This directory presents software for the singlemolecule localization microscopy field. Mar 29, 2016 germany based physicists have unveiled open source software to quickly and efficiently reconstruct images from super resolution structured illumination microscopy data. Assuming local translation among lowresolution images, this paper is the first attempt to determine the explicit limits of reconstruction based algorithms, under both real and synthetic conditions. Image superresolution reconstruction based on multi. Super resolution is an image fusion and reconstruction problem, where an improved resolution image is obtained from several geometrically warped, low resolution images. Performance of reconstructionbased superresolution with. Enhanced iterative backprojection based superresolution. Multiplane superresolution sr has been widely employed for resolution improvement of mr images. Reconstruction of super resolution images with correlation. Inverse problems in imaging have a long and rich history, covering various ideas that are related to deep learning. In other words, one can observe more details of the highfrequency features in captured images without concerning the hardware upgrade of imaging systems. Mar 21, 2016 reconstruction of super resolution structured illumination microscopy srsim datasets typically relies upon commercial software.
Aiming at the edge ringing effect of traditional pocs algorithm, this paper analyzes the basic reason causing the effect, and adopts an improved pocs algorithm to reduce it. Regularization is the procedure adopted to stabilize the inversion of illposed problem 2. For example, it is capable of denoising, interpolation both regularly and irregularlysampled data, fusion, superresolution, and more. We have developed a matlab program with graphical user interface that implements several image super resolution methods developed in this project. Due to the diffraction of light, the resolution in conventional light microscopy is limited, as stated for the special case of widefield illumination by ernst abbe in 1873. With the current advent of blue prints for costeffective, fast and customizable srsim microscopes, research groups building these setups benefit from a readytouse reconstruction software, so they do not have to create their own. In this paper, a novel and effective super resolution reconstruction algorithm based on patch similarity and backprojection modification was proposed. This software package implements our dataadaptive version of kr for twodimensional data, and the example scripts show the effectiveness of our approach in image processing and reconstruction. A collection of stateoftheart video or singleimage super resolution architectures, reimplemented in tensorflow.
The super resolution image reconstruction approach can be an illposed problem because of an insufficient number of low resolution images and illconditioned blur operators. This paper proposes a yuv color image superresolution reconstruction algorithm based on sparse representation. Deeplearningbased image reconstruction and enhancement in. This method utilized the mapping relation between lowresolution patch and highresolution patch in different image scales. To estimate the original hr image, most reconstructionbased methods. We expect that fairsim will become a highly useful tool for super resolution structured illumination microscopy. Compatible with high frame rates of emccd cameras, it relies on a wavelet segmentation algorithm. Super resolution software by masayuki tanaka at okutomi and tanaka lab, tokyo institute of technology related publications. Hong zhu a, weidong song, hai tan b, jingxue wang a, di jia c. Based on the perturbation theory of linear systems, we obtain the superresolution limits from the conditioning analysis of the coefficient matrix.
Okutomi, theoretical analysis on reconstructionbased super resolution. Adaptive detail enhancement for zy3 satellite images. Superresolution reconstruction for a single image based. However, most of these methods just used synthetic images, assuming known motion parameters in their experiments. Instead, superresolution image reconstruction is a very important task in many computer vision and image processing applications. Mdsp resolution enhancement software matlab by sina farsiu and dirk. Superresolution is an image fusion and reconstruction problem, where an improved resolution image is obtained from several geometrically warped, low resolution images. An adaptive weighted superresolution reconstruction technique has been used to lessen the restrictions of the different resolutions. Superresolution reconstruction algorithm based on patch. Super resolution sr reconstruction is one of the software level solutions for the enhancement of the spatial resolution of the reconstructed image. Abstract we present a superresolution reconstruction comparison between reconstruction based and nonuniform interpolation based sr. Superresolution ct image reconstruction based on dictionary. This is analyzed in the fourier domain using the perturbation theory.
The goal of image superresolution sr is to generate a highresolution hr image from one or more lowresolution lr images. Sparse reconstructionbased superresolution mr imaging. Maximum aposteriori map based superresolution reconstruction. Super resolution sim is widely used to analyse dynamic processes in living cells, but the data obtained via this method demands complex mathematical image reconstruction to. This study first investigated the images selfsimilarity and constructed highresolution and lowresolution learning dictionaries. Multiframe super resolution from a bayesian perspective, l. A collection of stateoftheart video or singleimage superresolution architectures, reimplemented in tensorflow. The main idea of such new method is that a sequence of low resolution images are taken firstly as observations, and then observation equations are established for the superresolution image reconstruction. Magnetic resonance superresolution imaging measurement. Osa image reconstruction with a deep convolutional. Multiframe superresolution reconstruction based on mixed.
Localizationbased superresolution imaging meets high. Super resolution image reconstruction has been one of the most active research areas in recent years. Depth image superresolution reconstruction based on a modified. In this paper, a new super resolution algorithm is proposed to the problem of obtaining a high resolution image from several low resolution images that have been sub sampled.
An accurate and fast reconstruction algorithm is crucial for the improvement of temporal resolution in highdensity superresolution microscopy, particularly in view of the challenges associated with livecell imaging. Superresolution sim is widely used to analyse dynamic processes in living cells, but the data obtained via this method demands complex mathematical image reconstruction to. Other area of satellite image includes the classification of different types of areas which could also be enhanced with sr. Decomposition of the objective function and optimization by the admm algorithm. Super resolution is a matlab program with graphical user interface that implements several image registration and reconstruction algorithms for super resolution imaging. Quantitative evaluation on different noise levels and inaccurate degradation matrix. This technique can combine orthogonal lowresolution stacks into one isotropic superresolution volume which has already been demonstrated to improve the visualization and the peak signaltonoise ratio of the tongue volume woo et al. In optical sr the diffraction limit of systems is transcended, while in geometrical sr the resolution of digital imaging sensors is enhanced. For this purpose, reconstruction algorithms exploit complementary information across different frames to fuse them into an. In comparison with other established super resolution. In recent years, the super resolution algorithms based on sparse representation have become one of the hot.
Algorithm firstly, we describe the algorithm of the sample selection for dictionary training. We demonstrate a functional method for realtime reconstruction with automatic feedback control, without compromising the localization accuracy. Superresolution software by masayuki tanaka at okutomi and tanaka lab, tokyo institute of technology related publications. Super resolution imaging sr is a class of techniques that enhance increase the resolution of an imaging system. Jan 11, 2020 a full working example on automated segmentation and high resolution reconstruction of fetal brain mri using niftymic is described in the usage section below. Deformable registrationbased superresolution for isotropic reconstruction of 4d mri volumes abstract. Superresolution afm imaging based on compressive sensing. In the proposed algorithm, we assume patch to be similar in natural images and extract the highfrequency information from the best similar patch to add into goal high resolution image. In this work, we design a deep network based on a convolutional neural network to take advantage of its enhanced ability in highdensity molecule localization, and introduce a. Softwarebased superresolution technology is effective to improve the resolution of image.
We have developed a matlab program with graphical user interface that implements several image superresolution methods developed in this project. In the image registration, the paper puts forward an improved search strategies improving registration accuracy. Superresolution methods are used in many machine vision and image processing applications. From the perspective of linear algebra, the performance of superresolution reconstruction sr depends on the conditioning of the linear system characterizing the degradation model.
Super resolution and sparse view ct reconstruction 3 the intuition is that the 3d structure tensor should have two zero eigenvalues on a 2d manifold embedded into a 3d volume, since the volume will only vary along the normal direction. In comparison with other established superresolution. The improvement in spatial resolution achieved in superresolved structured illumination fluorescence microscopy srsim is accomplished by illuminating a sample with a welldefined set of sinusoidal illumination intensity patterns, that is, typically a set of interference patterns 1. Learning based cs method is to identify dictionaries that represent high resolution patches in a sparse way, which introduce additional information of similar structures in images into the. A full working example on automated segmentation and highresolution reconstruction of fetal brain mri using niftymic is described in the usage section below. Multiframe superresolution reconstruction based on mixed poissongaussian noise. Niftymic a volumetric mri reconstruction tool based on rigid slicetovolume registration and outlierrobust super resolution reconstruction steps applied to fetal brain mri.
The basic idea for super resolution reconstruction from multiple low resolution frames. An accurate and fast reconstruction algorithm is crucial for the improvement of temporal resolution in highdensity super resolution microscopy, particularly in view of the challenges associated with livecell imaging. Toward robust reconstructionbased superresolution, m. Oct 30, 2017 an automated system for data acquisition and analysis enables highcontent screening localization microscopy and increases the throughput and information content of super resolution microscopy. The basic idea for superresolution reconstruction from multiple lowresolution frames.
Superresolution image reconstruction can achieve favorable feature extraction and image analysis. In this stage, the rate of subpixel accuracy, which processed in registration step, holds an important place for providing the success of super resolution application. Singlemolecule localization microscopy software benchmarking. Superresolution sr is an algorithmicbased approach to demonstrate more detailed object information than the intrinsic capability of the imaging system. Osa image reconstruction with a deep convolutional neural. Srr using ibp srribp methods efficiently satisfies the basic reconstruction constraints.
Okutomi, a fast map based superresolution algorithm for general motion, proc. The superresolution technique base on cs can be regarded as a reconstructionbased approach or a learningbased approach in superresolution imaging. Superresolution image reconstruction based on improved pocs. Super resolution microscopy, in light microscopy, is a term that gathers several techniques, which allow images to be taken with a higher resolution than the one imposed by the diffraction limit.
Superresolution image reconstruction based on mwsvr estimation. Improve vocal tract reconstruction and modeling using an. Subpixel motion provides the complementary information among the lowresolution frames that makes sr reconstruction possible. Superresolution image reconstruction computer science. Superresolution is a matlab program with graphical user interface that implements several image registration and reconstruction algorithms for superresolution imaging. Because it is easy to implement and it takes lower cost performance, the image superresolution technique has been widely applied to surveillance, medical imaging,remote sensing, and so on. Hr images are needed to acquire prior information for sr reconstruction. Super resolution image reconstruction has been one of the most active research fields in recent years.
The gray function of the object surface can be found by using surveying. Color image superresolution reconstruction based on. Super resolution applications in modern digital image. Accurate multidimensional localization of isolated fluorescent emitters is a time consuming process in singlemolecule based superresolution microscopy. Superresolution image reconstruction based on mwsvr. Okutomi, a fast mapbased superresolution algorithm for general motion, proc. The main idea of such new method is that a sequence of lowresolution images are taken firstly as observations, and then observation equations are established for the superresolution image reconstruction. Superresolution imaging 1st edition peyman milanfar. Image super resolution reconstruction based mca and pca. Many of localization software have taken part to the software benchmarking. High technology research and development program of china no. In this paper, a novel and effective superresolution reconstruction algorithm based on patch similarity and backprojection modification was proposed. Most stateoftheart superresolution methods 34, 18, 32, 4, 38, 20, 6, 37 learn cnns to reconstruct highresolution images from lowresolution color inputs.
Projections onto convex sets pocs algorithm is a widely used superresolution image reconstruction method. The accuracy of super resolution application depends on the performance of registration, interpolation and restoration steps. Abstractwe propose an effective super resolution reconstruction algorithm based on patch similarity and backprojection modification. The matlab application implements the superresolution methods described in the following papers. We discuss stateoftheart superresolution methods as well as learningbased raw image processing, and put this work in proper context. An automated system for data acquisition and analysis enables highcontent screening localization microscopy and increases the throughput and. Parallel superresolution is a multithreaded imagej plugin for superresolution. Image and video super resolution techniques springerlink. Because it is easy to implement and it takes lower cost performance, the image super resolution technique has been widely applied to surveillance, medical imaging,remote sensing, and so on. Superresolution image reconstruction has been one of the most active research fields in recent years. Map based superresolution image reconstruction method. The software generates a color highresolution image from raw data of the. The goal of multiframe super resolution algorithms is to reconstruct a high resolution image from a set of low resolution frames taken from the same scene. The goal of multiframe superresolution algorithms is to reconstruct a highresolution image from a set of lowresolution frames taken from the same scene.
This method utilized the mapping relation between low resolution patch and high resolution patch in different image scales. Germanybased physicists have unveiled open source software to quickly and efficiently reconstruct images from superresolution structured illumination microscopy data. A new method for superresolution image reconstruction based. A new method for superresolution image reconstruction based on. Superresolution image reconstruction based on improved.
Image superresolution reconstruction based on sparse representation and pocs method. This paper proposes a yuv color image super resolution reconstruction algorithm based on sparse representation. The term super in super resolution signifies that the technique can overcome the inherent resolution limitation of lr imaging systems. Reconstruction of super resolution structured illumination microscopy srsim datasets typically relies upon commercial software. Toward robust reconstruction based super resolution, m. Learningbased cs method is to identify dictionaries that represent highresolution patches in a sparse way, which introduce additional information of similar structures in images into the. This program is distributed under the general public licence gpl, which is included in the gpl file with the code. Multiframe superresolution reconstruction based on self. Software breakthrough for superresolution microscopy 2016.
Dictionary learning based superresolution reconstruction. Projections onto convex sets pocs algorithm is a widely used super resolution image reconstruction method. Superresolution and sparse view ct reconstruction 3 the intuition is that the 3d structure tensor should have two zero eigenvalues on a 2d manifold embedded into a 3d volume, since the volume will only vary along the normal direction. In this paper, we focus on a major class of superresolution algorithms, called the reconstructionbased algorithms, which compute highresolution images by simulating the image formation process. The superresolution image reconstruction approach can be an illposed problem because of an insufficient number of low resolution images and illconditioned blur operators. In recent years, the superresolution algorithms based on sparse representation have become one of. The light modulation leads to frequency mixing between the harmonic pattern frequency and the sample. This sr reconstruction scheme is based on sparse representation theory and. In this paper, a new superresolution algorithm is proposed to the problem of obtaining a highresolution image from several low resolution images that have been sub sampled. Super resolution reconstruction based on adaptive detail. An adaptive weighted super resolution reconstruction technique has been used to lessen the restrictions of the different resolutions. Superresolution image reconstruction has been one of the most active research areas in recent years. Multiframe superresolution from a bayesian perspective, l.
The r, g, b components of color image are highly correlated, threechannel super resolution independent reconstruction will lead to color distortion, so in this paper the color image is firstly converted to the y, u, v three channels, and then super resolution reconstruction. Interpolationbased algorithms are simple but ineffective, in which the unknown image pixel values are calculated from the known pixels using interpolation formula 1 4, such as bilinear. Our proposed algorithm is based on interpolation of cropped low resolution frames extracted from a low quality video surveillance sequence for effective and efficient reconstruction of a high resolution license plate recognition image. Color image superresolution reconstruction based on sparse. However, this has mostly been limited to mri acquisitions with rigid motion. A superresolution reconstruction algorithm for hyperspectral. Usingaccuracy and processing power, has caused more attention to be software based superresolution methods. Opensource image reconstruction of superresolution.
Niftymic a volumetric mri reconstruction tool based on rigid slicetovolume registration and outlierrobust superresolution reconstruction steps applied to fetal brain mri. Image super resolution reconstruction based mca and pca dimension reduction weiguo yang, bing xue, chunxing wang shandong normal university, jinan, china abstract image superresolution sr reconstruction is to reconstruct a highresolution hr image from one or a series of lowresolutionpca dimension reduction lr images in the same. There are three emerging approaches to super resolution microscopy. A new method for superresolution image reconstruction. Accurate multidimensional localization of isolated fluorescent emitters is a time consuming process in singlemolecule based super resolution microscopy. Fundamental limits of reconstructionbased superresolution. Software breakthrough for superresolution microscopy. A survey on superresolution methods for image reconstruction.
Super resolution methods are used in many machine vision and image processing applications. Download demonstration movie of superresolution software 4. Subpixel motion provides the complementary information among the low resolution frames that makes sr reconstruction possible. Assuming local translation among low resolution images, this paper is the first attempt to determine the explicit limits of reconstruction based algorithms, under both real and synthetic conditions. Qualitative verification and practical validation on. The super resolution technique base on cs can be regarded as a reconstruction based approach or a learning based approach in super resolution imaging. In spatial domain applications, it allows easy inclusion of data and is a computationally efficient method. The r, g, b components of color image are highly correlated, threechannel superresolution independent reconstruction will lead to color distortion, so in this paper the color image is firstly converted to the y, u, v three channels, and then superresolution reconstruction. Hence, software resolution enhancement techniques are very desirable for these. An attentionbased approach for single image super resolution.
This application is availabe for the use of researchers and companies. These range from example based super resolution and dictionary learning techniques. Does super resolution fluorescence microscopy obsolete. Nevertheless, the list includes also other useful software performing deconvolution, rendering and clustering. Parallel super resolution is a multithreaded imagej plugin for super resolution. Realtime analysis and visualization for singlemolecule. Based on the theory of statistical learning, mercer condition and the wavelet frame, this. Superresolution techniques have three categories in general, namely, interpolationbased, reconstructionbased, and dictionarybased algorithms. Usingaccuracy and processing power, has caused more attention to be software based super resolution methods. An attentionbased approach for single image super resolution yuan liu 1. Depth image superresolution reconstruction based on a modified joint. For this purpose, reconstruction algorithms exploit complementary information across different frames to fuse them into an image of higher spatial resolution. Iterative backprojection ibp is a popular and straightforward approach applied successfully in the field of image superresolution reconstruction srr. A new method for superresolution image reconstruction based on surveying adjustment method is described in this paper.