Perform bulk and cell type-specific expression quantitative trait loci mapping with our novel method (Little et al. (2023) <doi:10.1038/s41467-023-38795-w>).

Helpful functions for the cleaning and manipulation of surveillance data, especially with regards to the creation and validation of panel data from individual level surveillance data.

This package provides functions for evaluating and visualizing ecological assessment procedures for surface waters containing physical, chemical and biological assessments in the form of value functions.

This package provides functions for financial analysis and financial modeling, including batch graphs generation, beta calculation, descriptive statistics, annuity calculation, bond pricing and financial data download.

Log-ratio Lasso regression for continuous, binary, and survival outcomes with (longitudinal) compositional features. See Fei and others (2024) <doi:10.1016/j.crmeth.2024.100899>.

This package provides a Gaussian or Student's t copula-based procedure for generating samples from discrete random variables with prescribed correlation matrix and marginal distributions.

Assists in generating binary clustered data, estimates of Intracluster Correlation coefficient (ICC) for binary response in 16 different methods, and 5 different types of confidence intervals.

This package provides methods for fitting log-link GLMs and GAMs to binomial data, including EM-type algorithms with more stable convergence properties than standard methods.

This package provides a lightweight wrapper for the Lucide icon library <https://lucide.dev>. Embed beautiful and consistent SVG icons inline in any R web application.

Find dark genes. These genes are often disregarded due to no detected mutation or differential expression, but are important in coordinating the functionality in cancer networks.

This package provides functions are primarily functions for systems of ordinary differential equations, difference equations, and eigenanalysis and projection of demographic matrices; data are for examples.

Features unstructured, structured and reverse geocoding using the photon geocoding API <https://photon.komoot.io/>. Facilitates the setup of local photon instances to enable offline geocoding.

Compute various quantitative genetics parameters from a Generalised Linear Mixed Model (GLMM) estimates. Especially, it yields the observed phenotypic mean, phenotypic variance and additive genetic variance.

Construct subtests from a pool of items by using ant-colony-optimization, genetic algorithms, brute force, or random sampling. Schultze (2017) <doi:10.17169/refubium-622>.

Uses statistical network modeling to understand the co-expression relationships among genes and to construct sparse gene co-expression networks from single-cell gene expression data.

Converts the floor speeches of Uruguayan legislators, extracted from the parliamentary minutes, to tidy data.frame where each observation is the intervention of a single legislator.

Develops a framework for fisheries stock assessment simulation testing with Stock Synthesis (SS) as described in Anderson et al. (2014) <doi:10.1371/journal.pone.0092725>.

The companion package that provides all the datasets used in the book "Data Integration, Manipulation and Visualization of Phylogenetic Trees" by Guangchuang Yu (2022, ISBN:9781032233574).

This package provides functions for statistical analysis, prediction and control of time series based mainly on Akaike and Nakagawa (1988) <ISBN 978-90-277-2786-2>.

Create HTML tables of descriptive statistics, as one would expect to see as the first table (i.e. "Table 1") in a medical/epidemiological journal article.

Error variance estimation in ultrahigh dimensional datasets with four different methods, viz. Refitted cross validation, k-fold refitted cross validation, Bootstrap-refitted cross validation, Ensemble method.

Drift-Diffusion Model (DDM) has been widely used to model binary decision-making tasks, and many research studies the relationship between DDM parameters and other characteristics of the subject. This package uses RStan to perform generalized liner regression analysis over DDM parameters via a single Bayesian Hierarchical model. Compared to estimating DDM parameters followed by a separate regression model, RegDDM reduces bias and improves statistical power.

Allows wrapping values in success() and failure() types to capture the result of operations, along with any status codes. Risky expressions can be wrapped in as_result() and functions wrapped in result() to catch errors and assign the relevant result types. Monadic functions can be bound together as pipelines or transaction scripts using then_try(), to gracefully handle errors at any step.

These functions take a character vector as input, identify and cluster similar values, and then merge clusters together so their values become identical. The functions are an implementation of the key collision and ngram fingerprint algorithms from the open source tool Open Refine <https://openrefine.org/>. More info on key collision and ngram fingerprint can be found here <https://openrefine.org/docs/technical-reference/clustering-in-depth>.