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r-exptest
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public |
Tests for the composite hypothesis of exponentiality
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2023-06-16 |
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r-icluster
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public |
Integrative clustering of multiple genomic data types using a joint latent variable model.
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2023-06-16 |
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r-ibdlabels
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Convert "label", "lexicographic", "jacquard" and "vec", full state description vector. All conversions are done to and from "label", as used in IBD_Haplo. More information regarding IBD_Haplo can be found at http://www.stat.washington.edu/thompson/Genepi/pangaea.shtml.
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2023-06-16 |
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r-ialsasynthesis
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Synthesizes information across collaborating research. Created specifically for Integrative Analysis of Longitudinal Studies of Aging (IALSA).
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2023-06-16 |
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r-htmltab
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public |
HTML tables are a valuable data source but extracting and recasting these data into a useful format can be tedious. This package allows to collect structured information from HTML tables. It is similar to `readHTMLTable()` of the XML package but provides three major advantages. First, the function automatically expands row and column spans in the header and body cells. Second, users are given more control over the identification of header and body rows which will end up in the R table, including semantic header information that appear throughout the body. Third, the function preprocesses table code, corrects common types of malformations, removes unneeded parts and so helps to alleviate the need for tedious post-processing.
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2023-06-16 |
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r-gweram
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This package provides functions to calculate the significance threshold for controlling the type I error rate in mixed-model association mapping analyses.
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2023-06-16 |
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r-flowfield
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Flow field forecasting draws information from an interpolated flow field of the observed time series to incrementally build a forecast.
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2023-06-16 |
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r-factorplot
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Methods to calculate, print, summarize and plot pairwise differences from GLMs, GLHT or Multinomial Logit models.
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2023-06-16 |
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r-iciter
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public |
A minimal wrapper around the NIH's 'iCite' API (<https://icite.od.nih.gov/api>). Given a vector of pubmed IDs, this package returns a dataframe of the information yielded by the 'iCite' API. The primary metrics yielded by 'iCite' are measurements of a paper's scientific influence and translational potential, but the API also returns other meta-data from the paper, including author names, publication journal, publication year, paper title, doi, and a number of other citation metrics.
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2023-06-16 |
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r-hmmcont
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The package includes the functions designed to analyse continuous observations processes with the Hidden Markov Model approach. They include Baum-Welch and Viterbi algorithms and additional visualisation functions. The observations are assumed to have Gaussian distribution and to be weakly stationary processes. The package was created for analyses of financial time series, but can also be applied to any continuous observations processes.
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2023-06-16 |
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r-genelistpie
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"geneListPie" package is for mapping a gene list to function categories defined in GOSlim or Kegg. The results can be plotted as a pie chart to provide a quick view of the genes distribution of the gene list among the function categories. The gene list must contain a list of gene symbols. The package contains a set of pre-processed gene sets obtained from Gene Ontology and MSigDB including human, mouse, rat and yeast. To provide a high level concise view, only GO slim and kegg are provided. The gene sets are regulared updated. User can also use customized gene sets. User can use the R Pie() or Pie3D() function for plotting the pie chart. Users can also choose to output the gene function mapping results and use external software such as Excel(R) for ploting.
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2023-06-16 |
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r-freestats
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A collections of useful statistical functions used in Columbia course W4240/W4400.
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2023-06-16 |
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r-fgpt
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A permutation technique to explore and control for spatial autocorrelation. This package contains low level functions for performing permutations and calculating statistics as well as higher level functions. Higher level functions are an easy to use function for performing spatially restricted permutation tests and summarize and plot results.
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2023-06-16 |
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r-icaff
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Imperialist Competitive Algorithm (ICA) <http://en.wikipedia.org/wiki/Imperialist_competitive_algorithm> is a computational method that is used to solve optimization problems of different types and it is the mathematical model and the computer simulation of human social evolution. The package provides a minimum value for the cost function and the best value for the optimization variables by Imperialist Competitive Algorithm. Users can easily define their own objective function depending on the problem at hand. This version has been successfully applied to solve optimization problems, for continuous functions.
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2023-06-16 |
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r-hripw
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Estimates the log hazard ratio associated with a binary exposure using a Cox PH model weighted by the propensity score. Propensity model is estimated using a simple logistic regression. Variance estimation takes into account the propensity score estimation step with the method proposed by Hajage et al. (2018) <doi:10.1002/bimj.201700330>. Both the average treatment effect on the overall (ATE) or the treated (ATT) population can be estimated. For the ATE estimation, both unstabilized and stabilized weights can be used.
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2023-06-16 |
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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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2023-06-16 |
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r-hapim
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The package provides a set of functions whose aim is to propose 4 methods of QTL detection. HAPimLD is an interval-mapping method designed for unrelated individuals with no family information that makes use of linkage disequilibrium. HAPimLDL is an interval-mapping method for design of half-sib families. It combines linkage analysis and linkage disequilibrium. HaploMax is based on an analysis of variance with a dose haplotype effect. HaploMaxHS is based on an analysis of variance with a sire effect and a dose haplotype effect in half-sib family design. Fundings for the package development were provided to the LDLmapQTL project by the ANR GENANIMAL program and APIS-GENE.
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2023-06-16 |
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r-hadoopstreaming
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Provides a framework for writing map/reduce scripts for use in Hadoop Streaming. Also facilitates operating on data in a streaming fashion, without Hadoop.
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2023-06-16 |
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r-gmediation
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Current version of this R package conducts mediation path analysis for multiple mediators in two stages.
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2023-06-16 |
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r-glmdm
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This package contains functions to perform generalized linear mixed Dirichlet models using posterior simulation.
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2023-06-16 |
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r-genesignaturefinder
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A tool for finding an ensemble gene-signature by a steepest ascending algorithm partially supervised by survival time data.
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2023-06-16 |
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r-estsimpdmp
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This package deals with the estimation of the jump rate for piecewise-deterministic Markov processes (PDMPs), from only one observation of the process within a long time. The main functions provide an estimate of this function. The state space may be discrete or continuous. The associated paper has been published in Scandinavian Journal of Statistics and is given in references. Other functions provide a method to simulate random variables from their (conditional) hazard rate, and then to simulate PDMPs.
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2023-06-16 |
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r-imfdata
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Search, extract and formulate IMF's datasets.
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2023-06-16 |
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r-hsiccca
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Canonical correlation analysis that extracts nonlinear correlation through the use of Hilbert Schmidt Independence Criterion and Centered Kernel Target Alignment.
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2023-06-16 |
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r-hkex.api
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A set of functions helps to retrieve data from HKEX (Hong Kong Stock Exchange), see <https://www.hkex.com.hk/> for more information. In addition, a function generates insert SQL statements from a dataframe.
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2023-06-16 |
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r-haploreconstruct
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Reconstruction of founder haplotype blocks from time series data.
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2023-06-16 |
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r-grpss
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Contains the tools to screen grouped variables, and select screened grouped variables afterwards. The main function grpss() can perform the grouped variables screening as well as selection for ultra-high dimensional data with group structure. The screening step is primarily used to reduce the dimensions of data so that the selection procedure can easily handle the moderate or low dimensions instead of ultra-high dimensions.
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2023-06-16 |
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r-fuzzytoolkituon
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A custom framework for working with Type 1 Fuzzy Logic, produced by the University of Nottingham IMA Group.
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2023-06-16 |
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r-forwardsearch
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Forward Search analysis of time series regressions. Implements the asymptotic theory developed in Johansen and Nielsen (2013, 2014).
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2023-06-16 |
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r-errorizer
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Provides a function to convert existing R functions into "errorized" versions with added logging and handling functionality when encountering errors or warnings. The errorize function accepts an existing R function as its first argument and returns a R function with the exact same arguments and functionality. However, if an error or warning occurs when running that "errorized" R function, it will save a .Rds file to the current working directory with the relevant objects and information required to immediately recreate the error.
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2023-06-16 |
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r-hw.pval
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HW.pval calculates plain and fully conditional root-mean-square, chi-square, and log likelihood-ratio P-values for the user-provided genotypic counts to be consistent with the Hardy-Weinberg equilibrium model. For further information on the Hardy-Weinberg equilibrium model and the pseudocode, refer to the paper "Testing Hardy-Weinberg equilibrium with a simple root-mean-square statistic" by Rachel Ward.
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2023-06-16 |
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r-homer
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A collection of functions useful for the analysis of building physics experiments.
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2023-06-16 |
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r-gdns
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To address the problem of insecurity of 'UDP'-based 'DNS' requests, 'Google Public DNS' offers 'DNS' resolution over an encrypted 'HTTPS' connection. 'DNS-over-HTTPS' greatly enhances privacy and security between a client and a recursive resolver, and complements 'DNSSEC' to provide end-to-end authenticated 'DNS' lookups. Functions that enable querying individual requests that bulk requests that return detailed responses and bulk requests are both provided. Support for reverse lookups is also provided. See <https://developers.google.com/speed/public-dns/docs/dns-over-https> for more information.
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2023-06-16 |
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r-g1dbn
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G1DBN performs DBN inference using 1st order conditional dependencies.
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2023-06-16 |
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r-hpbayes
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This package provides all the functions necessary to estimate the 8 parameters of the Heligman Pollard mortality model using a Bayesian Melding procedure with IMIS as well as to convert those parameters into age-specifc probabilities of death and a corresponding life table
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2023-06-16 |
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r-frt
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Perform full randomization tests.
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2023-06-16 |
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r-formalseries
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Implemented, addition, subtracking, multiplication, division in formal series rings of any number of variables (except division is only to 3 variables). Also are available "[" "[<-" operators.
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2023-06-16 |
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r-hcp
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Estimation of parameters in 3-segment (i.e. 2 change-point) regression models with heteroscedastic variances is provided based on both likelihood and hybrid Bayesian approaches, with and without continuity constraints at the change points.
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2023-06-16 |
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r-hbm
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A package for building hierarchical block matrices from association matrices and for performing multi-scale analysis. It specifically targets chromatin contact maps, generated from high-throughput chromosome conformation capture data, such as 5C and Hi-C, and provides methods for detecting movements and for computing chain hierarchy and region communicability across scales.
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2023-06-16 |
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r-gwidgets
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Provides a toolkit-independent API for building interactive GUIs. At least one of the 'gWidgetsXXX packages', such as gWidgetstcltk, needs to be installed. Some icons are on loan from the scigraphica project <http://scigraphica.sourceforge.net>.
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2023-06-16 |
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r-grassmannoptim
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Optimizing a function F(U), where U is a semi-orthogonal matrix and F is invariant under an orthogonal transformation of U
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2023-06-16 |
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r-gpr
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This package provides a minimalistic functionality necessary to apply Gaussian Process in R. They provide a selection of functionalities of GPML Matlab library.
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2023-06-16 |
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r-glaciersmbm
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A fully distributed glacier surface mass balance model developed for the simulation of accumulation and ablation processes on debris-free as well as debris-covered glaciers.
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2023-06-16 |
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r-exsic
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The package provides tools for botanists, plant taxonomists, curators of plant genebanks and perhaps other biological collections.
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2023-06-16 |
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r-gesca
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Fit a variety of component-based structural equation models.
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2023-06-16 |
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r-geotech
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A compilation of functions for performing calculations and creating plots that commonly arise in geotechnical engineering and soil mechanics. The types of calculations that are currently included are: (1) phase diagrams and index parameters, (2) grain-size distributions, (3) plasticity, (4) soil classification, (5) compaction, (6) groundwater, (7) subsurface stresses (geostatic and induced), (8) Mohr circle analyses, (9) consolidation settlement and rate, (10) shear strength, (11) bearing capacity, (12) lateral earth pressures, (13) slope stability, and (14) subsurface explorations. Geotechnical engineering students, educators, researchers, and practitioners will find this package useful.
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2023-06-16 |
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r-frost
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A compilation of empirical methods used by farmers and agronomic engineers to predict the minimum temperature to detect a frost night. These functions use variables such as environmental temperature, relative humidity, and dew point. See <http://sedici.unlp.edu.ar/handle/10915/72102> <http://www.fao.org/docrep/008/y7223e/y7223e0b.htm#bm11.8> for details.
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2023-06-16 |
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r-folderfun
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If you find yourself working on multiple different projects in R, you'll want a series of folders pointing to raw data, processed data, plot results, intermediate table outputs, etc. This package makes it easier to do that by providing a quick and easy way to create and use functions for project-level directories.
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2023-06-16 |
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r-foba
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foba is a package that implements forward, backward, and foba sparse learning algorithms for ridge regression, described in the paper "Adaptive Forward-Backward Greedy Algorithm for Learning Sparse Representations".
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2023-06-16 |
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r-flexpm
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Estimation of flexible parametric models for survival data.
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2023-06-16 |
