This is a dataset package for GANPA, which implements a network-based gene weighting approach to pathway analysis. This package includes data useful for GANPA, such as a functional association network, pathways, an expression dataset and multi-subunit proteins.

This package provides a ggplot2 extension for visualizing vector fields in two-dimensional space. Provides flexible tools for creating vector and stream field layers, visualizing gradients and potential fields, and smoothing vector and scalar data to estimate underlying patterns.

Providing publication-ready graphs for Multiple sequence alignment. Moreover, it provides a unique solution for visualizing the multiple sequence alignment without the need to do the alignment in each run which is a big limitation in other available packages.

This package provides a runtime type system, allowing users to define and implement interfaces, enums, typed data.frame/data.table, as well as typed functions. This package enables stricter type checking and validation, improving code structure, robustness and reliability.

Simple handling of survey data. Smart handling of meta-information like e.g. variable-labels value-labels and scale-levels. Easy access and validation of meta-information. Useage of value labels and values respectively for subsetting and recoding data.

This package provides model fitting, prediction, and plotting for joint models of longitudinal and multiple time-to-event data, including methods from Rizopoulos (2012) <doi:10.1201/b12208>. Useful for handling complex survival and longitudinal data in clinical research.

Utilities to help you write LaTeX in a more readable way. Instead of using plain code or a series of newcommand statements, use R functions. You will be able to write what you mean and make fewer mistakes.

This package provides functions to perform paternity exclusion via allele matching, in autopolyploid species having ploidy 4, 6, or 8. The marker data used can be genotype data (copy numbers known) or allelic phenotype data (copy numbers not known).

An R shiny user interface for the nlmixr2 (Fidler et al (2019) <doi:10.1002/psp4.12445>) package, designed to simplify the modeling process for users. Additionally, this package includes supplementary functions to further enhances the usage of nlmixr2'.

It implements parametric formulas of soil water retention or conductivity curve. At the moment, only Van Genuchten (for soil water retention curve) and Mualem (for hydraulic conductivity) were implemented. See reference (<http://en.wikipedia.org/wiki/Water_retention_curve>).

An alternative for downloading various United States Department of Agriculture (USDA) data from <https://quickstats.nass.usda.gov/> through R. You must sign up for an API token from the mentioned website in order for this package to work.

Uses large language models to create poems about R packages. Currently contains the roses() function to make "roses are red, ..." style poems and the prompt() function to only assemble the prompt without submitting it to the model.

Download and search data from the World Bank Indicators API', which provides access to nearly 16,000 time series indicators. See <https://datahelpdesk.worldbank.org/knowledgebase/articles/889392-about-the-indicators-api-documentation> for further details about the API.

This package provides functionalities to visualize and contextualize CRISPR guide RNAs (gRNAs) on genomic tracks across nucleases and applications. Works in conjunction with the crisprBase and crisprDesign Bioconductor packages. Plots are produced using the Gviz framework.

Perform Canonical correlation between two forms of high demensional genetic data, and associate the first compoent of each form of data with a specific biologically interesting pattern of associations with multiple endpoints. A probe level analysis is also implemented.

This package provides a dplyr-like interface for interacting with the common Bioconductor classes Ranges and GenomicRanges. By providing a grammatical and consistent way of manipulating these classes their accessibility for new Bioconductor users is hopefully increased.

This package contains tools for the organization, display, and analysis of the sorts of data frequently encountered in phonetics research and experimentation, including the easy creation of IPA vowel plots, and the creation and manipulation of WAVE audio files.

Compute the values of various parameters evaluating how similar two multidimensional datasets structures are in multidimensional space, as described in: Jouan-Rimbaud, D., Massart, D. L., Saby, C. A., Puel, C. (1998), <doi:10.1016/S0169-7439(98)00005-7>. The computed parameters evaluate three properties, namely, the direction of the data sets, the variance-covariance of the data points, and the location of the data sets centroids. The package contains workhorse function jrparams(), as well as two helper functions Mboxtest() and JRsMahaldist(), and four example data sets.

We implement linear regression when the outcome of interest and some of the covariates are observed in two different datasets that cannot be linked, based on D'Haultfoeuille, Gaillac, Maurel (2022) <doi:10.3386/w29953>. The package allows for common regressors observed in both datasets, and for various shape constraints on the effect of covariates on the outcome of interest. It also provides the tools to perform a test of point identification. See the associated vignette <https://github.com/cgaillac/RegCombin/blob/master/RegCombin_vignette.pdf> for theory and code examples.

This package provides non-invasive annotation of package load calls such as \codelibrary(), \codep_load(), and \coderequire() so that we can have an idea of what the packages we are loading are meant for.

Estimates Bayesian models of list experiments with informative priors. It includes functionalities to estimate different types of list experiment models with varying prior information. See Lu and Traunmüller (2021) <doi:10.2139/ssrn.3871089> for examples and details of estimation.

Estimation and inference methods for the continuous threshold expectile regression. It can fit the continuous threshold expectile regression and test the existence of change point, for the paper, "Feipeng Zhang and Qunhua Li (2016). A continuous threshold expectile regression, submitted.".

Fits multivariate models in an R-vine pair copula construction framework, in such a way that the conditional copula can be easily evaluated. In addition, the package implements functionality to compute or approximate the conditional expectation via the conditional copula.

This package provides a Graphical User Interface (GUI) to import, save, detrend and perform standard tree-ring analyses. The interactive detrending allows the user to check how well the detrending curve fits each time-series and change it when needed.