Estimate model parameters to determine whether two compounds have synergy, antagonism, or Loewe's Additivity.

This package provides a diverse collection of georeferenced and spatial datasets from different domains including urban studies, housing markets, environmental monitoring, transportation, and socio-economic indicators. The package consolidates datasets from multiple open sources such as Kaggle, chopin, spData, adespatial, and bivariateLeaflet. It is designed for researchers, analysts, and educators interested in spatial analysis, geostatistics, and geographic data visualization. The datasets include point patterns, polygons, socio-economic data frames, and network-like structures, allowing flexible exploration of geospatial phenomena.

Miscellaneous scripts, e.g. functionality to make and plot factor diagrams for the statistical design.

Fast binning of multiple variables using parallel processing. A summary of all the variables binned is generated which provides the information value, entropy, an indicator of whether the variable follows a monotonic trend or not, etc. It supports rebinning of variables to force a monotonic trend as well as manual binning based on pre specified cuts. The cut points of the bins are based on conditional inference trees as implemented in the partykit package. The conditional inference framework is described by Hothorn T, Hornik K, Zeileis A (2006) <doi:10.1198/106186006X133933>.

Estimation of the local false discovery rate using the method of moments.

Assess the proportion of treatment effect explained by a longitudinal surrogate marker as described in Agniel D and Parast L (2021) <doi:10.1111/biom.13310>; and estimate the treatment effect on a longitudinal surrogate marker as described in Wang et al. (2025) <doi:10.1093/biomtc/ujaf104>. A tutorial for this package can be found at <https://www.laylaparast.com/longsurr>.

Given independent and identically distributed observations X(1), ..., X(n), compute the maximum likelihood estimator (MLE) of a density as well as a smoothed version of it under the assumption that the density is log-concave, see Rufibach (2007) and Duembgen and Rufibach (2009). The main function of the package is logConDens that allows computation of the log-concave MLE and its smoothed version. In addition, we provide functions to compute (1) the value of the density and distribution function estimates (MLE and smoothed) at a given point (2) the characterizing functions of the estimator, (3) to sample from the estimated distribution, (5) to compute a two-sample permutation test based on log-concave densities, (6) the ROC curve based on log-concave estimates within cases and controls, including confidence intervals for given values of false positive fractions (7) computation of a confidence interval for the value of the true density at a fixed point. Finally, three datasets that have been used to illustrate log-concave density estimation are made available.

Trend filtering is a widely used nonparametric method for knot detection. This package provides an efficient solution for L0 trend filtering, avoiding the traditional methods of using Lagrange duality or Alternating Direction Method of Multipliers algorithms. It employ a splicing approach that minimizes L0-regularized sparse approximation by transforming the L0 trend filtering problem. The package excels in both efficiency and accuracy of trend estimation and changepoint detection in segmented functions. References: Wen et al. (2020) <doi:10.18637/jss.v094.i04>; Zhu et al. (2020)<doi:10.1073/pnas.2014241117>; Wen et al. (2023) <doi:10.1287/ijoc.2021.0313>.

Turn a LimeSurvey .lss survey export into a publication-quality questionnaire document in Word ('.docx') or PDF, with up to four of the survey's own languages side by side. Every label the package adds around that content -- column headers, type names, the audit section -- is written in English, French, German, Spanish or Italian, whatever the survey languages are. A rule-based audit flags missing translations, forward filter references, duplicate codes, array-scale inconsistencies and orphan structural references. Questionnaires travel the other way too: describe one in R, or fill in a Word form, and write a .lss file ready to import. Meant for the people who work on questionnaires -- researchers, methodologists, ethics committees, translators and reviewers -- and fully local: the source file is the only input, and no questionnaire content is uploaded to a third-party service.

Fits sex-specific life-history models for fish and other taxa where some of the individuals have unknown sex.

Letter Values for the course Exploratory Data Analysis at Federal University of Bahia (Brazil). The approach implemented in the package is presented in the textbook of Tukey (1977) <ISBN: 978-0201076165>.

Extracts zip files, converts Word', Excel', and html'/'htm files to pdf format. Word and Excel conversion uses VBScript', while html'/'htm conversion uses webshot and PhantomJS'. Additionally, the package merges pdf files into a single document. This package is only supported on Windows due to VBScript dependencies.

Transforms away factors with many levels prior to doing an OLS. Useful for estimating linear models with multiple group fixed effects, and for estimating linear models which uses factors with many levels as pure control variables. See Gaure (2013) <doi:10.1016/j.csda.2013.03.024> Includes support for instrumental variables, conditional F statistics for weak instruments, robust and multi-way clustered standard errors, as well as limited mobility bias correction (Gaure 2014 <doi:10.1002/sta4.68>). Since version 3.0, it provides dedicated functions to estimate Poisson models.

Detect feedback loops (cycles, circuits) between species (nodes) in ordinary differential equation (ODE) models. Feedback loops are paths from a node to itself without visiting any other node twice, and they have important regulatory functions. Loops are reported with their order of participating nodes and their length, and whether the loop is a positive or a negative feedback loop. An upper limit of the number of feedback loops limits runtime (which scales with feedback loop count). Model parametrizations and values of the modelled variables are accounted for. Computation uses the characteristics of the Jacobian matrix as described e.g. in Thomas and Kaufman (2002) <doi:10.1016/s1631-0691(02)01452-x>. Input can be the Jacobian matrix of the ODE model or the ODE function definition; in the latter case, the Jacobian matrix is determined using numDeriv'. Graph-based algorithms from igraph are employed for path detection.

Calculates insurance reserves and equivalence premiums using advanced numerical methods, including the Runge-Kutta algorithm and product integrals for transition probabilities. This package is useful for actuarial analyses and life insurance modeling, facilitating accurate financial projections.

Highly optimized toolkit for approximately solving L0-regularized learning problems (a.k.a. best subset selection). The algorithms are based on coordinate descent and local combinatorial search. For more details, check the paper by Hazimeh and Mazumder (2020) <doi:10.1287/opre.2019.1919>.

This package provides a framework that allows for easy logging of changes in data. Main features: start tracking changes by adding a single line of code to an existing script. Track changes in multiple datasets, using multiple loggers. Add custom-built loggers or use loggers offered by other packages. <doi:10.18637/jss.v098.i01>.

This package provides tools to create an interactive web-based visualization of a topic model that has been fit to a corpus of text data using Latent Dirichlet Allocation (LDA). Given the estimated parameters of the topic model, it computes various summary statistics as input to an interactive visualization built with D3.js that is accessed via a browser. The goal is to help users interpret the topics in their LDA topic model.

Fit linear models based on periodic splines, moderate model coefficients using multivariate adaptive shrinkage, then compute properties of the moderated curves.

This package implements the Leunbach test equating method, following the DIGRAM software written by Svend Kreiner. Both direct and indirect equating are available, with parametric bootstrap standard errors and diagnostic statistics including the Goodman-Kruskal gamma test and orbit analysis for person fit. See Adroher et al. (2019) <doi:10.1186/s12874-019-0768-y> for details of the method.

This package provides tools to help storing and handling case line list data. The linelist class adds a tagging system to classical data.frame objects to identify key epidemiological data such as dates of symptom onset, epidemiological case definition, age, gender or disease outcome. Once tagged, these variables can be seamlessly used in downstream analyses, making data pipelines more robust and reliable.

Libreria di dati, scripts e funzioni che accompagna il libro "Ricerca sociale con R. Concetti e funzioni base per la ricerca sociale".

Runtime for serving containers that can execute R code on the AWS Lambda serverless compute service <https://aws.amazon.com/lambda/>. Provides the necessary functionality for handling the various endpoints required for accepting new input and sending responses.

This package provides a collection of helper functions for multiple regression models fitted by lm(). Most of them are simple functions for simple tasks which can be done with coding, but may not be easy for occasional users of R. Most of the tasks addressed are those sometimes needed when using the manymome package (Cheung and Cheung, 2023, <doi:10.3758/s13428-023-02224-z>) and stdmod package (Cheung, Cheung, Lau, Hui, and Vong, 2022, <doi:10.1037/hea0001188>). However, they can also be used in other scenarios.