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r-hnp
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public |
Generates (half-)normal plots with simulation envelopes using different diagnostics from a range of different fitted models. A few example datasets are included.
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2024-01-16 |
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r-hmstimer
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public |
Tracks elapsed clock time using a `hms::hms()` scalar, which if running has an attribute named start that specifies the system time when the timer was started. The elapsed time is the value of the scalar plus the difference between the current system time and the system time when the timer was started.
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2024-01-16 |
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r-hms
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public |
Implements an S3 class for storing and formatting time-of-day values, based on the 'difftime' class.
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2024-01-16 |
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r-hmr
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public |
Statistical analysis of static chamber concentration data for trace gas flux estimation.
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2024-01-16 |
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r-hmmpa
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public |
Analysing time-series accelerometer data to quantify length and intensity of physical activity using hidden Markov models. It also contains the traditional cut-off point method. Witowski V, Foraita R, Pitsiladis Y, Pigeot I, Wirsik N (2014)<doi:10.1371/journal.pone.0114089>.
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2024-01-16 |
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r-hmm
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Easy to use library to setup, apply and make inference with discrete time and discrete space Hidden Markov Models.
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2024-01-16 |
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r-hierfstat
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public |
Estimates hierarchical F-statistics from haploid or diploid genetic data with any numbers of levels in the hierarchy, following the algorithm of Yang (Evolution(1998), 52:950). Tests via randomisations the significance of each F and variance components, using the likelihood-ratio statistics G (Goudet et al. (1996) <https://academic.oup.com/genetics/article/144/4/1933/6017091>). Estimates genetic diversity statistics for haploid and diploid genetic datasets in various formats, including inbreeding and coancestry coefficients, and population specific F-statistics following Weir and Goudet (2017) <https://academic.oup.com/genetics/article/206/4/2085/6072590>.
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2024-01-16 |
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r-hmeasure
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public |
Classification performance metrics that are derived from the ROC curve of a classifier. The package includes the H-measure performance metric as described in <http://link.springer.com/article/10.1007/s10994-009-5119-5>, which computes the minimum total misclassification cost, integrating over any uncertainty about the relative misclassification costs, as per a user-defined prior. It also offers a one-stop-shop for other scalar metrics of performance, including sensitivity, specificity and many others, and also offers plotting tools for ROC curves and related statistics.
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2024-01-16 |
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r-hh
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public |
Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.
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2024-01-16 |
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r-hk80
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This is a collection of functions for converting coordinates between WGS84UTM, WGS84GEO, HK80UTM, HK80GEO and HK1980GRID Coordinate Systems used in Hong Kong SAR, based on the algorithms described in Explanatory Notes on Geodetic Datums in Hong Kong by Survey and Mapping Office Lands Department, Hong Kong Government (1995).
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2024-01-16 |
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r-hmdhfdplus
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public |
Utilities for reading data from the Human Mortality Database (<https://www.mortality.org>), Human Fertility Database (<https://www.humanfertility.org>), and similar databases from the web or locally into an R session as data.frame objects. These are the two most widely used sources of demographic data to study basic demographic change, trends, and develop new demographic methods. Other supported databases at this time include the Human Fertility Collection (<https://www.fertilitydata.org>), The Japanese Mortality Database (<https://www.ipss.go.jp/p-toukei/JMD/index-en.html>), and the Canadian Human Mortality Database (<http://www.bdlc.umontreal.ca/chmd/>). Arguments and data are standardized.
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2024-01-16 |
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r-hive
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public |
Hadoop InteractiVE facilitates distributed computing via the MapReduce paradigm through R and Hadoop. An easy to use interface to Hadoop, the Hadoop Distributed File System (HDFS), and Hadoop Streaming is provided.
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2024-01-16 |
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r-historydata
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public |
These sample data sets are intended for historians learning R. They include population, institutional, religious, military, and prosopographical data suitable for mapping, quantitative analysis, and network analysis.
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2024-01-16 |
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r-histogram
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public |
Automatic construction of regular and irregular histograms as described in Rozenholc/Mildenberger/Gather (2010).
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2024-01-16 |
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r-histdata
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public |
The 'HistData' package provides a collection of small data sets that are interesting and important in the history of statistics and data visualization. The goal of the package is to make these available, both for instructional use and for historical research. Some of these present interesting challenges for graphics or analysis in R.
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2024-01-16 |
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r-hindexcalculator
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public |
H(x) is the h-index for the past x years. Here, the h(x) of a scientist/department/etc. can be calculated using the exported excel file from a Web of Science citation report of a search. Also calculated is the year of first publication, total number of publications, and sum of times cited for the specified period. Therefore, for h-10: the date of first publication, total number of publications, and sum of times cited in the past 10 years are calculated. Note: the excel file has to first be saved in a .csv format.
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2024-01-16 |
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r-higrad
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Implements the Hierarchical Incremental GRAdient Descent (HiGrad) algorithm, a first-order algorithm for finding the minimizer of a function in online learning just like stochastic gradient descent (SGD). In addition, this method attaches a confidence interval to assess the uncertainty of its predictions. See Su and Zhu (2018) <arXiv:1802.04876> for details.
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2024-01-16 |
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r-highttest
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public |
Implements the method developed by Cao and Kosorok (2011) for the significance analysis of thousands of features in high-dimensional biological studies. It is an asymptotically valid data-driven procedure to find critical values for rejection regions controlling the k-familywise error rate, false discovery rate, and the tail probability of false discovery proportion.
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2024-01-16 |
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r-highscreen
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public |
Can be used to carry out extraction, normalization, quality control (QC), candidate hits identification and visualization for plate based assays, in drug discovery. The package methods were applied in H. W. Choi et al. "Identification of Novel Mast Cell Activators Using Cell-Based High-Throughput Screening", SLAS Discovery 24(6), 2019. This project was funded by the Division of Allergy, Immunology, and Transplantation, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services, under contract No. HHSN272201400054C entitled "Adjuvant Discovery For Vaccines Against West Nile Virus and Influenza", awarded to Duke University and lead by Drs. Herman Staats and Soman Abraham.
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2024-01-16 |
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r-highr
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None |
Provides syntax highlighting for R source code. Currently it supports LaTeX and HTML output. Source code of other languages is supported via Andre Simon's highlight package (<http://www.andre-simon.de>).
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2024-01-16 |
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r-highmean
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public |
Provides various tests for comparing high-dimensional mean vectors in two sample populations.
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2024-01-16 |
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r-highlighthtml
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public |
A tool to format R markdown with CSS ids for HTML output. The tool may be most helpful for those using markdown to create reproducible documents. The biggest limitations in formatting is the knowledge of CSS by the document authors.
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2024-01-16 |
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r-highcharter
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A wrapper for the 'Highcharts' library including shortcut functions to plot R objects. 'Highcharts' <https://www.highcharts.com/> is a charting library offering numerous chart types with a simple configuration syntax.
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2024-01-16 |
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r-hiddenf
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public |
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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2024-01-16 |
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r-heplots
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public |
Provides HE plot and other functions for visualizing hypothesis tests in multivariate linear models. HE plots represent sums-of-squares-and-products matrices for linear hypotheses and for error using ellipses (in two dimensions) and ellipsoids (in three dimensions). The related 'candisc' package provides visualizations in a reduced-rank canonical discriminant space when there are more than a few response variables.
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2024-01-16 |
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r-hglm.data
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public |
This data-only package was created for distributing data used in the examples of the 'hglm' package.
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2024-01-16 |
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r-hgnchelper
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public |
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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2024-01-16 |
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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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2024-01-16 |
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r-hflights
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public |
A data only package containing commercial domestic flights that departed Houston (IAH and HOU) in 2011.
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2024-01-16 |
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r-heatmaply
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public |
Create interactive cluster 'heatmaps' that can be saved as a stand- alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical method for visualizing high-dimensional data, in which a table of numbers are encoded as a grid of colored cells. The rows and columns of the matrix are ordered to highlight patterns and are often accompanied by 'dendrograms'. 'Heatmaps' are used in many fields for visualizing observations, correlations, missing values patterns, and more. Interactive 'heatmaps' allow the inspection of specific value by hovering the mouse over a cell, as well as zooming into a region of the 'heatmap' by dragging a rectangle around the relevant area. This work is based on the 'ggplot2' and 'plotly.js' engine. It produces similar 'heatmaps' to 'heatmap.2' with the advantage of speed ('plotly.js' is able to handle larger size matrix), the ability to zoom from the 'dendrogram' panes, and the placing of factor variables in the sides of the 'heatmap'.
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2024-01-16 |
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r-hexview
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public |
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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2024-01-16 |
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r-heemod
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public |
An implementation of the modelling and reporting features described in reference textbook and guidelines (Briggs, Andrew, et al. Decision Modelling for Health Economic Evaluation. Oxford Univ. Press, 2011; Siebert, U. et al. State-Transition Modeling. Medical Decision Making 32, 690-700 (2012).): deterministic and probabilistic sensitivity analysis, heterogeneity analysis, time dependency on state-time and model-time (semi-Markov and non-homogeneous Markov models), etc.
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2024-01-16 |
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r-hett
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public |
Functions for the fitting and summarizing of heteroscedastic t-regression.
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2024-01-16 |
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r-hero
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public |
An implementation of the sandwich smoother proposed in 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. Also implements the spatio-temporal sandwich smoother of French and Kokoszka (2021) <doi:10.1016/j.spasta.2020.100413>.
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2024-01-16 |
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r-hermite
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public |
Probability functions and other utilities for the generalized Hermite distribution.
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2024-01-16 |
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r-heritability
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public |
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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2024-01-16 |
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r-here
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public |
Constructs paths to your project's files. Declare the relative path of a file within your project with 'i_am()'. Use the 'here()' function as a drop-in replacement for 'file.path()', it will always locate the files relative to your project root.
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2024-01-16 |
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r-helsinki
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public |
Tools for accessing various open data APIs in the Helsinki region in Finland. Current data sources include the Service Map API, Linked Events API, and Helsinki Region Infoshare statistics API.
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2024-01-16 |
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r-helpersmg
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Contains miscellaneous functions useful for managing 'NetCDF' files (see <https://en.wikipedia.org/wiki/NetCDF>), get moon phase and time for sun rise and fall, tide level, 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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2024-01-16 |
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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 <https://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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2024-01-16 |
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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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2024-01-16 |
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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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2024-01-16 |
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r-heatmap3
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public |
An improved heatmap package. Completely compatible with the original R function 'heatmap', and provides more powerful and convenient features.
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2024-01-16 |
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r-healthyr.ts
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public |
Hospital time series data analysis workflow tools, modeling, and automations. This library provides many useful tools to review common administrative time series hospital data. Some of these include average length of stay, and readmission rates. The aim is to provide a simple and consistent verb framework that takes the guesswork out of everything.
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2024-01-16 |
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r-hedgehog
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public |
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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2024-01-16 |
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r-heatmapfit
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public |
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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2024-01-16 |
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r-hdm
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public |
Implementation of selected high-dimensional statistical and econometric methods for estimation and inference. Efficient estimators and uniformly valid confidence intervals for various low-dimensional causal/ structural parameters are provided which appear in high-dimensional approximately sparse models. Including functions for fitting heteroscedastic robust Lasso regressions with non-Gaussian errors and for instrumental variable (IV) and treatment effect estimation in a high-dimensional setting. Moreover, the methods enable valid post-selection inference and rely on a theoretically grounded, data-driven choice of the penalty. Chernozhukov, Hansen, Spindler (2016) <arXiv:1603.01700>.
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2024-01-16 |
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r-h2o
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public |
R interface for 'H2O', the scalable open source machine learning platform that offers parallelized implementations of many supervised and unsupervised machine learning algorithms such as Generalized Linear Models (GLM), Gradient Boosting Machines (including XGBoost), Random Forests, Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes, Generalized Additive Models (GAM), ANOVA GLM, Cox Proportional Hazards, K-Means, PCA, ModelSelection, Word2Vec, as well as a fully automatic machine learning algorithm (H2O AutoML).
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2024-01-16 |
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r-heatex
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public |
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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2024-01-16 |
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r-hdpca
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public |
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. Dey, R. and Lee, S. (2019) <doi:10.1016/j.jmva.2019.02.007>.
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2024-01-16 |
