A local Gaussian filter and adaptive morphology as tools for completing partially discontinuous curves

This paper presents a method for extraction and analysis of curve--type structures which consist of disconnected components. Such structures are found in electron--microscopy (EM) images of metal nanograins, which are widely used in the field of nanosensor technology. The topography of metal nanograins in compound nanomaterials is crucial to nanosensor characteristics. The method of completing such templates consists of three steps. In the first step, a local Gaussian filter is used with different weights for each neighborhood. In the second step, an adaptive morphology operation is applied to detect the endpoints of curve segments and connect them. In the last step, pruning is employed to extract a curve which optimally fits the template

Detection of a signal in linear subspace with bounded mismatch

We consider the problem of detecting a signal of interest in a background of noise with unknown covariance matrix, taking into account a possible mismatch between the actual steering vector and the presumed one. We assume that the former belongs to a known linear subspace, up to a fraction of its energy. When the subspace of interest consists of the presumed steering vector, this amounts to assuming that the angle between the actual steering vector and the presumed steering vector is upper bounded. Within this framework, we derive the generalized likelihood ratio test (GLRT). We show that it involves solving a minimization problem with the constraint that the signal of interest lies inside a cone. We present a computationally efficient algorithm to find the maximum likelihood estimator (MLE) based on the Lagrange multiplier technique. Numerical simulations illustrate the performance and the robustness of this new detector, and compare it with the adaptive coherence estimator which assumes that the steering vector lies entirely in a subspace

The Hyper Suprime-Cam Software Pipeline

In this paper, we describe the optical imaging data processing pipeline developed for the Subaru Telescope's Hyper Suprime-Cam (HSC) instrument. The HSC Pipeline builds on the prototype pipeline being developed by the Large Synoptic Survey Telescope's Data Management system, adding customizations for HSC, large-scale processing capabilities, and novel algorithms that have since been reincorporated into the LSST codebase. While designed primarily to reduce HSC Subaru Strategic Program (SSP) data, it is also the recommended pipeline for reducing general-observer HSC data. The HSC pipeline includes high level processing steps that generate coadded images and science-ready catalogs as well as low-level detrending and image characterizations.Comment: 39 pages, 21 figures, 2 tables. Submitted to Publications of the Astronomical Society of Japa

Accurate detection of dysmorphic nuclei using dynamic programming and supervised classification

A vast array of pathologies is typified by the presence of nuclei with an abnormal morphology. Dysmorphic nuclear phenotypes feature dramatic size changes or foldings, but also entail much subtler deviations such as nuclear protrusions called blebs. Due to their unpredictable size, shape and intensity, dysmorphic nuclei are often not accurately detected in standard image analysis routines. To enable accurate detection of dysmorphic nuclei in confocal and widefield fluorescence microscopy images, we have developed an automated segmentation algorithm, called Blebbed Nuclei Detector (BleND), which relies on two-pass thresholding for initial nuclear contour detection, and an optimal path finding algorithm, based on dynamic programming, for refining these contours. Using a robust error metric, we show that our method matches manual segmentation in terms of precision and outperforms state-of-the-art nuclear segmentation methods. Its high performance allowed for building and integrating a robust classifier that recognizes dysmorphic nuclei with an accuracy above 95%. The combined segmentation-classification routine is bound to facilitate nucleus-based diagnostics and enable real-time recognition of dysmorphic nuclei in intelligent microscopy workflows

The Concentration-Density Relation of Galaxies in Las Campanas Redshift Survey

We report the results of the evaluation of the ``concentration-density'' relation of galaxies in the local universe, taking advantage of the very large and homogeneous data set available from the Las Campanas Redshift Survey (Shectman et al. 1996). This data set consists of galaxies inhabiting the entire range of galactic environments, from the sparsest field to the densest clusters, thus allowing us to study environmental variations without combining multiple data sets with inhomogeneous characteristics. Concentration is quantified by the automatically-measured concentration index $C$, which is a good measure of a galaxy's bulge-to-disk ratio. The environment of the sample galaxies is characterized both by the three-space local galaxy density and by membership in groups and clusters. We find that the distribution of C in galaxy populations varies both with local density and with cluster/group membership: the fraction of centrally-concentrated galaxies increases with local galaxy density, and is higher in clusters than in the field. A comparison of the concentration-local density relation in clusters and the field shows that the two connect rather smoothly at the intermediate density regime, implying that the apparent cluster/field difference is only a manifestation of the variation with the local density. We conclude that the structure of galaxies is predominantly influenced by the local density and not by the broader environments characterized by cluster/field memberships.Comment: 11 pages, 4 figures, ApJ in press, uses psfig.st

The molecular architecture of engulfment during Bacillus subtilis sporulation.

The study of bacterial cell biology is limited by difficulties in visualizing cellular structures at high spatial resolution within their native milieu. Here, we visualize Bacillus subtilis sporulation using cryo-electron tomography coupled with cryo-focused ion beam milling, allowing the reconstruction of native-state cellular sections at molecular resolution. During sporulation, an asymmetrically-positioned septum generates a larger mother cell and a smaller forespore. Subsequently, the mother cell engulfs the forespore. We show that the septal peptidoglycan is not completely degraded at the onset of engulfment. Instead, the septum is uniformly and only slightly thinned as it curves towards the mother cell. Then, the mother cell membrane migrates around the forespore in tiny finger-like projections, whose formation requires the mother cell SpoIIDMP protein complex. We propose that a limited number of SpoIIDMP complexes tether to and degrade the peptidoglycan ahead of the engulfing membrane, generating an irregular membrane front