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Manual selection of single particles in images acquired using cryo-electron microscopy (cryoEM) will become a significant bottleneck when datasets of a hundred thousand or even a million particles are required for structure determination at near atomic resolution. Algorithm development of fully automated particle selection is thus an important research(More)
We present a completely automated algorithm for estimating the parameters of the contrast transfer function (CTF) of a transmission electron microscope. The primary contribution of this paper is the determination of the astigmatism prior to the estimation of the CTF parameters. The CTF parameter estimation is then reduced to a 1D problem using elliptical(More)
We present a photometric stereo method for non-diffuse materials that does not require an explicit reflectance model or reference object. By computing a data-dependent rotation of RGB color space, we show that the specular reflection effects can be separated from the much simpler, diffuse (approximately Lambertian) reflection effects for surfaces that can(More)
A new learning-based approach is presented for particle detection in cryo-electron micrographs using the Adaboost learning algorithm. The approach builds directly on the successful detectors developed for the domain of face detection. It is a discriminative algorithm which learns important features of the particle's appearance using a set of training(More)
It is well known in the photometric stereo literature that uncalibrated photometric stereo, where light source strength and direction are unknown, can recover the surface geometry of a Lambertian object up to a 3-parameter linear transform known as the generalized bas relief (GBR) ambiguity. Many techniques have been proposed for resolving the GBR(More)
We present a unified framework for separating specular and diffuse reflection components in images and videos of textured scenes. This can be used for specularity removal and for independently processing, filtering, and recom-bining the two components. Beginning with a partial separation provided by an illumination-dependent color space, the challenge is to(More)
Complex reflectance phenomena such as specular reflections confound many vision problems since they produce image 'features' that do not correspond directly to intrinsic surface properties such as shape and spectral reflectance. A common approach to mitigate these effects is to explore functions of an image that are invariant to these photometric events. In(More)
This paper presents a novel generalization of the optical flow equation to the case of refraction, and it describes a method for recovering the refractive structure of an object from a video sequence acquired as the background behind the refracting object moves. By structure here we mean a representation of how the object warps and attenuates (or amplifies)(More)
A set of images of a Lambertian surface under varying lighting directions defines its shape up to a three-parameter Generalized Bas-Relief (GBR) ambiguity. In this paper, we examine this ambiguity in the context of surfaces having an additive non-Lambertian reflectance component, and we show that the GBR ambiguity is resolved by any non-Lambertian(More)
One of the goals in developing our automated electron microscopy data acquisition system, Leginon, was to improve both the ease of use and the throughput of the process of acquiring low dose images of macromolecular specimens embedded in vitreous ice. In this article, we demonstrate the potential of the Leginon system for high-throughput data acquisition by(More)