existing optical imaging techniques because of their absorptive and scattering properties. We developed selective plane illumination

Fast, high-contrast imaging of animal development with scanned light sheet–based structured-illumination microscopy

TLDR
This method discriminates the specimen-related scattered background from signal fluorescence, thereby removing out-of-focus light and optimizing the contrast of in-focus structures, and provides rapid control of the illumination pattern, exceptional imaging quality and high imaging speeds.

Software for bead-based registration of selective plane illumination microscopy data

TLDR
It is shown here how bead-based and intensity-based multi-view reconstruction on 7-view acquisition of Drosophila embryo expressing His-YFP affects the registration error of the SPIM registration plugin.

A First-Order Primal-Dual Algorithm for Convex Problems with Applications to Imaging

  • A. ChambolleT. Pock
  • Mathematics, Computer Science
    Journal of Mathematical Imaging and Vision
  • 2010
TLDR
A first-order primal-dual algorithm for non-smooth convex optimization problems with known saddle-point structure can achieve O(1/N2) convergence on problems, where the primal or the dual objective is uniformly convex, and it can show linear convergence, i.e. O(ωN) for some ω∈(0,1), on smooth problems.

Structure-Texture Image Decomposition—Modeling, Algorithms, and Parameter Selection

TLDR
The paper shows that the correlation graph between u and ρ may serve as an efficient tool to select the splitting parameter, and proposes a new fast algorithm to solve the TV − L1 minimization problem.

Image Decomposition and Separation Using Sparse Representations: An Overview

TLDR
This paper gives essential insights into the use of sparsity and morphological diversity in image decomposition and source separation by reviewing recent work in this field and providing an overview of the generalized MCA introduced by the authors in and as a fast and efficient BSS method.

Oblique striping removal in remote sensing imagery based on wavelet transform

TLDR
The results show that the proposed method can remove oblique stripes effectively and keep most image information.