Fast global interactive volume segmentation with regional supervoxel descriptors

In this paper we propose a novel approach towards fast multi-class volume segmentation that exploits supervoxels in order to reduce complexity, time and memory requirements. Current methods for biomedical image segmentation typically require either complex mathematical models with slow convergence, or expensive-to-calculate image features, which makes them non-feasible for large volumes with many objects (tens to hundreds) of different classes, as is typical in modern medical and biological datasets. Recently, graphical models such as Markov Random Fields (MRF) or Conditional Random Fields (CRF) are having a huge impact in different computer vision areas (e.g. image parsing, object detection, object recognition) as they provide global regularization for multiclass problems over an energy minimization framework. These models have yet to find impact in biomedical imaging due to complexities in training and slow inference in 3D images due to the very large number of voxels. Here, we define an interactive segmentation approach over a supervoxel space by first defining novel, robust and fast regional descriptors for supervoxels. Then, a hierarchical segmentation approach is adopted by training Contextual Extremely Random Forests in a user-defined label hierarchy where the classification output of the previous layer is used as additional features to train a new classifier to refine more detailed label information. This hierarchical model yields final class likelihoods for supervoxels which are finally refined by a MRF model for 3D segmentation. Results demonstrate the effectiveness on a challenging cryo-soft X-ray tomography dataset by segmenting cell areas with only a few user scribbles as the input for our algorithm. Further results demonstrate the effectiveness of our method to fully extract different organelles from the cell volume with another few seconds of user interaction. © (2016) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only

SMURFS: superpixels from multi-scale refinement of super-regions

Recent applications in computer vision have come to rely on superpixel segmentation as a pre-processing step for higher level vision tasks, such as object recognition, scene labelling or image segmentation. Here, we present a new algorithm, Superpixels from MUlti-scale ReFinement of Super-regions (SMURFS), which not only obtains state-of-the-art superpixels, but can also be applied hierarchically to form what we call n-th order super-regions. In essence, starting from a uniformly distributed set of super-regions, the algorithm iteratively alternates graph-based split and merge optimization schemes which yield superpixels that better represent the image. The split step is performed over the pixel grid to separate large super-regions into different smaller superpixels. The merging process, conversely, is performed over the superpixel graph to create 2nd-order super-regions (super-segments). Iterative refinement over two scale of regions allows the algorithm to achieve better over-segmentation results than current state-of-the-art methods, as experimental results show on the public Berkeley Segmentation Dataset (BSD500)

Power corrections to event shapes and factorization

We study power corrections to the differential thrust, heavy mass and related event shape distributions in $e^+e^-$-annihilation, whose values, $e$, are proportional to jet masses in the two-jet limit, $e\to 0$. The factorization properties of these differential distributions imply that they may be written as convolutions of nonperturbative "shape" functions, describing the emission of soft quanta by the jets, and resummed perturbative cross sections. The infrared shape functions are different for different event shapes, and depend on a factorization scale, but are independent of the center-of-mass energy $Q$. They organize all power corrections of the form $1/(eQ)^n$, for arbitrary $n$, and carry information on a class of universal matrix elements of the energy-momentum tensor in QCD, directly related to the energy-energy correlations.Comment: 15 pages, LaTeX style, 1 figure embedded with epsf.st

A Precision Calculation of the Next-to-Leading Order Energy-Energy Correlation Function

The O(alpha_s^2) contribution to the Energy-Energy Correlation function (EEC) of e+e- -> hadrons is calculated to high precision and the results are shown to be larger than previously reported. The consistency with the leading logarithm approximation and the accurate cancellation of infrared singularities exhibited by the new calculation suggest that it is reliable. We offer evidence that the source of the disagreement with previous results lies in the regulation of double singularities.Comment: 6 pages, uuencoded LaTeX and one eps figure appended Complete paper as PostScript file (125 kB) available at: http://www.phys.washington.edu/~clay/eecpaper1/paper.htm

Enhanced Nonperturbative Effects in Z Decays to Hadrons

We use soft collinear effective field theory (SCET) to study nonperturbative strong interaction effects in Z decays to hadronic final states that are enhanced in corners of phase space. These occur, for example, in the jet energy distribution for two jet events near E_J=M_Z/2, the thrust distribution near unity and the jet invariant mass distribution near zero. The extent to which such nonperturbative effects for different observables are related is discussed.Comment: 17 pages. Paper reorganized, and more discussion and results include

Volume segmentation and analysis of biological materials using SuRVoS (Super-region Volume Segmentation) workbench

Segmentation is the process of isolating specific regions or objects within an imaged volume, so that further study can be undertaken on these areas of interest. When considering the analysis of complex biological systems, the segmentation of three-dimensional image data is a time consuming and labor intensive step. With the increased availability of many imaging modalities and with automated data collection schemes, this poses an increased challenge for the modern experimental biologist to move from data to knowledge. This publication describes the use of SuRVoS Workbench, a program designed to address these issues by providing methods to semi-automatically segment complex biological volumetric data. Three datasets of differing magnification and imaging modalities are presented here, each highlighting different strategies of segmenting with SuRVoS. Phase contrast X-ray tomography (microCT) of the fruiting body of a plant is used to demonstrate segmentation using model training, cryo electron tomography (cryoET) of human platelets is used to demonstrate segmentation using super- and megavoxels, and cryo soft X-ray tomography (cryoSXT) of a mammalian cell line is used to demonstrate the label splitting tools. Strategies and parameters for each datatype are also presented. By blending a selection of semi-automatic processes into a single interactive tool, SuRVoS provides several benefits. Overall time to segment volumetric data is reduced by a factor of five when compared to manual segmentation, a mainstay in many image processing fields. This is a significant savings when full manual segmentation can take weeks of effort. Additionally, subjectivity is addressed through the use of computationally identified boundaries, and splitting complex collections of objects by their calculated properties rather than on a case-by-case basis

Surface and interstitial Ti diffusion at the rutile TiO2(110) surface

Diffusion of Ti through the TiO2 (110) rutile surface plays a key role in the growth and reactivity of TiO2. To understand the fundamental aspects of this important process, we present an analysis of the diffusion of Ti adspecies at the stoichiometric TiO2(110) surface using complementary computational methodologies of density functional theory corrected for on-site Coulomb interactions (DFT+U) and a charge equilibration (QEq) atomistic potential to identify minimum energy pathways. We find that diffusion of Ti from the surface to subsurface (and vice versa) follows an intersticialcy exchange mechanism, involving exchange of surface Ti with the 6-fold coordinated Ti below the bridging oxygen rows. Diffusion in the subsurface between layers also follows an interstitialcy mechanism. The diffusion of Ti is discussed in light of continued attempts to understand the re-oxidation of non-stoichiometric TiO2(110) surfaces

From evidence to action: applying gender mainstreaming to pay gaps in the Welsh public sector

Progress on reducing gender disparities remains painfully slow, despite efforts to identify the determinants of gender pay gaps and specify size and shape. Recent studies highlight the need for a more nuanced account of the way that public policy shapes organizational responses and insights into the types of organizational practices that diminish pay disparities. In response, this research reports on an action research intervention in three large Welsh public organizations, subject to a unique statutory equality duty. Data demonstrate how an evidence‐based gender mainstreaming approach facilitated the development of a ‘no blame’ strategy, which legitimized organizational proactivity through collaborative and empowering change management processes. The research contributes to the study of gender pay gaps by demonstrating that gender mainstreaming, with facilitative local conditions and supportive public policy, shapes action on gender segregation, with particular success in women's low‐paid employment. Conclusions highlight theoretical and policy implications arising from the research

Causality constraints in AdS/CFT from conformal collider physics and Gauss-Bonnet gravity

We explore the relation between positivity of the energy constraints in conformal field theories and causality in their dual gravity description. Our discussion involves CFTs with different central charges whose description, in the gravity side, requires the inclusion of quadratic curvature corrections. It is enough, indeed, to consider the Gauss-Bonnet term. We find that both sides of the AdS/CFT correspondence impose a restriction on the Gauss-Bonnet coupling. In the case of 6d supersymmetric CFTs, we show the full matching of these restrictions. We perform this computation in two ways. First by considering a thermal setup in a black hole background. Second by scrutinizing the scattering of gravitons with a shock wave in AdS. The different helicities provide the corresponding lower and upper bounds. We generalize these results to arbitrary higher dimensions and comment on some hints and puzzles they prompt regarding the possible existence of higher dimensional CFTs and the extent to which the AdS/CFT correspondence would be valid for them.Comment: 31 pages, 5 figures; v2: typos fixed, cosmetic amendments and references adde