Estimate significance of importance metrics for a Random Forest model by permuting the response variable. Produces null distribution of importance metrics for each predictor variable and p-value of observed. Provides summary and visualization functions for randomForest results.

We provide linear and nonlinear dimension reduction techniques. Intrinsic dimension estimation methods for exploratory analysis are also provided. For more details on the package, see the paper by You and Shung (2022) <doi:10.1016/j.simpa.2022.100414>.

This package provides functions to perform propensity score matching on rolling entry interventions for which a suitable "entry" date is not observed for nonparticipants. For more details, please reference Witman et al. (2018) <doi:10.1111/1475-6773.13086>.

This package provides utility functions that extend the capabilities of the reference-based multiple imputation package rbmi'. It supports clinical trial analysis workflows with functions for managing imputed datasets, applying analysis methods across imputations, and tidying results for reporting.

Generates disease-specific drug-response profiles that are independent of time, concentration, and cell-line. Based on the cell lines used as surrogates, the returned profiles represent the unique transcriptional changes induced by a compound in a given disease.

This package provides a thin wrapper around the tiktoken-rs crate, allowing to encode text into Byte-Pair-Encoding (BPE) tokens and decode tokens back to text. This is useful to understand how Large Language Models (LLMs) perceive text.

This package provides tools for the analysis of enrichment-based epigenomic data. Features include summarization and visualization of epigenomic data across promoters according to gene expression context, finding regions of differential methylation/binding, BayMeth for quantifying methylation etc.

This package provides fast implementations of Random Forests, Gradient Boosting, and Linear Random Forests, with an emphasis on inference and interpretability. Additionally contains methods for variable importance, out-of-bag prediction, regression monotonicity, and several methods for missing data imputation.

Streamlined statistical reporting in Rmarkdown environments. Facilitates the automated reporting of descriptive statistics, multiple univariate models, multivariable models and tables combining these outputs. Plotting functions include customisable survival curves, forest plots from logistic and ordinal regression and bivariate comparison plots.

This package provides a unified interface for reading and writing object file formats.

This package provides a unified interface for reading and writing object file formats.

Calculates the co-ranking matrix to assess the quality of a dimensionality reduction.

This package provides means of plots for comparing utilization data of compute systems.

Compute energy landscapes using a digital elevation model and body mass of animals.

Plots the conditional coefficients ("marginal effects") of variables included in multiplicative interaction terms.

Spearman's rank correlation test with precomputed exact null distribution for n <= 22.

Basic functions for building parsers, with an application to PC-AXIS format files.

This package provides functions and Examples in Sample Size Calculation in Clinical Research.

An R interface to the Project VoteSmart'<https://justfacts.votesmart.org/> API.

This package provides a package containing an environment representing the Bovine.cdf file.

This package provides a package containing an environment representing the Citrus.cdf file.

This package provides a package containing an environment representing the CYP450.CDF file.

This package provides a package containing an environment representing the Canine.cdf file.

COSMIC: Catalogue Of Somatic Mutations In Cancer, version 67 (2013-10-24).