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r-centiserve
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Calculates centrality indices additional to the 'igraph' package centrality functions.
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2023-06-16 |
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r-censys
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The 'Censys' public search engine enables researchers to quickly ask questions about the hosts and networks that compose the Internet. Details on how 'Censys' was designed and how it is operated are available at <https://www.censys.io/about>. Both basic and extended research access queries are made available. More information on the SQL dialect used by the 'Censys' engine can be found at <https://cloud.google.com/bigquery/docs/reference/legacy-sql>.
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2023-06-16 |
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r-cbanalysis
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A set of functions that helps you to generate descriptive statistics based on the variable types.
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2023-06-16 |
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r-cfc
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Numerical integration of cause-specific survival curves to arrive at cause-specific cumulative incidence functions, with three usage modes: 1) Convenient API for parametric survival regression followed by competing-risk analysis, 2) API for CFC, accepting user-specified survival functions in R, and 3) Same as 2, but accepting survival functions in C++.
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2023-06-16 |
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r-cents
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Fit censored time series
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2023-06-16 |
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r-cec
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CEC divides data into Gaussian type clusters. The implementation allows the simultaneous use of various type Gaussian mixture models, performs the reduction of unnecessary clusters and it's able to discover new groups. Based on Spurek, P. and Tabor, J. (2014) <doi:10.1016/j.patcog.2014.03.006>.
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2023-06-16 |
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r-cbird
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The clustering of binary data with reducing the dimensionality (CLUSBIRD) proposed by Yamamoto and Hayashi (2015) <doi:10.1016/j.patcog.2015.05.026>.
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2023-06-16 |
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r-biganalytics
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Extend the 'bigmemory' package with various analytics. Functions 'bigkmeans' and 'binit' may also be used with native R objects. For 'tapply'-like functions, the bigtabulate package may also be helpful. For linear algebra support, see 'bigalgebra'. For mutex (locking) support for advanced shared-memory usage, see 'synchronicity'.
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2023-06-16 |
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r-checkpoint
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The goal of checkpoint is to solve the problem of package reproducibility in R. Specifically, checkpoint allows you to install packages as they existed on CRAN on a specific snapshot date as if you had a CRAN time machine. To achieve reproducibility, the checkpoint() function installs the packages required or called by your project and scripts to a local library exactly as they existed at the specified point in time. Only those packages are available to your project, thereby avoiding any package updates that came later and may have altered your results. In this way, anyone using checkpoint's checkpoint() can ensure the reproducibility of your scripts or projects at any time. To create the snapshot archives, once a day (at midnight UTC) Microsoft refreshes the Austria CRAN mirror on the "Microsoft R Archived Network" server (<https://mran.microsoft.com/>). Immediately after completion of the rsync mirror process, the process takes a snapshot, thus creating the archive. Snapshot archives exist starting from 2014-09-17.
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2023-06-16 |
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r-cge
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Developing general equilibrium models, computing general equilibrium and simulating economic dynamics with structural dynamic models in LI (2019, ISBN: 9787521804225) "General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press".
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2023-06-16 |
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r-clue
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CLUster Ensembles.
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2023-06-16 |
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r-ckmeans.1d.dp
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Fast optimal univariate clustering and segementation by dynamic programming. Three types of problem including univariate k-means, k-median, and k-segments are solved with guaranteed optimality and reproducibility. The core algorithm minimizes the sum of within-cluster distances using respective metrics. Its advantage over heuristic clustering algorithms in efficiency and accuracy is increasingly pronounced as the number of clusters k increases. Weighted k-means and unweighted k-segments algorithms can also optimally segment time series and perform peak calling. An auxiliary function generates histograms that are adaptive to patterns in data. In contrast to heuristic methods, this package provides a powerful set of tools for univariate data analysis with guaranteed optimality. Use four spaces when indenting paragraphs within the Description.
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2023-06-16 |
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r-ccp
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Significance tests for canonical correlation analysis, including asymptotic tests and a Monte Carlo method
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2023-06-16 |
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r-capitalr
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Provides Capital Budgeting Analysis functionality and the essential Annuity loan functions. Also computes Loan Amortization Schedules including schedules with irregular payments.
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2023-06-16 |
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r-camsrad
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Copernicus Atmosphere Monitoring Service (CAMS) radiations service provides time series of global, direct, and diffuse irradiations on horizontal surface, and direct irradiation on normal plane for the actual weather conditions as well as for clear-sky conditions. The geographical coverage is the field-of-view of the Meteosat satellite, roughly speaking Europe, Africa, Atlantic Ocean, Middle East. The time coverage of data is from 2004-02-01 up to 2 days ago. Data are available with a time step ranging from 15 min to 1 month. For license terms and to create an account, please see <http://www.soda-pro.com/web-services/radiation/cams-radiation-service>.
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2023-06-16 |
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r-cepreader
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Read Condensed Cornell Ecology Program ('CEP') and legacy 'CANOCO' files into R data frames.
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2023-06-16 |
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r-cccp
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Routines for solving convex optimization problems with cone constraints by means of interior-point methods. The implemented algorithms are partially ported from CVXOPT, a Python module for convex optimization (see <http://cvxopt.org> for more information).
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2023-06-16 |
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r-checkarg
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Utility functions that allow checking the basic validity of a function argument or any other value, including generating an error and assigning a default in a single line of code. The main purpose of the package is to provide simple and easily readable argument checking to improve code robustness.
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2023-06-16 |
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r-clickclust
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Clustering categorical sequences by means of finite mixtures with Markov model components is the main utility of ClickClust. The package also allows detecting blocks of equivalent states by forward and backward state selection procedures.
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2023-06-16 |
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r-cirt
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Jointly model the accuracy of cognitive responses and item choices within a bayesian hierarchical framework as described by Culpepper and Balamuta (2015) <doi:10.1007/s11336-015-9484-7>. In addition, the package contains the datasets used within the analysis of the paper.
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2023-06-16 |
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r-cinterpolate
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Simple interpolation methods designed to be used from C code. Supports constant, linear and spline interpolation. An R wrapper is included but this package is primarily designed to be used from C code using 'LinkingTo'. The spline calculations are classical cubic interpolation, e.g., Forsythe, Malcolm and Moler (1977) <ISBN: 9780131653320>.
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2023-06-16 |
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r-cfestimatequantiles
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Estimate quantiles using formula (18) from http://www.jaschke-net.de/papers/CoFi.pdf (Yaschke; 2001)
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2023-06-16 |
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r-census2016
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Contains selected variables from the time series profiles for statistical areas level 2 from the 2006, 2011, and 2016 censuses of population and housing, Australia. Also provides methods for viewing the questions asked for convenience during analysis.
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2023-06-16 |
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r-ccmm
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Estimate the direct and indirect (mediation) effects of treatment on the outcome when intermediate variables (mediators) are compositional and high-dimensional. Sohn, M.B. and Li, H. (2017). Compositional Mediation Analysis for Microbiome Studies. (AOAS: In revision).
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2023-06-16 |
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r-catspec
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`ctab' creates (multiway) percentage tables. `sqtab' contains a set of functions for estimating models for square tables such as quasi-independence, symmetry, uniform association. Examples show how to use these models in a loglinear model using glm or in a multinomial logistic model using mlogit or clogit
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2023-06-16 |
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r-cateselection
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A multi-factor dimensionality reduction based forward selection method for genetic association mapping.
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2023-06-16 |
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r-carrier
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Sending functions to remote processes can be wasteful of resources because they carry their environments with them. With the carrier package, it is easy to create functions that are isolated from their environment. These isolated functions, also called crates, print at the console with their total size and can be easily tested locally before being sent to a remote.
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2023-06-16 |
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r-cardiomodel
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Includes over 100 mixed-effects model structures describing the relationship between drug concentration and QT interval, heart rate/pulse rate or blood pressure. Given an exposure-response dataset, the tool fits each model structure to the observed data.
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2023-06-16 |
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r-captr
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Get text from images of text using Captricity Optical Character Recognition (OCR) API. Captricity allows you to get text from handwritten forms --- think surveys --- and other structured paper documents. And it can output data in form a delimited file keeping field information intact. For more information, read <https://shreddr.captricity.com/developer/overview/>.
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2023-06-16 |
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r-cgp
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Fit composite Gaussian process (CGP) models as described in Ba and Joseph (2012) "Composite Gaussian Process Models for Emulating Expensive Functions", Annals of Applied Statistics. The CGP model is capable of approximating complex surfaces that are not second-order stationary. Important functions in this package are CGP, print.CGP, summary.CGP, predict.CGP and plotCGP.
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2023-06-16 |
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r-cluscov
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Clustered covariate regression enables estimation and inference in both linear and non-linear models with linear predictor functions even when the design matrix is column rank deficient. Routines in this package implement algorithms in Soale and Tsyawo (2019) <doi:10.13140/RG.2.2.32355.81441>.
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2023-06-16 |
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r-chiptest
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Nonparametric Tests to identify the differential enrichment region for two conditions or time-course ChIP-seq data. It includes: data preprocessing function, estimation of a small constant used in hypothesis testing, a kernel-based two sample nonparametric test, two assumption-free two sample nonparametric test.
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2023-06-16 |
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r-cglasso
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The l1-penalized censored Gaussian graphical model is an extension of the graphical lasso estimator developed to handle datasets with censored observations. An EM-like algorithm is implemented to estimate the parameters of the censored Gaussian graphical models.
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2023-06-16 |
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r-cggp
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Run computer experiments using the adaptive composite grid algorithm with a Gaussian process model. The algorithm works best when running an experiment that can evaluate thousands of points from a deterministic computer simulation. This package is an implementation of a forthcoming paper by Plumlee, Erickson, Ankenman, et al. For a preprint of the paper, contact the maintainer of this package.
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2023-06-16 |
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r-ccchooser
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ccChooser can be used to developing and evaluation of core collections for germplasm collections (entire collection). This package used to develop a core collection for biological resources like genbanks. A core collection is defined as a sample of accessions that represent, with the lowest possible level of redundancy, the genetic diversity (the richness of gene or genotype categories) of the entire collection. The establishing a core collection that represents genetic diversity of the entire collection with minimum loss of its original diversity and minimum redundancies is an important problem for gene-banks curators and crop breeders. ccChooser establish core collection base on phenotypic data (agronomic, morphological, phenological).
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2023-06-16 |
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r-cascadedata
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These experimental expression data (5 leukemic 'CLL' B-lymphocyte of aggressive form from 'GSE39411', <doi:10.1073/pnas.1211130110>), after B-cell receptor stimulation, are used as examples by packages such as the 'Cascade' one, a modeling tool allowing gene selection, reverse engineering, and prediction in cascade networks. Jung, N., Bertrand, F., Bahram, S., Vallat, L., and Maumy-Bertrand, M. (2014) <doi:10.1093/bioinformatics/btt705>.
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2023-06-16 |
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r-carletonstats
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Includes commands for bootstrapping and permutation tests, a command for created grouped bar plots, and a demo of the quantile-normal plot for data drawn from different distributions.
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2023-06-16 |
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r-caribou
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This is a package for estimating the population size of migratory caribou herds based on large scale aggregations monitored by radio telemetry. It implements the methodology found in the article by Rivest et al. (1998) about caribou abundance estimation. It also includes a function based on the Lincoln-Petersen Index as applied to radio telemetry data by White and Garrott (1990).
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2023-06-16 |
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r-caper
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Functions for performing phylogenetic comparative analyses.
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2023-06-16 |
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r-casmap
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A significant pattern mining-based toolbox for region-based genome-wide association studies and higher-order epistasis analyses, implementing the methods described in Llinares-López et al. (2017) <doi:10.1093/bioinformatics/btx071>.
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2023-06-16 |
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r-changepointsvar
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Detection of change-points for variance of heteroscedastic Gaussian variables with piecewise constant variance function. Adelfio, G. (2012), Change-point detection for variance piecewise constant models, Communications in Statistics, Simulation and Computation, 41:4, 437-448, <doi:10.1080/03610918.2011.592248>.
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2023-06-16 |
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r-clogitl1
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Tools for the fitting and cross validation of exact conditional logistic regression models with lasso and elastic net penalties. Uses cyclic coordinate descent and warm starts to compute the entire path efficiently.
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2023-06-16 |
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r-chaos01
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Computes and visualize the results of the 0-1 test for chaos proposed by Gottwald and Melbourne (2004) <DOI:10.1137/080718851>. The algorithm is available in parallel for the independent values of parameter c. Additionally, fast RQA is added to distinguish chaos from noise.
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2023-06-16 |
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r-cfma
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Performs causal functional mediation analysis (CFMA) for functional treatment, functional mediator, and functional outcome. This package includes two functional mediation model types: (1) a concurrent mediation model and (2) a historical influence mediation model. See Zhao et al. (2018), Functional Mediation Analysis with an Application to Functional Magnetic Resonance Imaging Data, <arXiv:1805.06923> for details.
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2023-06-16 |
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r-censcov
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Implementations of threshold regression approaches for linear regression models with a covariate subject to random censoring, including deletion threshold regression and completion threshold regression. Reverse survival regression, which flip the role of response variable and the covariate, is also considered.
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2023-06-16 |
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r-cdb
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A constant database is a data structure created by Daniel J. Bernstein in his cdb package. Its format consists on a sequence of (key,value)-pairs. This R package replicates the basic utilities for reading (cdbget) and writing (cdbdump) constant databases.
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2023-06-16 |
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r-capushe
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Calibration of penalized criteria for model selection. The calibration methods available are based on the slope heuristics.
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2023-06-16 |
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r-captioner
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Provides a method for automatically numbering figures, tables, or other objects. Captions can be displayed in full, or as citations. This is especially useful for adding figures and tables to R markdown documents without having to numbering them manually.
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2023-06-16 |
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r-capn
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Implements approximation methods for natural capital asset prices suggested by Fenichel and Abbott (2014) <doi:10.1086/676034> in Journal of the Associations of Environmental and Resource Economists (JAERE), Fenichel et al. (2016) <doi:10.1073/pnas.1513779113> in Proceedings of the National Academy of Sciences (PNAS), and Yun et al. (2017) in PNAS (accepted), and their extensions: creating Chebyshev polynomial nodes and grids, calculating basis of Chebyshev polynomials, approximation and their simulations for: V-approximation (single and multiple stocks, PNAS), P-approximation (single stock, PNAS), and Pdot-approximation (single stock, JAERE). Development of this package was generously supported by the Knobloch Family Foundation.
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2023-06-16 |
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r-cacirt
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Computes classification accuracy and consistency indices under Item Response Theory. Implements the total score IRT-based methods in Lee, Hanson & Brennen (2002) and Lee (2010), the IRT-based methods in Rudner (2001, 2005), and the total score nonparametric methods in Lathrop & Cheng (2014). For dichotomous and polytomous tests.
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2023-06-16 |
