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r-hiertest
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Implementation of the convex hierarchical testing (CHT) procedure introduced in Bien, Simon, and Tibshirani (2015) Convex Hierarchical Testing of Interactions. Annals of Applied Statistics. Vol. 9, No. 1, 27-42.
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2025-04-22 |
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r-hierdiversity
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Hierarchical group-wise partitioning of phenotypic diversity into within-group (alpha), among-group (beta), and pooled-total (gamma) components using Hill numbers. Turnover and overlap are also calculated as standardized alternatives to beta diversity. Hierarchical bootstrapping is used to approximate uncertainty around each diversity component.
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2025-04-22 |
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r-hiddenf
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Computes the ACMIF test and Bonferroni-adjusted p-value of interaction in two-factor studies. Produces corresponding interaction plot and analysis of variance tables and p-values from several other tests of non-additivity.
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2025-04-22 |
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r-hgsl
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Estimation of high-dimensional multi-response regression with heterogeneous noises under Heterogeneous group square-root Lasso penalty. For details see: Ren, Z., Kang, Y., Fan, Y. and Lv, J. (2018)<arXiv:1606.03803>.
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2025-04-22 |
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r-hgnchelper
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Contains functions for identifying and correcting HGNC human gene symbols and MGI mouse gene symbols which have been converted to date format by Excel, withdrawn, or aliased. Also contains functions for reversibly converting between HGNC symbols and valid R names.
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2025-04-22 |
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r-hglm.data
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This data-only package was created for distributing data used in the examples of the 'hglm' package.
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2025-04-22 |
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r-hflights
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A data only package containing commercial domestic flights that departed Houston (IAH and HOU) in 2011.
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2025-04-22 |
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r-hexview
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Functions to view files in raw binary form like in a hex editor. Additional functions to specify and read arbitrary binary formats.
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2025-04-22 |
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r-het.test
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An implementation of White's Test for Heteroskedasticity as outlined in Doornik (1996).
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2025-04-22 |
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r-hett
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Functions for the fitting and summarizing of heteroscedastic t-regression.
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2025-04-22 |
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r-hero
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Data and data-generating functions related to the paper Fast Bivariate Penalized Splines by Xiao et al. (2012) <doi:10.1111/rssb.12007>. A hero is a specific type of sandwich. Dictionary.com (2018) <https://www.dictionary.com> describes a hero as: a large sandwich, usually consisting of a small loaf of bread or long roll cut in half lengthwise and containing a variety of ingredients, as meat, cheese, lettuce, and tomatoes.
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2025-04-22 |
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r-hermite
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Probability functions and other utilities for the generalized Hermite distribution.
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2025-04-22 |
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r-heritability
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Implements marker-based estimation of heritability when observations on genetically identical replicates are available. These can be either observations on individual plants or plot-level data in a field trial. Heritability can then be estimated using a mixed model for the individual plant or plot data. For comparison, also mixed-model based estimation using genotypic means and estimation of repeatability with ANOVA are implemented. For illustration the package contains several datasets for the model species Arabidopsis thaliana.
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2025-04-22 |
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r-here
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Constructs paths to your project's files. The 'here()' function uses a reasonable heuristics to find your project's files, based on the current working directory at the time when the package is loaded. Use it as a drop-in replacement for 'file.path()', it will always locate the files relative to your project root.
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2025-04-22 |
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r-helsinki
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Tools for accessing various open data sources in the Helsinki region in Finland. Current data sources include the Real Estate Department (<http://ptp.hel.fi/avoindata/>), Service Map API (<http://api.hel.fi/servicemap/v1/>), Linked Events API (<http://api.hel.fi/linkedevents/v0.1/>), Helsinki Region Infoshare statistics API (<https://dev.hel.fi/stats/>).
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2025-04-22 |
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r-helpersmg
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Contains many functions useful for managing 'NetCDF' files (see <http://en.wikipedia.org/wiki/NetCDF>), get tide levels on any point of the globe, get moon phase and time for sun rise and fall, analyse and reconstruct periodic time series of temperature with irregular sinusoidal pattern, show scales and wind rose in plot with change of color of text, Metropolis-Hastings algorithm for Bayesian MCMC analysis, plot graphs or boxplot with error bars, search files in disk by there names or their content, read the contents of all files from a folder at one time.
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2025-04-22 |
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r-helminthr
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Access to large host-parasite data is often hampered by the availability of data and difficulty in obtaining it in a programmatic way to encourage analyses. 'helminthR' provides a programmatic interface to the London Natural History Museum's host-parasite database, one of the largest host-parasite databases existing currently <http://www.nhm.ac.uk/research-curation/scientific-resources/taxonomy-systematics/host-parasites/>. The package allows the user to query by host species, parasite species, and geographic location.
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2025-04-22 |
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r-hellojavaworld
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A dummy package to demonstrate how to interface to a jar file that resides inside an R package.
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2025-04-22 |
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r-hellno
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Base R's default setting for 'stringsAsFactors' within 'data.frame()' and 'as.data.frame()' is supposedly the most often complained about piece of code in the R infrastructure. The 'hellno' package provides an explicit solution without changing R itself or having to mess around with options. It tries to solve this problem by providing alternative 'data.frame()' and 'as.data.frame()' functions that are in fact simple wrappers around base R's 'data.frame()' and 'as.data.frame()' with 'stringsAsFactors' option set to 'HELLNO' ( which in turn equals FALSE ) by default.
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2025-04-22 |
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r-hedgehog
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Hedgehog will eat all your bugs. 'Hedgehog' is a property-based testing package in the spirit of 'QuickCheck'. With 'Hedgehog', one can test properties of their programs against randomly generated input, providing far superior test coverage compared to unit testing. One of the key benefits of 'Hedgehog' is integrated shrinking of counterexamples, which allows one to quickly find the cause of bugs, given salient examples when incorrect behaviour occurs.
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2025-04-22 |
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r-heatmap.plus
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Allows heatmap matrix to have non-identical X- and Y-dimensions. Allows multiple tracks of annotation for RowSideColors and ColSideColors.
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2025-04-22 |
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r-heatmapfit
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Generates a fit plot for diagnosing misspecification in models of binary dependent variables, and calculates the related heatmap fit statistic described in Esarey and Pierce (2012) <DOI:10.1093/pan/mps026>.
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2025-04-22 |
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r-heatex
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The heatex package calculates heat storage in the body and the components of heat exchange (conductive, convective, radiative, and evaporative) between the body and the environment during physical activity based on the principles of partitional calorimetry. The program enables heat exchange calculations for a range of environmental conditions when wearing various clothing ensembles.
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2025-04-22 |
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r-hdpca
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In high-dimensional settings: Estimate the number of distant spikes based on the Generalized Spiked Population (GSP) model. Estimate the population eigenvalues, angles between the sample and population eigenvectors, correlations between the sample and population PC scores, and the asymptotic shrinkage factors. Adjust the shrinkage bias in the predicted PC scores.
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2025-04-22 |
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r-hdmd
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High Dimensional Molecular Data (HDMD) typically have many more variables or dimensions than observations or replicates (D>>N). This can cause many statistical procedures to fail, become intractable, or produce misleading results. This package provides several tools to reduce dimensionality and analyze biological data for meaningful interpretation of results. Factor Analysis (FA), Principal Components Analysis (PCA) and Discriminant Analysis (DA) are frequently used multivariate techniques. However, PCA methods prcomp and princomp do not reflect the proportion of total variation of each principal component. Loadings.variation displays the relative and cumulative contribution of variation for each component by accounting for all variability in data. When D>>N, the maximum likelihood method cannot be applied in FA and the the principal axes method must be used instead, as in factor.pa of the psych package. The factor.pa.ginv function in this package further allows for a singular covariance matrix by applying a general inverse method to estimate factor scores. Moreover, factor.pa.ginv removes and warns of any variables that are constant, which would otherwise create an invalid covariance matrix. Promax.only further allows users to define rotation parameters during factor estimation. Similar to the Euclidean distance, the Mahalanobis distance estimates the relationship among groups. pairwise.mahalanobis computes all such pairwise Mahalanobis distances among groups and is useful for quantifying the separation of groups in DA. Genetic sequences are composed of discrete alphabetic characters, which makes estimates of variability difficult. MolecularEntropy and MolecularMI calculate the entropy and mutual information to estimate variability and covariability, respectively, of DNA or Amino Acid sequences. Functional grouping of amino acids (Atchley et al 1999) is also available for entropy and mutual information estimation. Mutual information values can be normalized by NMI to account for the background distribution arising from the stochastic pairing of independent, random sites. Alternatively, discrete alphabetic sequences can be transformed into biologically informative metrics to be used in various multivariate procedures. FactorTransform converts amino acid sequences using the amino acid indices determined by Atchley et al 2005.
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2025-04-22 |
