ranacapa: An R package and Shiny web app to explore environmental DNA data with exploratory statistics and interactive visualizations.

Environmental DNA (eDNA) metabarcoding is becoming a core tool in ecology and conservation biology, and is being used in a growing number of education, biodiversity monitoring, and public outreach programs in which professional research scientists engage community partners in primary research. Results from eDNA analyses can engage and educate natural resource managers, students, community scientists, and naturalists, but without significant training in bioinformatics, it can be difficult for this diverse audience to interact with eDNA results. Here we present the R package ranacapa, at the core of which is a Shiny web app that helps perform exploratory biodiversity analyses and visualizations of eDNA results. The app requires a taxonomy-by-sample matrix and a simple metadata file with descriptive information about each sample. The app enables users to explore the data with interactive figures and presents results from simple community ecology analyses. We demonstrate the value of ranacapa to two groups of community partners engaging with eDNA metabarcoding results

Organ Donation and Utilization in the United States, 1997–2006

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/75743/1/j.1600-6143.2008.02171.x.pd

Using the etalon effect for in-situ balancing of the Advanced Virgo arm cavities

Several large-scale interferometric gravitational-wave detectors use resonant arm cavities to enhance the light power in the interferometer arms. These cavities are based on different optical designs: One design uses wedged input mirrors to create additional optical pick-off ports for deriving control signals. The second design employs input mirrors without wedge and thus offers the possibility to use the etalon effect inside the input mirrors for tuning the finesse of the arm cavities. In this article we introduce a concept of maximized flexibility that combines both of these options, by featuring wedges at the input mirrors and using the etalon effect instead in the end mirrors. We present a design for the arm cavities of Advanced Virgo. We have used numerical simulations to derive requirements for the manufacturing accuracy of an end mirror etalon for Advanced Virgo. Furthermore, we give analytical approximations for the achievable tuning range of the etalon in dependence on the reflectance, the curvature and the orientation of the etalon back surface.Comment: 12 pages, 6 Figure

Non-mean-field theory of anomalously large double-layer capacitance

Mean-field theories claim that the capacitance of the double-layer formed at a metal/ionic conductor interface cannot be larger than that of the Helmholtz capacitor, whose width is equal to the radius of an ion. However, in some experiments the apparent width of the double-layer capacitor is substantially smaller. We propose an alternate, non-mean-field theory of the ionic double-layer to explain such large capacitance values. Our theory allows for the binding of discrete ions to their image charges in the metal, which results in the formation of interface dipoles. We focus primarily on the case where only small cations are mobile and other ions form an oppositely-charged background. In this case, at small temperature and zero applied voltage dipoles form a correlated liquid on both contacts. We show that at small voltages the capacitance of the double-layer is determined by the transfer of dipoles from one electrode to the other and is therefore limited only by the weak dipole-dipole repulsion between bound ions, so that the capacitance is very large. At large voltages the depletion of bound ions from one of the capacitor electrodes triggers a collapse of the capacitance to the much smaller mean-field value, as seen in experimental data. We test our analytical predictions with a Monte Carlo simulation and find good agreement. We further argue that our ``one-component plasma" model should work well for strongly asymmetric ion liquids. We believe that this work also suggests an improved theory of pseudo-capacitance.Comment: 19 pages, 14 figures; some Monte Carlo results and a section about aqueous solutions adde

Probing seed black holes using future gravitational-wave detectors

Identifying the properties of the first generation of seeds of massive black holes is key to understanding the merger history and growth of galaxies. Mergers between ~100 solar mass seed black holes generate gravitational waves in the 0.1-10Hz band that lies between the sensitivity bands of existing ground-based detectors and the planned space-based gravitational wave detector, the Laser Interferometer Space Antenna (LISA). However, there are proposals for more advanced detectors that will bridge this gap, including the third generation ground-based Einstein Telescope and the space-based detector DECIGO. In this paper we demonstrate that such future detectors should be able to detect gravitational waves produced by the coalescence of the first generation of light seed black-hole binaries and provide information on the evolution of structure in that era. These observations will be complementary to those that LISA will make of subsequent mergers between more massive black holes. We compute the sensitivity of various future detectors to seed black-hole mergers, and use this to explore the number and properties of the events that each detector might see in three years of observation. For this calculation, we make use of galaxy merger trees and two different seed black hole mass distributions in order to construct the astrophysical population of events. We also consider the accuracy with which networks of future ground-based detectors will be able to measure the parameters of seed black hole mergers, in particular the luminosity distance to the source. We show that distance precisions of ~30% are achievable, which should be sufficient for us to say with confidence that the sources are at high redshift.Comment: 14 pages, 6 figures, 2 tables, accepted for proceedings of 13th GWDAW meetin

Control sideband generation for dual-recycled laser interferometric gravitational wave detectors

We present a discussion of the problems associated with generation of multiple control sidebands for length sensing and control of dual-recycled, cavity-enhanced Michelson interferometers and the motivation behind more complicated sideband generation methods. We focus on the Mach–Zehnder interferometer as a topological solution to the problem and present results from tests carried out at the Caltech 40 m prototype gravitational wave detector. The consequences for sensing and control for advanced interferometry are discussed, as are the implications for future interferometers such as Advanced LIGO

Revisit relic gravitational waves based on the latest CMB observations

According to the CMB observations, Mielczarek (\cite{Mielczarek}) evaluated the reheating temperature, which could help to determine the history of the Universe. In this paper, we recalculate the reheating temperature using the new data from WMAP 7 observations. Based on that, we list the approximate solutions of relic gravitational waves (RGWs) for various frequency bands. With the combination of the quantum normalization of RGWs when they are produced and the CMB observations, we obtain the relation between the tensor-to-scalar ratio $r$ and the inflation index $\beta$ for a given scalar spectral index $n_s$. As a comparison, the diagram $r-\beta$ in the slow-roll inflation model is also given. Thus, the observational limits of $r$ from CMB lead to the constraints on the value of $\beta$. Then, we illustrate the energy density spectrum of RGWs with the quantum normalization for different values of $r$ and the corresponding $\beta$. For comparison, the energy density spectra of RGWs with parameters based on slow-roll inflation are also discussed. We find that the values of $n_s$ affect the spectra of RGWs sensitively in the very high frequencies. Based on the current and planed gravitational wave detectors, we discuss the detectabilities of RGWs.Comment: 16 pages, 6 figures, accepted for publication in Class. Quantum Gra

Recipient Morbidity After Living and Deceased Donor Liver Transplantation: Findings from the A2ALL Retrospective Cohort Study †

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/72284/1/j.1600-6143.2008.02440.x.pd

Cosmography with the Einstein Telescope

Einstein Telescope (ET) is a 3rd generation gravitational-wave (GW) detector that is currently undergoing a design study. ET can detect millions of compact binary mergers up to redshifts 2-8. A small fraction of mergers might be observed in coincidence as gamma-ray bursts, helping to measure both the luminosity distance and red-shift to the source. By fitting these measured values to a cosmological model, it should be possible to accurately infer the dark energy equation-of-state, dark matter and dark energy density parameters. ET could, therefore, herald a new era in cosmology.Comment: 4 pages, 2 figure