No abstract

This paper introduces the R package lavaan.survey, a user-friendly interface to designbased complex survey analysis of structural equation models (SEMs). By leveraging existing code in the lavaan and survey packages, the lavaan.survey package allows for SEM analyses of stratified, clustered, and weighted data, as well as multiply imputed complex survey data. lavaan.survey provides several features such as SEMs with replicate weights, a variety of resampling techniques for complex samples, and finite population corrections, features that should prove useful for SEM practitioners faced with the common situation of a sample that is not iid.

No abstract

Using data from 2 large and overlapping cohorts of Dutch adolescents, containing up to 7 waves of longitudinal data each (N = 2,230), the present study examined Big Five personality trait stability, change, and codevelopment in friendship and sibling dyads from age 12 to 22. Four findings stand out. First, the 1-year rank-order stability of personality traits was already substantial at age 12, increased strongly from early through middle adolescence, and remained rather stable during late adolescence and early adulthood. Second, we found linear mean-level increases in girls' conscientiousness, in both genders' agreeableness, and in boys' openness. We also found temporal dips (i.e., U-shaped mean-level change) in boys' conscientiousness and in girls' emotional stability and extraversion. We did not find a mean-level change in boys' emotional stability and extraversion, and we found an increase followed by a decrease in girls' openness. Third, adolescents showed substantial individual differences in the degree and direction of personality trait changes, especially with respect to conscientiousness, extraversion, and emotional stability. Fourth, we found no evidence for personality trait convergence, for correlated change, or for time-lagged partner effects in dyadic friendship and sibling relationships. This lack of evidence for dyadic codevelopment suggests that adolescent friends and siblings tend to change independently from each other and that their shared experiences do not have uniform influences on their personality traits. (PsycINFO Database Record

To help researchers conduct a systematic review or meta-analysis as efficiently and transparently as possible, we designed a tool to accelerate the step of screening titles and abstracts. For many tasks—including but not limited to systematic reviews and meta-analyses—the scientific literature needs to be checked systematically. Scholars and practitioners currently screen thousands of studies by hand to determine which studies to include in their review or meta-analysis. This is error prone and inefficient because of extremely imbalanced data: only a fraction of the screened studies is relevant. The future of systematic reviewing will be an interaction with machine learning algorithms to deal with the enormous increase of available text. We therefore developed an open source machine learning-aided pipeline applying active learning: ASReview. We demonstrate by means of simulation studies that active learning can yield far more efficient reviewing than manual reviewing while providing high quality. Furthermore, we describe the options of the free and open source research software and present the results from user experience tests. We invite the community to contribute to open source projects such as our own that provide measurable and reproducible improvements over current practice.

Temperature is a primary driver of the distribution of biodiversity as well as of ecosystem boundaries. Declining temperature with increasing elevation in montane systems has long been recognized as a major factor shaping plant community biodiversity, metabolic processes, and ecosystem dynamics. Elevational gradients, as thermoclines, also enable prediction of long-term ecological responses to climate warming. One of the most striking manifestations of increasing elevation is the abrupt transitions from forest to treeless alpine tundra. However, whether there are globally consistent above- and belowground responses to these transitions remains an open question. To disentangle the direct and indirect effects of temperature on ecosystem properties, here we evaluate replicate treeline ecotones in seven temperate regions of the world. We find that declining temperatures with increasing elevation did not affect tree leaf nutrient concentrations, but did reduce ground-layer community-weighted plant nitrogen, leading to the strong stoichiometric convergence of ground-layer plant community nitrogen to phosphorus ratios across all regions. Further, elevation-driven changes in plant nutrients were associated with changes in soil organic matter content and quality (carbon to nitrogen ratios) and microbial properties. Combined, our identification of direct and indirect temperature controls over plant communities and soil properties in seven contrasting regions suggests that future warming may disrupt the functional properties of montane ecosystems, particularly where plant community reorganization outpaces treeline advance.

In linear regression problems with many predictors, penalized regression techniques are often used to guard against overfitting and to select variables relevant for predicting an outcome variable. Recently, Bayesian penalization is becoming increasingly popular in which the prior distribution performs a function similar to that of the penalty term in classical penalization. Specifically, the so-called shrinkage priors in Bayesian penalization aim to shrink small effects to zero while maintaining true large effects. Compared to classical penalization techniques, Bayesian penalization techniques perform similarly or sometimes even better, and they offer additional advantages such as readily available uncertainty estimates, automatic estimation of the penalty parameter, and more flexibility in terms of penalties that can be considered. However, many different shrinkage priors exist and the available, often quite technical, literature primarily focuses on presenting one shrinkage prior and often provides comparisons with only one or two other shrinkage priors. This can make it difficult for researchers to navigate through the many prior options and choose a shrinkage prior for the problem at hand. Therefore, the aim of this paper is to provide a comprehensive overview of the literature on Bayesian penalization. We provide a theoretical and conceptual comparison of nine different shrinkage priors and parametrize the priors, if possible, in terms of scale mixture of normal distributions to facilitate comparisons. We illustrate different characteristics and behaviors of the shrinkage priors and compare their performance in terms of prediction and variable selection in a simulation study. Additionally, we provide two empirical examples to illustrate the application of Bayesian penalization. Finally, an R package bayesreg is available online (https://github.com/sara-vanerp/bayesreg) which allows researchers to perform Bayesian penalized regression with novel shrinkage priors in an easy manner.

Latent class analysis is used in the political science literature in both substantive applications and as a tool to estimate measurement error. Many studies in the social and political sciences relate estimated class assignments from a latent class model to external variables. Although common, such a “three-step” procedure effectively ignores classification error in the class assignments; Vermunt (2010, “Latent class modeling with covariates: Two improved three-step approaches,” Political Analysis 18:450–69) showed that this leads to inconsistent parameter estimates and proposed a correction. Although this correction for bias is now implemented in standard software, inconsistency is not the only consequence of classification error. We demonstrate that the correction method introduces an additional source of variance in the estimates, so that standard errors and confidence intervals are overly optimistic when not taking this into account. We derive the asymptotic variance of the third-step estimates of interest, as well as several candidate-corrected sample estimators of the standard errors. These corrected standard error estimators are evaluated using a Monte Carlo study, and we provide practical advice to researchers as to which should be used so that valid inferences can be obtained when relating estimated class membership to external variables.