Search results for "Functions"
showing 10 items of 1066 documents
Contour calculus for many-particle functions
2019
In non-equilibrium many-body perturbation theory, Langreth rules are an efficient way to extract real-time equations from contour ones. However, the standard rules are not applicable in cases that do not reduce to simple convolutions and multiplications. We introduce a procedure for extracting real-time equations from general multi-argument contour functions with an arbitrary number of arguments. This is done for both the standard Keldysh contour, as well as the extended contour with a vertical track that allows for general initial states. This amounts to the generalization of the standard Langreth rules to much more general situations. These rules involve multi-argument retarded functions …
Inferential tools in penalized logistic regression for small and sparse data: A comparative study.
2016
This paper focuses on inferential tools in the logistic regression model fitted by the Firth penalized likelihood. In this context, the Likelihood Ratio statistic is often reported to be the preferred choice as compared to the ‘traditional’ Wald statistic. In this work, we consider and discuss a wider range of test statistics, including the robust Wald, the Score, and the recently proposed Gradient statistic. We compare all these asymptotically equivalent statistics in terms of interval estimation and hypothesis testing via simulation experiments and analyses of two real datasets. We find out that the Likelihood Ratio statistic does not appear the best inferential device in the Firth penal…
The Power of Word-Frequency Based Alignment-Free Functions: a Comprehensive Large-Scale Experimental Analysis
2021
Abstract Motivation Alignment-free (AF) distance/similarity functions are a key tool for sequence analysis. Experimental studies on real datasets abound and, to some extent, there are also studies regarding their control of false positive rate (Type I error). However, assessment of their power, i.e. their ability to identify true similarity, has been limited to some members of the D2 family. The corresponding experimental studies have concentrated on short sequences, a scenario no longer adequate for current applications, where sequence lengths may vary considerably. Such a State of the Art is methodologically problematic, since information regarding a key feature such as power is either mi…
LipiDisease: associate lipids to diseases using literature mining
2021
Abstract Summary Lipids exhibit an essential role in cellular assembly and signaling. Dysregulation of these functions has been linked with many complications including obesity, diabetes, metabolic disorders, cancer and more. Investigating lipid profiles in such conditions can provide insights into cellular functions and possible interventions. Hence the field of lipidomics is expanding in recent years. Even though the role of individual lipids in diseases has been investigated, there is no resource to perform disease enrichment analysis considering the cumulative association of a lipid set. To address this, we have implemented the LipiDisease web server. The tool analyzes millions of recor…
Sample size in cluster-randomized trials with time to event as the primary endpoint
2011
In cluster-randomized trials, groups of individuals (clusters) are randomized to the treatments or interventions to be compared. In many of those trials, the primary objective is to compare the time for an event to occur between randomized groups, and the shared frailty model well fits clustered time-to-event data. Members of the same cluster tend to be more similar than members of different clusters, causing correlations. As correlations affect the power of a trial to detect intervention effects, the clustered design has to be considered in planning the sample size. In this publication, we derive a sample size formula for clustered time-to-event data with constant marginal baseline hazards…
Structure Learning in Nested Effects Models
2007
Nested Effects Models (NEMs) are a class of graphical models introduced to analyze the results of gene perturbation screens. NEMs explore noisy subset relations between the high-dimensional outputs of phenotyping studies, e.g., the effects showing in gene expression profiles or as morphological features of the perturbed cell. In this paper we expand the statistical basis of NEMs in four directions. First, we derive a new formula for the likelihood function of a NEM, which generalizes previous results for binary data. Second, we prove model identifiability under mild assumptions. Third, we show that the new formulation of the likelihood allows efficiency in traversing model space. Fourth, we…
Cutting rules and positivity in finite temperature many-body theory
2022
Abstract For a given diagrammatic approximation in many-body perturbation theory it is not guaranteed that positive observables, such as the density or the spectral function, retain their positivity. For zero-temperature systems we developed a method [2014 Phys. Rev. B 90 115134] based on so-called cutting rules for Feynman diagrams that enforces these properties diagrammatically, thus solving the problem of negative spectral densities observed for various vertex approximations. In this work we extend this method to systems at finite temperature by formulating the cutting rules in terms of retarded N-point functions, thereby simplifying earlier approaches and simultaneously solving the issu…
Role of sub- and super-Poisson noise sources in population dynamics
2020
In this paper we present a study on pulse noise sources characterized by sub- and super-Poisson statistics. We make a comparison with their uncorrelated counterpart. i.e. pulse noise with Poisson statistics, while showing that the correlation properties of sub- and super-Poisson noise sources can be efficiently applied to population dynamics. Specifically, we consider a termite population, described by a Langevin equation in the presence of a pulse noise source, and we study its dynamics and stability properties for two models. The first one describes a population of several colonies in a new territory with adverse environmental conditions. The second one considers the development of a sing…
A stochastic integral of operator-valued functions.
2009
A stochastic integral of operator-valued functions.
Shedding light on typical species: Implications for habitat monitoring
2021
Habitat monitoring in Europe is regulated by Article 17 of the Habitats Directive, which suggests the use of typical species to assess habitat conservation status. Yet, the Directive uses the term “typical” species but does not provide a definition, either for its use in reporting or for its use in impact assessments. To address the issue, an online workshop was organized by the Italian Society for Vegetation Science (SISV) to shed light on the diversity of perspectives regarding the different concepts of typical species, and to discuss the possible implications for habitat monitoring. To this aim, we inquired 73 people with a very different degree of expertise in the field of veget…