Efficient tools for preparation, checking and post-processing of data in PK/PD (pharmacokinetics/pharmacodynamics) modeling, with focus on use of Nonmem, including consistency, traceability, and Nonmem compatibility of Data. Rigorously checks final Nonmem datasets. Implemented in data.table', but easily integrated with base and tidyverse'.

Estimates of coefficients of lasso penalized linear regression and generalized linear models subject to non-negativity constraints on the parameters using multiplicative iterative algorithm. Entire regularization path for a sequence of lambda values can be obtained. Functions are available for creating plots of regularization path, cross validation and estimating coefficients at a given lambda value. There is also provision for obtaining standard error of coefficient estimates.

This package contains data, code, and figures from Hill et al. 2018a (Journal of Experimental Marine Biology and Ecology; <DOI: 10.1016/j.jembe.2018.07.006>) and Hill et al. 2018b (Data In Brief <DOI: 10.1016/j.dib.2018.09.133>). Datasets document plant allometry, stem heights, nutrient and stable isotope content, and sediment denitrification enzyme assays. The data and analysis offer an examination of nitrogen uptake and allocation in two salt marsh plant species.

Fits sphere-sphere regression models by estimating locally weighted rotations. Simulation of sphere-sphere data according to non-rigid rotation models. Provides methods for bias reduction applying iterative procedures within a Newton-Raphson learning scheme. Cross-validation is exploited to select smoothing parameters. See Marco Di Marzio, Agnese Panzera & Charles C. Taylor (2018) <doi:10.1080/01621459.2017.1421542>.

This package provides a set of functions to access National Football League play-by-play data from <https://www.nfl.com/>.

This package provides functions for revealing what happens when effect size estimates from previous studies are taken into account when evaluating each new dataset in a study sequence. The analyses can be conducted for cumulative meta-analyses and for Bayesian data analyses. The package contains sample data for a wide selection of research topics. Jointly considering previous findings along with new data is more likely to result in correct conclusions than does the traditional practice of not incorporating previous findings, which often results in a back and forth ping-pong of conclusions when evaluating a sequence of studies. O'Connor & Ermacora (2021, <doi:10.1037/cbs0000259>).

This package contains a module to define neural networks from custom components and versions of Autoencoder, BP, LVQ, MAM NN.

This package provides tools for reading and writing NIfTI-1.1 (NII) files, including optimized voxelwise read/write operations and a simplified method to write dataframes to NII. Specification of the NIfTI-1.1 format can be found here <https://nifti.nimh.nih.gov/nifti-1>. Scientific publication first using these tools Koscik TR, Man V, Jahn A, Lee CH, Cunningham WA (2020) <doi:10.1016/j.neuroimage.2020.116764> "Decomposing the neural pathways in a simple, value-based choice." Neuroimage, 214, 116764.

This package implements univariate continuous probability distributions and associated model diagnostics based on the Lindley, Logistic, Half-Cauchy, Half-Logistic, and Poisson families. Provides functions for probability density, cumulative distribution, quantile, and hazard evaluation, random variate generation, and diagnostic procedures including Q-Q and P-P plots, goodness-of-fit tests, and model selection criteria.

Social network analysis has become an essential tool in the study of complex systems. NetExplorer allows to visualize and explore complex systems. It is based on d3js library that brings 1) Graphical user interface; 2) Circular, linear, multilayer and force Layout; 3) Network live exploration and 4) SVG exportation.

This package provides a near drop-in replacement for base::Sys.sleep() that allows more types of input to produce delays in the execution of code and can silence/prevent typical sources of error.

This package contains methods described by Dennis Helsel in his book "Statistics for Censored Environmental Data using Minitab and R" (2011) and courses and videos at <https://practicalstats.com>. This package incorporates functions of NADA and adds new functionality.

Noninferiority tests for difference in failure rates at a prespecified control rate or prespecified time. For details, see Fay and Follmann, 2016 <DOI:10.1177/1740774516654861>.

Makes NCBI taxonomic data locally available and searchable as an R object.

This package provides the Arctic Ice Studio's Nord and Group of Seven inspired colour palettes for use with ggplot2 via custom functions.

This package provides a network-guided penalized regression framework that integrates network characteristics from Gaussian graphical models with partial penalization, accounting for both network structure (hubs and non-hubs) and clinical covariates in high-dimensional omics data, including transcriptomics and proteomics. The full methodological details can be found in our publication by Ahn S and Oh EJ (2026) <doi:10.1093/bioadv/vbag038>.

This package provides a set of techniques that can be used to develop, validate, and implement automated classifiers. A powerful tool for transforming raw data into meaningful information, ncodeR (Shaffer, D. W. (2017) Quantitative Ethnography. ISBN: 0578191687) is designed specifically for working with big data: large document collections, logfiles, and other text data.

Next-Generation Clustered Heat Maps (NG-CHMs) allow for dynamic exploration of heat map data in a web browser. NGCHM allows users to create both stand-alone HTML files containing a Next-Generation Clustered Heat Map, and .ngchm files to view in the NG-CHM viewer. See Ryan MC, Stucky M, et al (2020) <doi:10.12688/f1000research.20590.2> for more details.

This is the R API for the nfer formalism (<http://nfer.io/>). nfer was developed to specify event stream abstractions for spacecraft telemetry such as the Mars Science Laboratory. Users write rules using a syntax that borrows heavily from Allen's Temporal Logic that, when applied to an event stream, construct a hierarchy of temporal intervals with data. The R API supports loading rules from a file or mining them from historical data. Traces of events or pools of intervals are provided as data frames.

Cross-Entropy optimisation of unconstrained deterministic and noisy functions illustrated in Rubinstein and Kroese (2004, ISBN: 978-1-4419-1940-3) through a highly flexible and customisable function which allows user to define custom variable domains, sampling distributions, updating and smoothing rules, and stopping criteria. Several built-in methods and settings make the package very easy-to-use under standard optimisation problems.

This package provides tools to generate Necklaces, Bracelets, Lyndon words and de Bruijn sequences. The generation relies on integer partitions and uses the KStatistics package. Methods used in the package refers to E. Di Nardo and G. Guarino (2022) <doi:10.48550/arXiv.2208.06855>.

For use in summary functions to omit missing values conditionally using specified checks.

The NetCoupler algorithm identifies potential direct effects of correlated, high-dimensional variables formed as a network with an external variable. The external variable may act as the dependent/response variable or as an independent/predictor variable to the network.

It provides a framework and a fast and simple way for researchers to evaluate methods (particularly some data-driven methods or their own methods) and then select a best one for data normalization in the gene expression analysis, based on the consistency of metrics and the consistency of datasets. Zhenfeng Wu, Weixiang Liu, Xiufeng Jin, Deshui Yu, Hua Wang, Gustavo Glusman, Max Robinson, Lin Liu, Jishou Ruan and Shan Gao (2018) <doi:10.1101/251140>.