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CovRadar
(2022)
The ongoing pandemic caused by SARS-CoV-2 emphasizes the importance of genomic surveillance to understand the evolution of the virus, to monitor the viral population, and plan epidemiological responses. Detailed analysis, easy visualization and intuitive filtering of the latest viral sequences are powerful for this purpose. We present CovRadar, a tool for genomic surveillance of the SARS-CoV-2 Spike protein. CovRadar consists of an analytical pipeline and a web application that enable the analysis and visualization of hundreds of thousand sequences. First, CovRadar extracts the regions of interest using local alignment, then builds a multiple sequence alignment, infers variants and consensus and finally presents the results in an interactive app, making accessing and reporting simple, flexible and fast.
This paper addresses terrorism trials as sites of research and proposes an approach for the analysis of ethnographic data collected during these trials. The suggested approach offers multi-level analytical access, it centers around interactionist conceptions and knowledge discourses. The conceptual framework we suggest is spelled out in terms of how to observe and being sensitive of (re-)production of power structures inside the courtroom as well as in regard to relations imported into the courtroom. For this purpose, we integrate (i) the micro-level of courtroom interactions and (ii) (self-)presentation, (iii) the meso-level of knowledge (re)production and the establishment of knowledge orders and (iv) an intersectional perspective on gender, race, and class in knowledge discourses. By applying a multi-level approach, we open up new explanatory avenues to understand the constitution of terrorism as a socio-legal object. The methodical framework connects hitherto unconnected elements, that is, participants' interactions and negotiation, their (self-)representations, ascriptions and narrative performances, and knowledge (re-)production in order to establish or maintain political and social orders.
Modelling of an open quantum system requires knowledge of parameters that specify how it couples to its environment. However, beyond relaxation rates, realistic parameters for specific environments and materials are rarely known. Here we present a method of inferring the coupling between a generic system and its bosonic (e.g., phononic) environment from the experimentally measurable density of states (DOS). With it we confirm that the DOS of the well-known Debye model for three-dimensional solids is physically equivalent to choosing an Ohmic bath. We further match a real phonon DOS to a series of Lorentzian coupling functions, allowing us to determine coupling parameters for gold, yttrium iron garnet (YIG) and iron as examples. The results illustrate how to obtain material-specific dynamical properties, such as memory kernels. The proposed method opens the door to more accurate modelling of relaxation dynamics, for example for phonon-dominated spin damping in magnetic materials.
As presidents approach the end of their constitutionally defined term in office, they face a number of difficulties, most importantly the deprivation of sources of power, personal enrichment, and protection from prosecution. This leads many of them to attempt to circumvent their term limits. Recent studies explain both the reasons for the extension or full abolition of term limits, and failed attempts to do so. Key explanations include electoral competition and the post-term fate of previous post holders. What we do not know yet is how compliance with term limits may be tied to the current president's expectations for their post-term fate. In particular, we do not know whether leaders who attempt to remove term limits and fail to do so jeopardize their post-term career as a result, and conversely, whether leaders who comply will have better outcomes in terms of security, prestige, and economic gain. Hence, we ask how the decision of a leader to comply or not comply with term limits is conditioned by the expectation of their post-term fate. To address this question, this article introduces new data on the career trajectories of term-limited presidents and its systematic effect on term limit compliance.
This paper studies cosmic-ray (CR) transport in magnetohydrodynamic (MHD) turbulence. CR transport is strongly dependent on the properties of the magnetic turbulence.
We perform test particle simulations to study the interactions of CR with both total MHD turbulence and decomposed MHD modes.
The spatial diffusion coefficients and the pitch angle scattering diffusion coefficients are calculated from the test particle trajectories in turbulence.
Our results confirm that the fast modes dominate the CR propagation, whereas Alfven and slow modes are much less efficient and have shown similar pitch-angle scattering rates.
We investigate the cross field transport on large and small scales. On large/global scales, normal diffusion is observed and the diffusion coefficient is suppressed by M-A(zeta) compared to the parallel diffusion coefficients, with zeta closer to 4 in Alfven modes than that in total turbulence, as theoretically expected.
For the CR transport on scales smaller than the turbulence injection scale, both the local and global magnetic reference frames are adopted. Superdiffusion is observed on such small scales in all the cases. Particularly, CR transport in Alfven modes show clear Richardson diffusion in the local reference frame. The diffusion transitions smoothly from the Richardson's one with index 1.5 to normal diffusion as the particle mean free path decreases from lambda(parallel to) >> L to lambda(parallel to) << L, where L is the injection/coherence length of turbulence.
Our results have broad applications to CRs in various astrophysical environments.
This study investigated the role of medium (face-to-face, cyber) and publicity (public, private) in adolescents' perceptions of severity and coping strategies (i.e., avoidant, ignoring, helplessness, social support seeking, retaliation) for victimization, while accounting for gender and cultural values. There were 3432 adolescents (ages 11-15, 49% girls) in this study; they were from China, Cyprus, the Czech Republic, India, Japan, and the United States. Adolescents completed questionnaires on individualism and collectivism, and ratings of coping strategies and severity for public face-to-face victimization, private face-to-face victimization, public cyber victimization, and private cyber victimization. Findings revealed similarities in adolescents' coping strategies based on perceptions of severity, publicity, and medium for some coping strategies (i.e., social support seeking, retaliation) but differential associations for other coping strategies (i.e., avoidance, helplessness, ignoring). The results of this study are important for prevention and intervention efforts because they underscore the importance of teaching effective coping strategies to adolescents, and to consider how perceptions of severity, publicity, and medium might influence the implementation of these coping strategies.
In an ocean-continent subduction zone, the assessment of the lithospheric thermal state is essential to determine the controls of the deformation within the upper plate and the dip angle of the subducting lithosphere. In this study, we evaluate the degree of influence of both the configuration of the upper plate (i.e., thickness and composition of the rock units) and variations of the subduction angle on the lithospheric thermal field of the southern Central Andes (29 degrees-39 degrees S). Here, the subduction angle increases from subhorizontal (5 degrees) north of 33 degrees S to steep (similar to 30 degrees) in the south. We derived the 3D temperature and heat flow distribution of the lithosphere in the southern Central Andes considering conversion of S wave tomography to temperatures together with steady-state conductive thermal modeling. We found that the orogen is overall warmer than the forearc and the foreland and that the lithosphere of the northern part of the foreland appears colder than its southern counterpart. Sedimentary blanketing and the thickness of the radiogenic crust exert the main control on the shallow thermal field (<50km depth). Specific conditions are present where the oceanic slab is relatively shallow (<85 km depth) and the radiogenic crust is thin. This configuration results in relatively colder temperatures compared to regions where the radiogenic crust is thick and the slab is steep. At depths >50km, the temperatures of the overriding plate are mainly controlled by the mantle heat input and the subduction angle. The thermal field of the upper plate likely preserves the flat subduction angle and influences the spatial distribution of shortening.
Controls on the deformation pattern (shortening mode and tectonic style) of orogenic forelands during lithospheric shortening remain poorly understood. Here, we use high-resolution 2D thermomechanical models to demonstrate that orogenic crustal thickness and foreland lithospheric thickness significantly control the shortening mode in the foreland. Pure-shear shortening occurs when the orogenic crust is not thicker than the foreland crust or thick, but the foreland lithosphere is thin (<70-80 km, as in the Puna foreland case). Conversely, simple-shear shortening, characterized by foreland underthrusting beneath the orogen, arises when the orogenic crust is much thicker. This thickened crust results in high gravitational potential energy in the orogen, which triggers the migration of deformation to the foreland under further shortening. Our models present fully thick-skinned, fully thin-skinned, and intermediate tectonic styles in the foreland. The first tectonics forms in a pure-shear shortening mode whereas the others require a simple-shear mode and the presence of thick (>similar to 4 km) sediments that are mechanically weak (friction coefficient <similar to 0.05) or weakened rapidly during deformation. The formation of fully thin-skinned tectonics in thick and weak foreland sediments, as in the Subandean Ranges, requires the strength of the orogenic upper lithosphere to be less than one-third as strong as that of the foreland upper lithosphere. Our models successfully reproduce foreland deformation patterns in the Central and Southern Andes and the Laramide province.
Fast style transfer methods have recently gained popularity in art-related applications as they make a generalized real-time stylization of images practicable. However, they are mostly limited to one-shot stylizations concerning the interactive adjustment of style elements. In particular, the expressive control over stroke sizes or stroke orientations remains an open challenge. To this end, we propose a novel stroke-adjustable fast style transfer network that enables simultaneous control over the stroke size and intensity, and allows a wider range of expressive editing than current approaches by utilizing the scale-variance of convolutional neural networks. Furthermore, we introduce a network-agnostic approach for style-element editing by applying reversible input transformations that can adjust strokes in the stylized output. At this, stroke orientations can be adjusted, and warping-based effects can be applied to stylistic elements, such as swirls or waves. To demonstrate the real-world applicability of our approach, we present StyleTune, a mobile app for interactive editing of neural style transfers at multiple levels of control. Our app allows stroke adjustments on a global and local level. It furthermore implements an on-device patch-based upsampling step that enables users to achieve results with high output fidelity and resolutions of more than 20 megapixels. Our approach allows users to art-direct their creations and achieve results that are not possible with current style transfer applications.