MODISTools - downloading and processing MODIS remotely sensed data in R

Remotely sensed data – available at medium to high resolution across global spatial and temporal scales – are a valuable resource for ecologists. In particular, products from NASA's MODerate-resolution Imaging Spectroradiometer (MODIS), providing twice-daily global coverage, have been widely used for ecological applications. We present MODISTools, an R package designed to improve the accessing, downloading, and processing of remotely sensed MODIS data. MODISTools automates the process of data downloading and processing from any number of locations, time periods, and MODIS products. This automation reduces the risk of human error, and the researcher effort required compared to manual per-location downloads. The package will be particularly useful for ecological studies that include multiple sites, such as meta-analyses, observation networks, and globally distributed experiments. We give examples of the simple, reproducible workflow that MODISTools provides and of the checks that are carried out in the process. The end product is in a format that is amenable to statistical modeling. We analyzed the relationship between species richness across multiple higher taxa observed at 526 sites in temperate forests and vegetation indices, measures of aboveground net primary productivity. We downloaded MODIS derived vegetation index time series for each location where the species richness had been sampled, and summarized the data into three measures: maximum time-series value, temporal mean, and temporal variability. On average, species richness covaried positively with our vegetation index measures. Different higher taxa show different positive relationships with vegetation indices. Models had high R2 values, suggesting higher taxon identity and a gradient of vegetation index together explain most of the variation in species richness in our data. MODISTools can be used on Windows, Mac, and Linux platforms, and is available from CRAN and GitHub (https://github.com/seantuck12/MODISTools)

Geometric quantization of Hamiltonian actions of Lie algebroids and Lie groupoids

We construct Hermitian representations of Lie algebroids and associated unitary representations of Lie groupoids by a geometric quantization procedure. For this purpose we introduce a new notion of Hamiltonian Lie algebroid actions. The first step of our procedure consists of the construction of a prequantization line bundle. Next, we discuss a version of K\"{a}hler quantization suitable for this setting. We proceed by defining a Marsden-Weinstein quotient for our setting and prove a ``quantization commutes with reduction'' theorem. We explain how our geometric quantization procedure relates to a possible orbit method for Lie groupoids. Our theory encompasses the geometric quantization of symplectic manifolds, Hamiltonian Lie algebra actions, actions of families of Lie groups, foliations, as well as some general constructions from differential geometry.Comment: 40 pages, corrected version 11-01-200

Challenging medical students with an interim assessment: a positive effect on formal examination score in a randomized controlled study

Until now, positive effects of assessment at a medical curriculum level have not been demonstrated. This study was performed to determine whether an interim assessment, taken during a small group work session of an ongoing biomedical course, results in students’ increased performance at the formal course examination. A randomized controlled trial was set up, with an interim assessment without explicit feedback as intervention. It was performed during a regular biomedical Bachelor course of 4 weeks on General Pathology at the Radboud University Nijmegen Medical Centre. Participants were 326 medical and 91 biomedical science students divided into three study arms: arm Intervention-1 (I-1) receiving one interim assessment; arm I-2 receiving two interim assessments, and control arm C, receiving no interim assessment. The study arms were stratified for gender and study discipline. The interim assessment consisted of seven multiple-choice questions on tumour pathology. Main outcome measures were overall score of the formal examination (scale 1–10), and the subscore of the questions on tumour pathology (scale 1–10). We found that students who underwent an interim assessment (arm I) had a 0.29-point (scale 1–10) higher score on the formal examination than the control group (p = 0.037). For the questions in the formal examination on tumour pathology the score amounted to 0.47 points higher (p = 0.007), whereas it was 0.17 points higher for the questions on topics related to the previous 3 weeks. No differences in formal examination score were found between arms I-1 and I-2 (p = 0.817). These findings suggest that an interim assessment during a small group work session in a randomized study setting stimulates students to increase their formal examination score

Atmospheric boundary layer wind profile at a flat coastal site – wind speed lidar measurements and mesoscale modeling results

Wind profiles up to 600 m height are investigated. Measurements of mean wind speed profiles were obtained from a novel wind lidar and compared to model simulations from a mesoscale model (WRF-ARW v3.1). It is found that WRF is able to predict the mean wind profile rather well and typically within 1–2 m s^−1 to the individual measured values. WRF underpredicts the normalized wind profile, especially for stable conditions. The effect of baroclinicity on the upper part of the wind profile is discussed