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r-allelematch
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Tools for the identification of unique of multilocus genotypes when both genotyping error and missing data may be present. The package is targeted at those working with large datasets and databases containing multiple samples of each individual, a situation that is common in conservation genetics, and particularly in non-invasive wildlife sampling applications. Functions explicitly incorporate missing data, and can tolerate allele mismatches created by genotyping error. If you use this tool, please cite the package using the journal article in Molecular Ecology Resources (Galpern et al., 2012). Please use citation('allelematch') to call the full citation. For users with access to the associated journal article, tutorial material is also available as supplementary material to the article describing this software, the citation for which can be called using citation('allelematch').
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2025-04-22 |
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r-aggregater
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Convenience functions for aggregating data frame. Currently mean, sum and variance are supported. For Date variables, recency and duration are supported. There is also support for dummy variables in predictive contexts.
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2025-04-22 |
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r-eha
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Sampling of risk sets in Cox regression, selections in the Lexis diagram, bootstrapping. Parametric proportional hazards fitting with left truncation and right censoring for common families of distributions, piecewise constant hazards, and discrete models. Parametric accelerated failure time models for left truncated and right censored data.
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2025-04-22 |
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r-epanet2toolkit
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Enables simulation of water piping networks using 'EPANET'. The package provides functions from the 'EPANET' programmer's toolkit as R functions so that basic or customized simulations can be carried out from R. The package uses 'EPANET' version 2.1 from Open Water Analytics <https://github.com/OpenWaterAnalytics/EPANET/releases/tag/v2.1>.
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2025-04-22 |
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r-envnames
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Set of functions to keep track of user-defined environment names (which cannot be retrieved with the built-in function environmentName()). The package also provides functionality to search for objects in environments, deal with function calling chains, and retrieve an object's memory address.
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2025-04-22 |
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r-envirostat
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Functions and datasets to support the book by Nhu D Le and James V Zidek, Springer (2006).
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2025-04-22 |
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r-envipat
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Fast and very memory-efficient calculation of isotope patterns, subsequent convolution to theoretical envelopes (profiles) plus valley detection and centroidization or intensoid calculation. Batch processing, resolution interpolation, wrapper, adduct calculations and molecular formula parsing. Loos, M., Gerber, C., Corona, F., Hollender, J., Singer, H. (2015) <doi:10.1021/acs.analchem.5b00941>.
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2025-04-22 |
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r-envcpt
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Tools for automatic model selection and diagnostics for Climate and Environmental data. In particular the envcpt() function does automatic model selection between a variety of trend, changepoint and autocorrelation models. The envcpt() function should be your first port of call.
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2025-04-22 |
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r-entropyestimation
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Contains methods for the estimation of Shannon's entropy, variants of Renyi's entropy, mutual information, Kullback-Leibler divergence, and generalized Simpson's indices. The estimators used have a bias that decays exponentially fast.
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2025-04-22 |
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r-energy
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E-statistics (energy) tests and statistics for multivariate and univariate inference, including distance correlation, one-sample, two-sample, and multi-sample tests for comparing multivariate distributions, are implemented. Measuring and testing multivariate independence based on distance correlation, partial distance correlation, multivariate goodness-of-fit tests, k-groups and hierarchical clustering based on energy distance, testing for multivariate normality, distance components (disco) for non-parametric analysis of structured data, and other energy statistics/methods are implemented.
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2025-04-22 |
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r-endorse
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Fit the hierarchical and non-hierarchical Bayesian measurement models proposed by Bullock, Imai, and Shapiro (2011) <DOI:10.1093/pan/mpr031> to analyze endorsement experiments. Endorsement experiments are a survey methodology for eliciting truthful responses to sensitive questions. This methodology is helpful when measuring support for socially sensitive political actors such as militant groups. The model is fitted with a Markov chain Monte Carlo algorithm and produces the output containing draws from the posterior distribution.
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2025-04-22 |
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r-endogmnp
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endogMNP is an R package that fits a Bayesian multinomial probit model with endogenous selection, which is sometimes called an endogenous switching model. This can be used to model discrete choice data when respondents select themselves into one of several groups. This package is based on the MNP package by Kosuke Imai and David A. van Dyk. This package modifies their code.
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2025-04-22 |
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r-enc
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Implements an S3 class for storing 'UTF-8' strings, based on regular character vectors. Also contains routines to portably read and write 'UTF-8' encoded text files, to convert all strings in an object to 'UTF-8', and to create character vectors with various encodings.
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2025-04-22 |
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r-emvs
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An efficient expectation-maximization algorithm for fitting Bayesian spike-and-slab regularization paths for linear regression. Rockova and George (2014) <doi:10.1080/01621459.2013.869223>.
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2025-04-22 |
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r-emplik
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Empirical likelihood ratio tests for means/quantiles/hazards from possibly censored and/or truncated data. Now does regression too. This version contains some C code.
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2025-04-22 |
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r-empichar
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Evaluates the empirical characteristic function of univariate and multivariate samples. This package uses 'RcppArmadillo' for fast evaluation. It is also possible to export the code to be used in other packages at 'C++' level.
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2025-04-22 |
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r-emoa
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Collection of building blocks for the design and analysis of evolutionary multiobjective optimization algorithms.
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2025-04-22 |
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r-emmixskew
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EM algorithm for Fitting Mixture of Multivariate Skew Normal and Skew t Distributions. An implementation of the algorithm described in Wang, Ng, and McLachlan (2009) <doi:10.1109/DICTA.2009.88>.
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2025-04-22 |
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r-emmixmfa
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We provide functions to fit finite mixtures of multivariate normal or t-distributions to data with various factor analytic structures adopted for the covariance/scale matrices. The factor analytic structures available include mixtures of factor analyzers and mixtures of common factor analyzers. The latter approach is so termed because the matrix of factor loadings is common to components before the component-specific rotation of the component factors to make them white noise. Note that the component-factor loadings are not common after this rotation. Maximum likelihood estimators of model parameters are obtained via the Expectation-Maximization algorithm. See descriptions of the algorithms used in McLachlan GJ, Peel D (2000) <doi:10.1002/0471721182.ch8> McLachlan GJ, Peel D (2000) <ISBN:1-55860-707-2> McLachlan GJ, Peel D, Bean RW (2003) <doi:10.1016/S0167-9473(02)00183-4> McLachlan GJ, Bean RW, Ben-Tovim Jones L (2007) <doi:10.1016/j.csda.2006.09.015> Baek J, McLachlan GJ, Flack LK (2010) <doi:10.1109/TPAMI.2009.149> Baek J, McLachlan GJ (2011) <doi:10.1093/bioinformatics/btr112> McLachlan GJ, Baek J, Rathnayake SI (2011) <doi:10.1002/9781119995678.ch9>.
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2025-04-22 |
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r-emdist
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Package providing calculation of Earth Mover's Distance (EMD).
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2025-04-22 |
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r-emcluster
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EM algorithms and several efficient initialization methods for model-based clustering of finite mixture Gaussian distribution with unstructured dispersion in both of unsupervised and semi-supervised learning.
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2025-04-22 |
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r-emcdf
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Computes and visualizes empirical joint distribution of multivariate data with optimized algorithms and multi-thread computation. There is a faster algorithm using dynamic programming to compute the whole empirical joint distribution of a bivariate data. There are optimized algorithms for computing empirical joint CDF function values for other multivariate data. Visualization is focused on bivariate data. Levelplots and wireframes are included.
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2025-04-22 |
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r-emc
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random walk Metropolis, Metropolis Hasting, parallel tempering, evolutionary Monte Carlo, temperature ladder construction and placement
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2025-04-22 |
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r-embedsom
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Provides a smooth mapping of multidimensional points into low-dimensional space defined by a self-organizing map. Designed to work with 'FlowSOM' and flow-cytometry use-cases. See Kratochvil et al. (2019) <doi:10.1101/496869>.
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2025-04-22 |
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r-embc
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Unsupervised, multivariate, binary clustering for meaningful annotation of data, taking into account the uncertainty in the data. A specific constructor for trajectory analysis in movement ecology yields behavioural annotation of trajectories based on estimated local measures of velocity and turning angle, eventually with solar position covariate as a daytime indicator, ("Expectation-Maximization Binary Clustering for Behavioural Annotation").
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2025-04-22 |
