Analyzes the impact of external conditions on air quality using counterfactual approaches, featuring methods for data preparation, modeling, and visualization.

ROSeq - A rank based approach to modeling gene expression with filtered and normalized read count matrix. ROSeq takes filtered and normalized read matrix and cell-annotation/condition as input and determines the differentially expressed genes between the contrasting groups of single cells. One of the input parameters is the number of cores to be used.

Wrapper for the PoetryDB API <http://poetrydb.org> that allows for interaction and data extraction from the database in an R interface. The PoetryDB API is a database of poetry and poets implemented with MongoDB to enable developers and poets to easily access one of the most comprehensive poetry databases currently available.

This package provides a structural, reproducible workflow for the processing and analysis of respirometry data. It contains analytical functions and utilities for working with oxygen time-series to determine respiration or oxygen production rates, and to make it easier to report and share analyses. See Harianto et al. 2019 <doi:10.1111/2041-210X.13162>.

This package provides functions to generate censored samples of type I, II and III, from any random sample generator. It also supplies the option to create left and right censorship. Along with this, the generation of samples with interval censoring is in the testing phase, with two options of fixed length intervals and random lengths.

This package wraps the functionality of the Thermo Fisher Scientic RawFileReader .NET 8.0 assembly. Within the R environment, spectra and chromatograms are represented by S3 objects. The package provides basic functions to download and install the required third-party libraries. The package is developed, tested, and used at the Functional Genomics Center Zurich, Switzerland.

BM25 is a ranking function used by search engines to rank matching documents according to their relevance to a user's search query. This package provides a light wrapper around the BM25 rust crate for Okapi BM25 text search. For more information, see Robertson et al. (1994) <https://trec.nist.gov/pubs/trec3/t3_proceedings.html>.

The Ryan-Holm step-down Bonferroni or Sidak procedure is to control the family-wise (experiment-wise) type I error rate in the multiple comparisons. This procedure provides the adjusting p-values and adjusting CIs. The methods used in this package are referenced from John Ludbrook (2000) <doi:10.1046/j.1440-1681.2000.03223.x>.

Design and analysis of confirmatory adaptive clinical trials with continuous, binary, and survival endpoints according to the methods described in the monograph by Wassmer and Brannath (2025) <doi:10.1007/978-3-031-89669-9>. This includes classical group sequential as well as multi-stage adaptive hypotheses tests that are based on the combination testing principle.

Much as roxygen2 allows one to document functions in the same file as the function itself, roxut allows one to write the unit tests in the same file as the function. Once processed, the unit tests are moved to the appropriate directory. Currently supports testthat and tinytest frameworks. The roxygen2 package provides much of the infrastructure.

Diagnostics and data preparation for random effects within estimator, random effects within-idiosyncratic estimator, between-within-idiosyncratic model, and cross-classified between model. Mundlak, Yair (1978) <doi:10.2307/1913646>. Hausman, Jeffrey (1978) <doi:10.2307/1913827>. Allison, Paul (2009) <doi:10.4135/9781412993869>. Neuhaus, J.M., and J. D. Kalbfleisch (1998) <doi:10.2307/3109770>.

The purpose of this GO.db annotation package is to provide detailed information about the latest version of the Gene Ontologies.

This package provides a derivative-free optimization by quadratic approximation based on an interface to Fortran implementations by M. J. D. Powell.

This package provides helper functions with a consistent interface to coerce and verify the types and shapes of values for input checking.

This package implements functions for multi-class discriminant analysis using binary predictors, for corresponding variable selection, and for dichotomizing continuous data.

These data contain morphological image measurements for dried beans from Koklu and Ozkan (2020) <doi:10.1016/j.compag.2020.105507>.

Scripting of structural equation models via lavaan for Dyadic Data Analysis, and helper functions for supplemental calculations, tabling, and model visualization.

Bayesian estimation of forced choice models in Item Response Theory using rstan (See Stan Development Team (2020) <https://mc-stan.org/>).

Encode and decode the Google Encoded Polyline Algorithm Format. See <https://developers.google.com/maps/documentation/utilities/polylinealgorithm> for more information.

Multivariate time series analysis based on Generalized Space-Time Autoregressive Model by Ruchjana et al.(2012) <doi:10.1063/1.4724118>.

Hierarchical Bayesian models. The package provides tools to fit two response time models, using the population-based Markov Chain Monte Carlo.

This package provides a collection of palettes and themes for ggplot2', offering a light, pastel aesthetic. Syntax follows the viridis package.

Maximum likelihood estimation of log-binomial regression with special functionality when the MLE is on the boundary of the parameter space.

Targeted Maximum Likelihood Estimation ('TMLE') of treatment/censoring specific mean outcome or marginal structural model for point-treatment and longitudinal data.