SWEEPFINDER2: Increased sensitivity, robustness, and flexibility

SweepFinder is a popular program that implements a powerful likelihood-based method for detecting recent positive selection, or selective sweeps. Here, we present SweepFinder2, an extension of SweepFinder with increased sensitivity and robustness to the confounding effects of mutation rate variation and background selection, as well as increased flexibility that enables the user to examine genomic regions in greater detail and to specify a fixed distance between test sites. Moreover, SweepFinder2 enables the use of invariant sites for sweep detection, increasing both its power and precision relative to SweepFinder

K2P2^2 −- A photometry pipeline for the K2 mission

With the loss of a second reaction wheel, resulting in the inability to point continuously and stably at the same field of view, the NASA Kepler satellite recently entered a new mode of observation known as the K2 mission. The data from this redesigned mission present a specific challenge; the targets systematically drift in position on a ~6 hour time scale, inducing a significant instrumental signal in the photometric time series --- this greatly impacts the ability to detect planetary signals and perform asteroseismic analysis. Here we detail our version of a reduction pipeline for K2 target pixel data, which automatically: defines masks for all targets in a given frame; extracts the target's flux- and position time series; corrects the time series based on the apparent movement on the CCD (either in 1D or 2D) combined with the correction of instrumental and/or planetary signals via the KASOC filter (Handberg & Lund 2014), thus rendering the time series ready for asteroseismic analysis; computes power spectra for all targets, and identifies potential contaminations between targets. From a test of our pipeline on a sample of targets from the K2 campaign 0, the recovery of data for multiple targets increases the amount of potential light curves by a factor ${\geq}10$. Our pipeline could be applied to the upcoming TESS (Ricker et al. 2014) and PLATO 2.0 (Rauer et al. 2013) missions.Comment: 14 pages, 20 figures, Accepted for publication in The Astrophysical Journal (Apj

Location-Quality-aware Policy Optimisation for Relay Selection in Mobile Networks

Relaying can improve the coverage and performance of wireless access networks. In presence of a localisation system at the mobile nodes, the use of such location estimates for relay node selection can be advantageous as such information can be collected by access points in linear effort with respect to number of mobile nodes (while the number of links grows quadratically). However, the localisation error and the chosen update rate of location information in conjunction with the mobility model affect the performance of such location-based relay schemes; these parameters also need to be taken into account in the design of optimal policies. This paper develops a Markov model that can capture the joint impact of localisation errors and inaccuracies of location information due to forwarding delays and mobility; the Markov model is used to develop algorithms to determine optimal location-based relay policies that take the aforementioned factors into account. The model is subsequently used to analyse the impact of deployment parameter choices on the performance of location-based relaying in WLAN scenarios with free-space propagation conditions and in an measurement-based indoor office scenario.Comment: Accepted for publication in ACM/Springer Wireless Network

Finite-temperature behavior of the Bose polaron

We consider a mobile impurity immersed in a Bose gas at finite temperature. Using perturbation theory valid for weak coupling between the impurity and the bosons, we derive analytical results for the energy and damping of the impurity for low and high temperatures, as well as for temperatures close to the critical temperature $T_c$ for Bose-Einstein condensation. These results show that the properties of the impurity vary strongly with temperature. In particular, the energy exhibits a non-monotonic behavior close to $T_c$, and the damping rises sharply close to $T_c$. We argue that this behaviour is generic for impurities immersed in an environment undergoing a phase transition that breaks a continuous symmetry. Finally, we discuss how these effects can be detected experimentally.Comment: 10 pages and 6 figure

Comparison of forest attributes derived from two terrestrial lidar systems.

Abstract Terrestrial lidar (TLS) is an emerging technology for deriving forest attributes, including conventional inventory and canopy characterizations. However, little is known about the influence of scanner specifications on derived forest parameters. We compared two TLS systems at two sites in British Columbia. Common scanning benchmarks and identical algorithms were used to obtain estimates of tree diameter, position, and canopy characteristics. Visualization of range images and point clouds showed clear differences, even though both scanners were relatively high-resolution instruments. These translated into quantifiable differences in impulse penetration, characterization of stems and crowns far from the scan location, and gap fraction. Differences between scanners in estimates of effective plant area index were greater than differences between sites. Both scanners provided a detailed digital model of forest structure, and gross structural characterizations (including crown dimensions and position) were relatively robust; but comparison of canopy density metrics may require consideration of scanner attributes

Pinning an Ion with an Intracavity Optical Lattice

We report one-dimensional pinning of a single ion by an optical lattice. The lattice potential is produced by a standing-wave cavity along the rf-field-free axis of a linear Paul trap. The ion's localization is detected by measuring its fluorescence when excited by standing-wave fields with the same period, but different spatial phases. The experiments agree with an analytical model of the localization process, which we test against numerical simulations. For the best localization achieved, the ion's average coupling to the cavity field is enhanced from 50% to 81(3)% of its maximum possible value, and we infer that the ion is bound in a lattice well with over 97% probability.Comment: 5 pages, 4 figures; Text edited for clarity, results unchange

Gaussian-Charge Polarizable Interaction Potential for Carbon Dioxide

A number of simple pair interaction potentials of the carbon dioxide molecule are investigated and found to underestimate the magnitude of the second virial coefficient in the temperature interval 220 K to 448 K by up to 20%. Also the third virial coefficient is underestimated by these models. A rigid, polarizable, three-site interaction potential reproduces the experimental second and third virial coefficients to within a few percent. It is based on the modified Buckingham exp-6 potential, an anisotropic Axilrod-Teller correction and Gaussian charge densities on the atomic sites with an inducible dipole at the center of mass. The electric quadrupole moment, polarizability and bond distances are set to equal experiment. Density of the fluid at 200 and 800 bars pressure is reproduced to within some percent of observation over the temperature range 250 K to 310 K. The dimer structure is in passable agreement with electronically resolved quantum-mechanical calculations in the literature, as are those of the monohydrated monomer and dimer complexes using the polarizable GCPM water potential. Qualitative agreement with experiment is also obtained, when quantum corrections are included, for the relative stability of the trimer conformations, which is not the case for the pair potentials.Comment: Error in the long-range correction fixed and three-body dispersion introduced. 32 pages (incl. title page), 7 figures, 9 tables, double-space