Converts XML documents to R dataframes and dataframes to XML documents. A wide variety of options allows for different XML formats and flexible control of the conversion process. Results can be exported to CSV and Excel, if desired. Also converts XML data to R lists.

This collection of gene representation-independent mechanisms for evolutionary and genetic algorithms for the R-package xega <https://CRAN.R-project.org/package=xega> contains four groups of functions: First, functions for selecting a gene in a population of genes according to its fitness value and for adaptive scaling of the fitness values as well as for performance optimization and measurement offer several variants for implementing the survival of the fittest. Second, evaluation functions for deterministic functions avoid recomputation. Evaluation of stochastic functions incrementally improve the estimation of the mean and variance of fitness values at almost no additional cost. Evaluation functions for gene repair handle error-correcting decoders. Third, timing and counting functions for profiling the algorithm pipeline are provided to assess bottlenecks in the algorithms. Fourth, a small collection of problem environments for function optimization, combinatorial optimization, and grammar-based genetic programming and grammatical evolution is provided for tutorial examples. For xega's architecture, see Geyer-Schulz, A. (2025) <doi:10.5445/IR/1000187255>. The methods in the package are described by the following references: Baker, James E. (1987, ISBN:978-08058-0158-8), De Jong, Kenneth A. (1975) <https://deepblue.lib.umich.edu/handle/2027.42/4507>, Geyer-Schulz, Andreas (1997, ISBN:978-3-7908-0830-X), Grefenstette, John J. (1987, ISBN:978-08058-0158-8), Grefenstette, John J. and Baker, James E. (1989, ISBN:1-55860-066-3), Holland, John (1975, ISBN:0-472-08460-7), Lau, H. T. (1986) <doi:10.1007/978-3-642-61649-5>, Price, Kenneth V., Storn, Rainer M. and Lampinen, Jouni A. (2005) <doi:10.1007/3-540-31306-0>, Reynolds, J. C. (1993) <doi:10.1007/BF01019459>, Schaffer, J. David (1989, ISBN:1-55860-066-3), Wenstop, Fred (1980) <doi:10.1016/0165-0114(80)90031-7>, Whitley, Darrell (1989, ISBN:1-55860-066-3), Wickham, Hadley (2019, ISBN:978-815384571).

This package provides tools to analyze datasets previous to any statistical modeling. Has various functions designed to find inconsistencies and understanding the distribution of the data.

Implementation of a scalable, highly configurable, and e(x)tended architecture for (e)volutionary and (g)enetic (a)lgorithms. Multiple representations (binary, real-coded, permutation, and derivation-tree), a rich collection of genetic operators, as well as an extended processing pipeline are provided for genetic algorithms (Goldberg, D. E. (1989, ISBN:0-201-15767-5)), differential evolution (Price, Kenneth V., Storn, Rainer M. and Lampinen, Jouni A. (2005) <doi:10.1007/3-540-31306-0>), simulated annealing (Aarts, E., and Korst, J. (1989, ISBN:0-471-92146-7)), grammar-based genetic programming (Geyer-Schulz (1997, ISBN:978-3-7908-0830-X)), grammatical evolution (Ryan, C., O'Neill, M., and Collins, J. J. (2018) <doi:10.1007/978-3-319-78717-6>), and grammatical differential evolution (O'Neill, M. and Brabazon, A. (2006) in Arabinia, H. (2006, ISBN:978-193-241596-3). All algorithms reuse basic adaptive mechanisms for performance optimization. For xega''s architecture, see Geyer-Schulz, A. (2025) <doi:10.5445/IR/1000187255>. Sequential or parallel execution (on multi-core machines, local clusters, and high-performance computing environments) is available for all algorithms. See <https://github.com/ageyerschulz/xega/tree/main/examples/executionModel>.

The XKCD color survey asked participants to name colours. Randall Munroe published the top thousand(roughly) names and their sRGB hex values. This package lets you use them.

Miscellaneous functions used for x-engineering (feature engineering) or for supporting in other packages maintained by Shichen Xie'.

Extremely fast hashing of R objects using xxHash'. R objects are hashed via the standard serialization mechanism in R. Raw byte vectors and strings can be handled directly for compatibility with hashes created on other systems. This implementation is a wrapper around the xxHash C library which is available from <https://github.com/Cyan4973/xxHash>.

Read and write XES Files to create event log objects used by the bupaR framework. XES (Extensible Event Stream) is the `IEEE` standard for storing and sharing event data (see <http://standards.ieee.org/findstds/standard/1849-2016.html> for more info).

The x3p file format is specified in ISO standard 5436:2000 to describe 3d surface measurements. x3ptools allows reading, writing and basic modifications to the 3D surface measurements.

Given the date column as an ascending entry, future errors are included in the sum of squares of error that should be minimized based on the number of steps and weights you determine. Thus, it is prevented that the variables affect each other's coefficients unrealistically.

Translates a BNF (Backus-Naur Form) specification of a context-free language into an R grammar object which consists of the start symbol, the symbol table, the production table, and a short production table. The short production table is non-recursive. The grammar object contains the file name from which it was generated (without a path). In addition, it provides functions to determine the type of a symbol (isTerminal() and isNonterminal()) and functions to access the production table (rules() and derives()). For the BNF specification, see Backus, John et al. (1962) "Revised Report on the Algorithmic Language ALGOL 60". (ALGOL60 standards page <http://www.algol60.org/2standards.htm>, html-edition <https://www.masswerk.at/algol60/report.htm>) A preprocessor for macros which expand to standard BNF is included. The grammar compiler is an extension of the APL2 implementation in Geyer-Schulz, Andreas (1997, ISBN:978-3-7908-0830-X).

An implementation of the RuleFit algorithm as described in Friedman & Popescu (2008) <doi:10.1214/07-AOAS148>. eXtreme Gradient Boosting ('XGBoost') is used to build rules, and glmnet is used to fit a sparse linear model on the raw and rule features. The result is a model that learns similarly to a tree ensemble, while often offering improved interpretability and achieving improved scoring runtime in live applications. Several algorithms for reducing rule complexity are provided, most notably hyperrectangle de-overlapping. All algorithms scale to several million rows and support sparse representations to handle tens of thousands of dimensions.

This package provides a fast and elegant interface for generating XML fragments and documents. It can be used in companion with R packages XML or xml2 to generate XML documents. The fast XML generation is implemented using the Rcpp package.

This package provides a few functions which provide a quick way of subsetting genomic admixture data and generating customizable stacked barplots.

This package provides a simple XML tree parser/generator. It includes functions to read XML files into R objects, get information out of and into nodes, and write R objects back to XML code. It's not as powerful as the XML package and doesn't aim to be, but for simple XML handling it could be useful. It was originally developed for the R GUI and IDE RKWard <https://rkward.kde.org>, to make plugin development easier.

Hamiltonian Monte Carlo for both continuous and discontinuous posterior distributions with a customizable trajectory length termination criterion. See Nishimura et al. (2020) <doi:10.1093/biomet/asz083> for the original Discontinuous Hamiltonian Monte Carlo; Hoffman et al. (2014) <doi:10.48550/arXiv.1111.4246> and Betancourt (2016) <doi:10.48550/arXiv.1601.00225> for the definition of possible Hamiltonian Monte Carlo termination criteria.

Download data from individual XKCD comics, written by Randall Munroe <https://xkcd.com/>.

Diagnostics for non-linear mixed-effects (population) models from NONMEM <https://www.iconplc.com/solutions/technologies/nonmem/>. xpose facilitates data import, creation of numerical run summary and provide ggplot2'-based graphics for data exploration and model diagnostics.

This package provides a consistent interface for common feature importance methods as described in Ewald et al. (2024) <doi:10.1007/978-3-031-63797-1_22>, including permutation feature importance (PFI), conditional and relative feature importance (CFI, RFI), leave one covariate out (LOCO), and Shapley additive global importance (SAGE), as well as feature sampling mechanisms to support conditional importance methods.

Reading and writing sheets of a single Excel file into and from a list of data frames. Eases I/O of tabular data in bioinformatics while keeping them in a human readable format.

Based on STATA xtsum command, it is used to compute summary statistics for a panel data set. It generates overall, between-group, and within-group statistics for specified variables in a panel data set, as presented in S. Porter (2023) <https://stephenporter.org/files/xtsum_handout.pdf>, StataCorp (2023) <https://www.stata.com/manuals/xtxtsum.pdf>.

This package implements the Durbin-Hausman panel cointegration tests of Westerlund (2008) <doi:10.1002/jae.963>. The tests are robust to cross-sectional dependence through common factor extraction using principal components. Provides both group-mean (DHg) and panel (DHp) test statistics with automatic factor number selection via information criteria.

This package implements the recursively detrended panel unit root tests proposed by Westerlund (2015) <doi:10.1016/j.jeconom.2014.09.013>. Two variants are provided: the basic t-REC test assuming iid errors, and the robust t-RREC test that accounts for serial correlation, cross-sectional dependence, and heteroskedasticity via defactoring and BIC-selected lag augmentation. Both tests have a standard normal null distribution requiring no mean or variance correction. The panel must be strongly balanced.

This package provides a high-level interface for creating and exporting summary tables to Excel'. Built on dplyr and openxlsx', it provides tools for generating one-way to n-way tables, and summarizing multiple response questions and question blocks. Tables are exported with native Excel formatting, including titles, footnotes, and basic styling options.