Maximum likelihood estimation for stochastic frontier analysis (SFA) of production (profit) and cost functions. The package includes the basic stochastic frontier for cross-sectional or pooled data with several distributions for the one-sided error term (i.e., Rayleigh, gamma, Weibull, lognormal, uniform, generalized exponential and truncated skewed Laplace), the latent class stochastic frontier model (LCM) as described in Dakpo et al. (2021) <doi:10.1111/1477-9552.12422>, for cross-sectional and pooled data, and the sample selection model as described in Greene (2010) <doi:10.1007/s11123-009-0159-1>, and applied in Dakpo et al. (2021) <doi:10.1111/agec.12683>. Several possibilities in terms of optimization algorithms are proposed.

Generate an invoice containing a header with invoice number and businesses details. The invoice table contains any of: salary, one-liner costs, grouped costs. Under the table signature and bank account details appear. Pages are numbered when more than one. Source .json and .Rmd files are editable in the app. A .csv file with raw data can be downloaded. This package includes functions for getting exchange rates between currencies based on quantmod (Ryan and Ulrich, 2023 <https://CRAN.R-project.org/package=quantmod>).

Fits and analyzes simplex regression models with either fixed or parametric mean link functions. Implements the simplex probability density function, cumulative distribution function, quantile function, random number generation, and variance evaluation. Offers several fixed and parametric link functions for the mean submodel, tools for residual analysis and diagnostic plotting, hypothesis testing procedures, and influence measures such as Cook's distance and leverage (hat values). Includes the Scout Score (SS) criterion for model selection, enabling comprehensive inference and diagnostic analysis within the simplex regression framework. For more details see Barndorff-Nielsen and Jorgensen (1991) <doi:10.1016/0047-259X(91)90008-P> and Justino and Cribari-Neto (2026) <doi:10.1016/j.apm.2025.116713>.

Builds regression trees and random forests for longitudinal or functional data using a spline projection method. Implements and extends the work of Yu and Lambert (1999) <doi:10.1080/10618600.1999.10474847>. This method allows trees and forests to be built while considering either level and shape or only shape of response trajectories.

Run complex native scripts with a single command, similar to system commands.

Optimal hard thresholding of singular values. The procedure adaptively estimates the best singular value threshold under unknown noise characteristics. The threshold chosen by ScreeNOT is optimal (asymptotically, in the sense of minimum Frobenius error) under the the so-called "Spiked model" of a low-rank matrix observed in additive noise. In contrast to previous works, the noise is not assumed to be i.i.d. or white; it can have an essentially arbitrary and unknown correlation structure, across either rows, columns or both. ScreeNOT is proposed to practitioners as a mathematically solid alternative to Cattell's ever-popular but vague Scree Plot heuristic from 1966. If you use this package, please cite our paper: David L. Donoho, Matan Gavish and Elad Romanov (2023). "ScreeNOT: Exact MSE-optimal singular value thresholding in correlated noise." Annals of Statistics, 2023 (To appear). <arXiv:2009.12297>.

This package provides a comprehensive logging framework for R applications that provides hierarchical logging levels, database integration, and contextual logging capabilities. The package supports SQLite storage for persistent logs, provides colour-coded console output for better readability, includes parallel processing support, and implements structured error reporting with JSON formatting.

This package provides tools for smoothing and tidying spatial features (i.e. lines and polygons) to make them more aesthetically pleasing. Smooth curves, fill holes, and remove small fragments from lines and polygons.

It builds dynamic R shiny based dashboards to analyze any CSV files. It provides simple dashboard design to subset the data, perform exploratory data analysis and preliminary machine learning (supervised and unsupervised). It also provides filters based on columns of interest.

This package provides a probability tree allows to compute probabilities of complex events, such as genotype probabilities in intermediate generations of inbreeding through recurrent self-fertilization (selfing). This package implements functionality to compute probability trees for two- and three-marker genotypes in the F2 to F7 selfing generations. The conditional probabilities are derived automatically and in symbolic form. The package also provides functionality to extract and evaluate the relevant probabilities.

This package implements Multivariate ANalysis Of VAriance (MANOVA) parameters inference and test with regularization for semicontinuous high-dimensional data. The method can be applied also in presence of low-dimensional data. The p-value can be obtained through asymptotic distribution or using a permutation procedure. The package gives also the possibility to simulate this type of data. Method is described in Elena Sabbioni, Claudio Agostinelli and Alessio Farcomeni (2025) A regularized MANOVA test for semicontinuous high-dimensional data. Biometrical Journal, 67:e70054. DOI <doi:10.1002/bimj.70054>, arXiv DOI <doi:10.48550/arXiv.2401.04036>.

This package provides a robust solution employing the SRS (Simple Random Sampling), systematic and PPS (Probability Proportional to Size) sampling methods, ensuring a methodical and representative selection of data. Seamlessly allocate predetermined allocations to smaller levels.

This package provides a flexible moving average algorithm for modeling drug exposure in pharmacoepidemiology studies as presented in the article: Ouchi, D., Giner-Soriano, M., Gómez-Lumbreras, A., Vedia Urgell, C.,Torres, F., & Morros, R. (2022). "Automatic Estimation of the Most Likely Drug Combination in Electronic Health Records Using the Smooth Algorithm : Development and Validation Study." JMIR medical informatics, 10(11), e37976. <doi:10.2196/37976>.

Simulation of simple and complex survival data including recurrent and multiple events and competing risks. See Moriña D, Navarro A. (2014) <doi:10.18637/jss.v059.i02> and Moriña D, Navarro A. (2017) <doi:10.1080/03610918.2016.1175621>.

This package provides fundamental function support for SigBridgeR and its single-cell phenotypic screening algorithm, including optional functions.

Calculating home ranges and movements of animals in complex stream environments is often challenging, and standard home range estimators do not apply. This package provides a series of tools for assessing movements in a stream network, such as calculating the total length of stream used, distances between points, and movement patterns over time. See Vignette for additional details. This package was originally released on GitHub under the name SNM'. SNMA was developed for analyses in McKnight et al. (2025) <doi:10.3354/esr01442> which contains additional examples and information.

This package provides tools to compute and analyze the set of statistically-equivalent (Gaussian, linear) path models which generate the input precision or (partial) correlation matrix. This procedure is useful for understanding how statistical network models such as the Gaussian Graphical Model (GGM) perform as causal discovery tools. The statistical-equivalence set of a given GGM expresses the uncertainty we have about the sign, size and direction of directed relationships based on the weights matrix of the GGM alone. The derivation of the equivalence set and its use for understanding GGMs as causal discovery tools is described by Ryan, O., Bringmann, L.F., & Schuurman, N.K. (2022) <doi: 10.31234/osf.io/ryg69>.

Simple bootstrap routines.

Identifying cell types based on expression profiles is a pillar of single cell analysis. scROSHI identifies cell types based on expression profiles of single cell analysis by utilizing previously obtained cell type specific gene sets. It takes into account the hierarchical nature of cell type relationship and does not require training or annotated data. A detailed description of the method can be found at: Michael Prummer, Anne Bertolini, Lars Bosshard, Florian Barkmann, Josephine Yates, Valentina Boeva, The Tumor Profiler Consortium , Daniel Stekhoven, Franziska Singer, scROSHI: robust supervised hierarchical identification of single cells, NAR Genomics and Bioinformatics, Volume 5, Issue 2, June 2023, lqad058, <doi:10.1093/nargab/lqad058>.

User-friendly functions which parse output of command line programs used to query Slurm. Morris A. Jette and Tim Wickberg (2023) <doi:10.1007/978-3-031-43943-8_1> describe Slurm in detail.

Given independent and identically distributed observations X(1), ..., X(n) from a Generalized Pareto distribution with shape parameter gamma in [-1,0], offers several estimates to compute estimates of gamma. The estimates are based on the principle of replacing the order statistics by quantiles of a distribution function based on a log--concave density function. This procedure is justified by the fact that the GPD density is log--concave for gamma in [-1,0].

Speeds up the process of loading raw data from MBA (Multiplex Bead Assay) examinations, performs quality control checks, and automatically normalises the data, preparing it for more advanced, downstream tasks. The main objective of the package is to create a simple environment for a user, who does not necessarily have experience with R language. The package is developed within the project PvSTATEM', which is an international project aiming for malaria elimination.

This package provides utility functions for validation and quality control of clinical trial datasets and outputs across SDTM', ADaM and TFL workflows. The package supports dataset loading, metadata inspection, frequency and summary calculations, table-ready aggregations, and compare-style dataset review similar to SAS PROC COMPARE'. Functions are designed to support reproducible execution, transparent review, and independent verification of statistical programming results. Dataset comparisons may leverage arsenal <https://cran.r-project.org/package=arsenal>.

This package contains methods for simulation and for evaluating the pdf, cdf, and quantile functions for symmetric stable, symmetric classical tempered stable, and symmetric power tempered stable distributions.