These functions are especially helpful when writing reports of data analysis using "Sweave".

Implementation of the Johnson Quantile-Parameterised Distribution in R. The Johnson Quantile-Parameterised Distribution (J-QPD) is a flexible distribution system that is parameterised by a symmetric percentile triplet of quantile values (typically the 10th-50th-90th) along with known support bounds for the distribution. The J-QPD system was developed by Hadlock and Bickel (2017) <doi:10.1287/deca.2016.0343>. This package implements the density, quantile, CDF and random number generator functions.

Easily compute an aggregate ranking (also called a median ranking or a consensus ranking) according to the axiomatic approach presented by Cook et al. (2007). This approach minimises the number of violations between all candidate consensus rankings and all input (partial) rankings, and draws on a branch and bound algorithm and a heuristic algorithm to drastically improve speed. The package also provides an option to bootstrap a consensus ranking based on resampling input rankings (with replacement). Input rankings can be either incomplete (partial) or complete. Reference: Cook, W.D., Golany, B., Penn, M. and Raviv, T. (2007) <doi:10.1016/j.cor.2005.05.030>.

Here we performs robust hierarchical co-clustering between row and column entities of a data matrix in absence and presence of outlying observations. It can be used to explore important co-clusters consisting of important samples and their regulatory significant features. Please see Hasan, Badsha and Mollah (2020) <doi:10.1101/2020.05.13.094946>.

R-level and C++-level functionality to generate random deviates from and calculate moments of a Truncated Normal distribution using the algorithm of Robert (1995) <DOI:10.1007/BF00143942>. In addition to RNG, functions for calculating moments, densities, and entropies are provided at both levels.

This package provides access to geocomputing and terrain analysis functions of the geographical information system (GIS) SAGA (System for Automated Geoscientific Analyses) from within R by running the command line version of SAGA. This package furthermore provides several R functions for handling ASCII grids, including a flexible framework for applying local functions (including predict methods of fitted models) and focal functions to multiple grids. SAGA GIS is available under GPL-2 / LGPL-2 licences from <https://sourceforge.net/projects/saga-gis/>.

This package implements Kornbrot's rank difference test as described in <doi:10.1111/j.2044-8317.1990.tb00939.x>. This method is a modified Wilcoxon signed-rank test which produces consistent and meaningful results for ordinal or monotonically-transformed data.

Supports concordances in R Markdown documents. This currently allows the original source location in the .Rmd file of errors detected by HTML tidy to be found more easily, and potentially allows forward and reverse search in HTML and LaTeX documents produced from R Markdown'. The LaTeX support has been included in the most recent development version of the patchDVI package.

Analysis of corneal data obtained from a Placido disk corneal topographer with calculation of irregularity indices. This package performs analyses of corneal data obtained from a Placido disk corneal topographer, with the calculation of the Placido irregularity indices and the posterior analysis. The package is intended to be easy to use by a practitioner, providing a simple interface and yielding easily interpretable results. A corneal topographer is an ophthalmic clinical device that obtains measurements in the cornea (the anterior part of the eye). A Placido disk corneal topographer makes use of the Placido disk [Rowsey et al. (1981)]<doi:10.1001/archopht.1981.03930011093022>, which produce a circular pattern of measurement nodes. The raw information measured by such a topographer is used by practitioners to analyze curvatures, to study optical aberrations, or to diagnose specific conditions of the eye (e.g. keratoconus, an important corneal disease). The rPACI package allows the calculation of the corneal irregularity indices described in [Castro-Luna et al. (2020)]<doi:10.1016%2Fj.clae.2019.12.006>, [Ramos-Lopez et al. (2013)]<doi:10.1097%2FOPX.0b013e3182843f2a>, and [Ramos-Lopez et al. (2011)]<doi:10.1097/opx.0b013e3182279ff8>. It provides a simple interface to read corneal topography data files as exported by a typical Placido disk topographer, to compute the irregularity indices mentioned before, and to display summary plots that are easy to interpret for a clinician.

An implementation of R's DBI interface using ODBC package as a back-end. This allows R to connect to any DBMS that has a ODBC driver.

Jade is a high performance template engine heavily influenced by Haml and implemented with JavaScript for node and browsers.

Linguistic Descriptions of Complex Phenomena (LDCP) is an architecture and methodology that allows us to model complex phenomena, interpreting input data, and generating automatic text reports customized to the user needs (see <doi:10.1016/j.ins.2016.11.002> and <doi:10.1007/s00500-016-2430-5>). The proposed package contains a set of methods that facilitates the development of LDCP systems. It main goal is increasing the visibility and practical use of this research line.

This package provides R bindings for Tabulator JS <https://tabulator.info/>. Makes it a breeze to create highly customizable interactive tables in rmarkdown documents and shiny applications. It includes filtering, grouping, editing, input validation, history recording, column formatters, packaged themes and more.

The ropenblas package (<https://prdm0.github.io/ropenblas/>) is useful for users of any GNU/Linux distribution. It will be possible to download, compile and link the OpenBLAS library (<https://www.openblas.net/>) with the R language, always by the same procedure, regardless of the GNU/Linux distribution used. With the ropenblas package it is possible to download, compile and link the latest version of the OpenBLAS library even the repositories of the GNU/Linux distribution used do not include the latest versions of OpenBLAS'. If of interest, older versions of the OpenBLAS library may be considered. Linking R with an optimized version of BLAS (<https://netlib.org/blas/>) may improve the computational performance of R code. The OpenBLAS library is an optimized implementation of BLAS that can be easily linked to R with the ropenblas package.

The parametric Bayes analysis for the restricted mean survival time (RMST) with cluster effect, as described in Hanada and Kojima (2024) <doi:10.48550/arXiv.2406.06071>. Bayes estimation with random-effect and frailty-effect can be applied to several parametric models useful in survival time analysis. The RMST under these parametric models can be computed from the obtained posterior samples.

Includes Resourcecode hindcast database (see <https://resourcecode.ifremer.fr>) configuration data: nodes locations for both the sea-state parameters and the spectra data; examples of time series of 1D and 2D surface elevation variance spectral density.

Download and plot Open Street Map <https://www.openstreetmap.org/>, Bing Maps <https://www.bing.com/maps> and other tiled map sources. Use to create basemaps quickly and add hillshade to vector-based maps.

Inspired by Karl Broman`s reader on using knitr with asciidoc (<https://kbroman.org/knitr_knutshell/pages/asciidoc.html>), this is merely a wrapper to knitr and asciidoc'.

Open any data frame with visidata', a terminal-based spreadsheet application <https://www.visidata.org>.

To detecting rare variants for binary traits using general pedigrees, the pedigree disequilibrium tests are proposed by collapsing rare haplotypes/variants with/without weights. To run the test, MERLIN is needed in Linux for haplotyping.

This package provides easy access to The Reptile Database', a comprehensive catalogue of all living reptile species and their classification. This package includes taxonomic data for over 10,000 reptile species, approximately 2,800 of which are subspecies, covering all extant reptiles. The dataset features taxonomic names, synonyms, distribution data, type specimens, and literature references, making it ready for research and analysis. Data is sourced from The Reptile Database <http://www.reptile-database.org/>.

An R interface to KEA (Version 5.0). KEA (for Keyphrase Extraction Algorithm) allows for extracting keyphrases from text documents. It can be either used for free indexing or for indexing with a controlled vocabulary. For more information see <http://www.nzdl.org/Kea/>.

This package performs Wavelet Lifting Transforms focusing on signal denoising and functional data analysis (FDA). Implements a hybrid architecture with a zero-allocation C++ core for high-performance processing. Features include unified offline (batch) denoising, causal (real-time) filtering using a ring buffer engine, and adaptive recursive thresholding.

This package provides a cross-validated minimal-optimal feature selection algorithm. It utilises popularity counting, hierarchical clustering with feature dissimilarity measures, and prefiltering with all-relevant feature selection method to obtain the minimal-optimal set of features.