The purpose of biocViews is to create HTML pages that categorize packages in a Bioconductor package repository according to keywords, also known as views, in a controlled vocabulary.

This package provides a parallel estimation of the mutual information based on entropy estimates from k-nearest neighbors distances and algorithms for the reconstruction of gene regulatory networks.

This package provides a number of user-level functions to work with grid graphics, notably to arrange multiple grid-based plots on a page, and draw tables.

This package provides a set of tools to permute multisets without loops or hash tables and to generate integer partitions. Cool-lex order is similar to colexicographical order.

This package provides a re-implementation of the gWidgets API. The API is defined in this package. A second, toolkit-specific package is required to use it.

ExecJS lets you run JavaScript code from Ruby. It automatically picks a runtime to evaluate your JavaScript program, then returns the result to you as a Ruby object.

Fuubar is an RSpec formatter that uses a progress bar instead of a string of letters and dots as feedback. It also stops on the first test failure.

Indices for assessing riverscape fragmentation, including the Dendritic Connectivity Index, the Population Connectivity Index, the River Fragmentation Index, the Probability of Connectivity, and the Integral Index of connectivity. For a review, see Jumani et al. (2020) <doi:10.1088/1748-9326/abcb37> and Baldan et al. (2022) <doi:10.1016/j.envsoft.2022.105470> Functions to calculate temporal indices improvement when fragmentation due to barriers is reduced are also included.

Predicts amyloid proteins using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI.

R bindings for the various functions and statistical distributions provided by the Boost Math library <https://www.boost.org/doc/libs/latest/libs/math/doc/html/index.html>.

Classification of climate according to Koeppen - Geiger, of aridity indices, of continentality indices, of water balance after Thornthwaite, of viticultural bioclimatic indices. Drawing climographs: Thornthwaite, Peguy, Bagnouls-Gaussen.

Forecasting time series with different decomposition based ARIMA models. For method details see Yu L, Wang S, Lai KK (2008). <doi:10.1016/j.eneco.2008.05.003>.

An implementation of Bayesian hierarchical models for faecal egg count data to assess anthelmintic efficacy. Bayesian inference is done via MCMC sampling using Stan <https://mc-stan.org/>.

Computes Fourier integrals of functions of one and two variables using the Fast Fourier transform. The Fourier transforms must be evaluated on a regular grid for fast evaluation.

Testing, Implementation and Forecasting of Grey Model (GM(1, 1)). For method details see Hsu, L. and Wang, C. (2007). <doi:10.1016/j.techfore.2006.02.005>.

Using simple input, this package creates plots of gene models. Users can create plots of alternatively spliced gene variants and the positions of mutations and other gene features.

Calculates point estimates and standard errors using replicate weights and plausible values for International Large-Scale Assessments (ILSA), including: means, proportions, quantiles, correlations, singlelevel regressions, and multilevel regressions.

This package provides fast implementations of kernel smoothing techniques for bivariate copula densities, in particular density estimation and resampling, see Nagler (2018) <doi:10.18637/jss.v084.i07>.

This package contains some functions to learn and teach basic plane Geometry at undergraduate level with the aim of being helpful to young students with little programming skills.

This package provides methods for quality control and robust pre-processing and analysis of MALDI mass spectrometry data (Palarea-Albaladejo et al. (2018) <doi:10.1093/bioinformatics/btx628>).

Uses memory-mapping to enable the random access of elements of a text file of characters separated by characters as if it were a simple R(cpp) matrix.

Multivariate joint models of longitudinal and time-to-event data based on functional principal components implemented with bamlss'. Implementation for Volkmann, Umlauf, Greven (2023) <arXiv:2311.06409>.

Density, distribution function, quantile function and random generation for the Odd Log-Logistic Generalized Gamma proposed in Prataviera, F. et al (2017) <doi:10.1080/00949655.2016.1238088>.

This package provides functions that interface with the Pocket API (<https://getpocket.com/developer/>). Allows the user to get, add, and modify items in their own Pocket account.