Package ShrinkCovMat
|
|
|
- Dwain Perkins
- 5 years ago
- Views:
Transcription
1 Type Package Package ShrinkCovMat Title Shrinkage Covariance Matrix Estimators Version Author July 11, 2017 Maintainer Provides nonparametric Steinian shrinkage estimators of the covariance matrix that are suitable in high dimensional settings, that is when the number of variables is larger than the sample size. License GPL-2 GPL-3 Depends R (>= 2.10) LazyLoad yes NeedsCompilation no URL BugReports Repository CRAN Date/Publication :18:11 UTC R topics documented: ShrinkCovMat-package colon shrinkcovmat.equal shrinkcovmat.identity shrinkcovmat.unequal targetselection Index 9 1
2 2 ShrinkCovMat-package ShrinkCovMat-package Shrinkage Covariance Matrix Estimators Provides nonparametric Stein-type shrinkage estimators of the covariance matrix that are suitable and statistically efficient when the number of variables is larger than the sample size. These estimators are non-singular and well-conditioned regardless of the dimensionality. Each of the implemented shrinkage covariance matrix estimators is a convex linear combination of the sample covariance matrix and of a target matrix. Three options are considered for the target matrix: (a) the diagonal matrix with diagonal elements the average of the sample variances (shrinkcovmat.equal), (b) the diagonal matrix with diagonal elements the corresponding sample variances (shrinkcovmat.unequal), and (c) the identity matrix (shrinkcovmat.identity). The optimal shrinkage intensity determines how much the sample covariance matrix will be shrunk towards the selected target matrix. Estimation of the corresponding optimal shrinkage intensities is discussed in Touloumis (2015). The function (targetselection) is designed to ease the selection of the target matrix. Maintainer: <A.Touloumis@brighton.ac.uk> See Also shrinkcovmat.equal, shrinkcovmat.unequal, shrinkcovmat.identity and targetselection. ## Estimating the covariance matrix for the ## normal tissue group. Sigmahat1 <- shrinkcovmat.equal(normalgroup) Sigmahat1 Sigmahat2 <- shrinkcovmat.identity(normalgroup) Sigmahat2 Sigmahat3 <- shrinkcovmat.unequal(normalgroup) Sigmahat3
3 colon 3 colon Colon Cancer Dataset The dataset describes a colon cancer study (Alon et al., 1999) in which gene expression levels were measured on 40 normal tissues and on 22 tumor colon tissues. Note that a logarithmic (base 10) transformation has been applied to the gene expression levels. Format A data frame in which the rows correspond to 2000 genes and the columns to 62 tissues. The first 40 columns belong to the normal tissue group while the last 22 columns to the tumor colon tissue group. Source [Last Assessed: ] Alon, U., Barkai, N., Notterman, D.A., Gish, K., Ybarra, S., Mack, D. and Levine, A.J. (1999) Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays. Proceedings of the National Academy of Sciences of the United States of America 96, summary(colon) shrinkcovmat.equal Shrinking the Sample Covariance Matrix Towards a Diagonal Matrix with Equal Diagonal Elements Provides a nonparametric Stein-type shrinkage estimator of the covariance matrix that is a linear combination of the sample covariance matrix and of a diagonal matrix with the average of the sample variances on the diagonal and zeros elsewhere.
4 4 shrinkcovmat.equal shrinkcovmat.equal(data, = FALSE) Arguments data a numeric matrix containing the data. a logical indicating if the mean vector is the zero vector. The rows of the data matrix data correspond to variables and the columns to subjects. Value Returns an object of the class "shrinkcovmathat" that has components: Sigmahat lambdahat Sigmasample Target The Stein-type shrinkage estimator of the covariance matrix. The estimated optimal shrinkage intensity. The sample covariance matrix. The target covariance matrix. If the data are around their mean vector. See Also shrinkcovmat.unequal and shrinkcovmat.identity. TumorGroup <- colon[, 41:62] Sigmahat.NormalGroup <- shrinkcovmat.equal(normalgroup) Sigmahat.NormalGroup Sigmahat.TumorGroup <- shrinkcovmat.equal(tumorgroup) Sigmahat.TumorGroup
5 shrinkcovmat.identity 5 shrinkcovmat.identity Shrinking the Sample Covariance Matrix Towards the Identity Matrix Provides a nonparametric Stein-type shrinkage estimator of the covariance matrix that is a linear combination of the sample covariance matrix and of the identity matrix. shrinkcovmat.identity(data, = FALSE) Arguments data a numeric matrix containing the data. a logical indicating if the mean vector is the zero vector. The rows of the data matrix data correspond to variables and the columns to subjects. Value Returns an object of the class "shrinkcovmathat" that has components: Sigmahat lambdahat Sigmasample Target The Stein-type shrinkage estimator of the covariance matrix. The estimated optimal shrinkage intensity. The sample covariance matrix. The target covariance matrix. If the data are around their mean vector. See Also shrinkcovmat.equal and shrinkcovmat.unequal.
6 6 shrinkcovmat.unequal TumorGroup <- colon[, 41:62] Sigmahat.NormalGroup <- shrinkcovmat.identity(normalgroup) Sigmahat.NormalGroup Sigmahat.TumorGroup <- shrinkcovmat.identity(tumorgroup) Sigmahat.TumorGroup shrinkcovmat.unequal Shrinking the Sample Covariance Matrix Towards a Diagonal Matrix with Diagonal Elements the Sample Variances. Provides a nonparametric Stein-type shrinkage estimator of the covariance matrix that is a linear combination of the sample covariance matrix and of the diagonal matrix with elements the corresponding sample variances on the diagonal and zeros elsewhere. shrinkcovmat.unequal(data, = FALSE) Arguments data a numeric matrix containing the data. a logical indicating if the vectors are around their mean vector. The rows of the data matrix data correspond to variables and the columns to subjects. Value Returns an object of the class "shrinkcovmathat" that has components: Sigmahat lambdahat Sigmasample Target The Stein-type shrinkage estimator of the covariance matrix. The estimated optimal shrinkage intensity. The sample covariance matrix. The target covariance matrix. If the data are around their mean vector.
7 targetselection 7 See Also shrinkcovmat.equal and shrinkcovmat.identity. TumorGroup <- colon[, 41:62] Sigmahat.NormalGroup <- shrinkcovmat.unequal(normalgroup) Sigmahat.NormalGroup Sigmahat.TumorGroup <- shrinkcovmat.unequal(tumorgroup) Sigmahat.TumorGroup targetselection Target Matrix Selection Implements the rule of thumb proposed by Touloumis (2015) for target matrix selection. If the estimated optimal shrinkage intensities of the three target matrices are of similar magnitude, then the average and the range of the sample variances should be inspected in order to adopt the most plausible target matrix. targetselection(data, = FALSE) Arguments data a numeric matrix containing the data. a logical indicating if the mean vector is the zero vector. Value The rows of the data matrix data correspond to variables and the columns to subjects. Prints the estimated optimal shrinkage intensities and the range and the average of the sample variances.
8 8 targetselection targetselection(normalgroup) ## Similar intensities, the range of the sample variances is small ## and the average is not close to one. The scaled identity matrix ## seems to be the most suitable target matrix for the normal group TumorGroup <- colon[, 41:62] targetselection(tumorgroup) ## Similar intensities, the range of the sample variances is small ## and the average is not close to one. The scaled identity matrix ## seems to be the most suitable target matrix for the colon group
9 Index Topic datasets colon, 3 Topic package ShrinkCovMat-package, 2 colon, 3 ShrinkCovMat (ShrinkCovMat-package), 2 ShrinkCovMat-package, 2 shrinkcovmat.equal, 2, 3, 5, 7 shrinkcovmat.identity, 2, 4, 5, 7 shrinkcovmat.unequal, 2, 4, 5, 6 targetselection, 2, 7 9
Package SEMModComp. R topics documented: February 19, Type Package Title Model Comparisons for SEM Version 1.0 Date Author Roy Levy
Type Package Title Model Comparisons for SEM Version 1.0 Date 2009-02-23 Author Roy Levy Package SEMModComp Maintainer Roy Levy February 19, 2015 Conduct tests of difference in fit for
Package gtheory. October 30, 2016
Package gtheory October 30, 2016 Version 0.1.2 Date 2016-10-22 Title Apply Generalizability Theory with R Depends lme4 Estimates variance components, generalizability coefficients, universe scores, and
Package covsep. May 6, 2018
Package covsep May 6, 2018 Title Tests for Determining if the Covariance Structure of 2-Dimensional Data is Separable Version 1.1.0 Author Shahin Tavakoli [aut, cre], Davide Pigoli [ctb], John Aston [ctb]
Package darts. February 19, 2015
Type Package Package darts February 19, 2015 Title Statistical Tools to Analyze Your Darts Game Version 1.0 Date 2011-01-17 Author Maintainer Are you aiming at the right spot in darts?
Package BayesNI. February 19, 2015
Package BayesNI February 19, 2015 Type Package Title BayesNI: Bayesian Testing Procedure for Noninferiority with Binary Endpoints Version 0.1 Date 2011-11-11 Author Sujit K Ghosh, Muhtarjan Osman Maintainer
Package scio. February 20, 2015
Title Sparse Column-wise Inverse Operator Version 0.6.1 Author Xi (Rossi) LUO and Weidong Liu Package scio February 20, 2015 Maintainer Xi (Rossi) LUO Suggests clime, lorec, QUIC
Package EnergyOnlineCPM
Type Package Package EnergyOnlineCPM October 2, 2017 Title Distribution Free Multivariate Control Chart Based on Energy Test Version 1.0 Date 2017-09-30 Author Yafei Xu Maintainer Yafei Xu
Package varband. November 7, 2016
Type Package Package varband November 7, 2016 Title Variable Banding of Large Precision Matrices Version 0.9.0 Implementation of the variable banding procedure for modeling local dependence and estimating
Package jmcm. November 25, 2017
Type Package Package jmcm November 25, 2017 Title Joint Mean-Covariance Models using 'Armadillo' and S4 Version 0.1.8.0 Maintainer Jianxin Pan Fit joint mean-covariance models
Package invgamma. May 7, 2017
Package invgamma May 7, 2017 Type Package Title The Inverse Gamma Distribution Version 1.1 URL https://github.com/dkahle/invgamma BugReports https://github.com/dkahle/invgamma/issues Description Light
Package MultisiteMediation
Version 0.0.1 Date 2017-02-25 Package MultisiteMediation February 26, 2017 Title Causal Mediation Analysis in Multisite Trials Author Xu Qin, Guanglei Hong Maintainer Xu Qin Depends
Package factorqr. R topics documented: February 19, 2015
Package factorqr February 19, 2015 Version 0.1-4 Date 2010-09-28 Title Bayesian quantile regression factor models Author Lane Burgette , Maintainer Lane Burgette
Package sbgcop. May 29, 2018
Package sbgcop May 29, 2018 Title Semiparametric Bayesian Gaussian Copula Estimation and Imputation Version 0.980 Date 2018-05-25 Author Maintainer Estimation and inference for parameters
Package Tcomp. June 6, 2018
Package Tcomp June 6, 2018 Title Data from the 2010 Tourism Forecasting Competition Version 1.0.1 The 1311 time series from the tourism forecasting competition conducted in 2010 and described in Athanasopoulos
Package mpmcorrelogram
Type Package Package mpmcorrelogram Title Multivariate Partial Mantel Correlogram Version 0.1-4 Depends vegan Date 2017-11-17 Author Marcelino de la Cruz November 17, 2017 Maintainer Marcelino de la Cruz
Package idmtpreg. February 27, 2018
Type Package Package idmtpreg February 27, 2018 Title Regression Model for Progressive Illness Death Data Version 1.1 Date 2018-02-23 Author Leyla Azarang and Manuel Oviedo de la Fuente Maintainer Leyla
Package rgabriel. February 20, 2015
Type Package Package rgabriel February 20, 2015 Title Gabriel Multiple Comparison Test and Plot the Confidence Interval on Barplot Version 0.7 Date 2013-12-28 Author Yihui XIE, Miao YU Maintainer Miao
Package polypoly. R topics documented: May 27, 2017
Package polypoly May 27, 2017 Title Helper Functions for Orthogonal Polynomials Version 0.0.2 Tools for reshaping, plotting, and manipulating matrices of orthogonal polynomials. Depends R (>= 3.3.3) License
Package ChIPtest. July 20, 2016
Type Package Package ChIPtest July 20, 2016 Title Nonparametric Methods for Identifying Differential Enrichment Regions with ChIP-Seq Data Version 1.0 Date 2017-07-07 Author Vicky Qian Wu ; Kyoung-Jae
Package SHIP. February 19, 2015
Type Package Package SHIP February 19, 2015 Title SHrinkage covariance Incorporating Prior knowledge Version 1.0.2 Author Maintainer Vincent Guillemot The SHIP-package allows
Package dhga. September 6, 2016
Type Package Title Differential Hub Gene Analysis Version 0.1 Date 2016-08-31 Package dhga September 6, 2016 Author Samarendra Das and Baidya Nath Mandal
Package BNN. February 2, 2018
Type Package Package BNN February 2, 2018 Title Bayesian Neural Network for High-Dimensional Nonlinear Variable Selection Version 1.0.2 Date 2018-02-02 Depends R (>= 3.0.2) Imports mvtnorm Perform Bayesian
Package mlmmm. February 20, 2015
Package mlmmm February 20, 2015 Version 0.3-1.2 Date 2010-07-07 Title ML estimation under multivariate linear mixed models with missing values Author Recai Yucel . Maintainer Recai Yucel
Package thief. R topics documented: January 24, Version 0.3 Title Temporal Hierarchical Forecasting
Version 0.3 Title Temporal Hierarchical Forecasting Package thief January 24, 2018 Methods and tools for generating forecasts at different temporal frequencies using a hierarchical time series approach.
Package beam. May 3, 2018
Type Package Package beam May 3, 2018 Title Fast Bayesian Inference in Large Gaussian Graphical Models Version 1.0.2 Date 2018-05-03 Author Gwenael G.R. Leday [cre, aut], Ilaria Speranza [aut], Harry Gray
Package CPE. R topics documented: February 19, 2015
Package CPE February 19, 2015 Title Concordance Probability Estimates in Survival Analysis Version 1.4.4 Depends R (>= 2.10.0),survival,rms Author Qianxing Mo, Mithat Gonen and Glenn Heller Maintainer
Package comparec. R topics documented: February 19, Type Package
Package comparec February 19, 2015 Type Package Title Compare Two Correlated C Indices with Right-censored Survival Outcome Version 1.3.1 Date 2014-12-18 Author Le Kang, Weijie Chen Maintainer Le Kang
Package mixture. R topics documented: February 13, 2018
Package mixture February 13, 2018 Type Package Title Finite Gaussian Mixture Models for Clustering and Classification Version 1.5 Date 2018-02-13 Author Ryan P. Browne, Aisha ElSherbiny and Paul D. McNicholas
Package SimSCRPiecewise
Package SimSCRPiecewise July 27, 2016 Type Package Title 'Simulates Univariate and Semi-Competing Risks Data Given Covariates and Piecewise Exponential Baseline Hazards' Version 0.1.1 Author Andrew G Chapple
Package flexcwm. R topics documented: July 11, Type Package. Title Flexible Cluster-Weighted Modeling. Version 1.0.
Package flexcwm July 11, 2013 Type Package Title Flexible Cluster-Weighted Modeling Version 1.0 Date 2013-02-17 Author Incarbone G., Mazza A., Punzo A., Ingrassia S. Maintainer Angelo Mazza
Package ltsbase. R topics documented: February 20, 2015
Package ltsbase February 20, 2015 Type Package Title Ridge and Liu Estimates based on LTS (Least Trimmed Squares) Method Version 1.0.1 Date 2013-08-02 Author Betul Kan Kilinc [aut, cre], Ozlem Alpu [aut,
Package noise. July 29, 2016
Type Package Package noise July 29, 2016 Title Estimation of Intrinsic and Extrinsic Noise from Single-Cell Data Version 1.0 Date 2016-07-28 Author Audrey Qiuyan Fu and Lior Pachter Maintainer Audrey Q.
Package reinforcedpred
Type Package Package reinforcedpred October 31, 2018 Title Reinforced Risk Prediction with Budget Constraint Version 0.1.1 Author Yinghao Pan [aut, cre], Yingqi Zhao [aut], Eric Laber [aut] Maintainer
Package unbalhaar. February 20, 2015
Type Package Package unbalhaar February 20, 2015 Title Function estimation via Unbalanced Haar wavelets Version 2.0 Date 2010-08-09 Author Maintainer The package implements top-down
Package basad. November 20, 2017
Package basad November 20, 2017 Type Package Title Bayesian Variable Selection with Shrinking and Diffusing Priors Version 0.2.0 Date 2017-11-15 Author Qingyan Xiang , Naveen Narisetty
Package coop. November 14, 2017
Type Package Package coop November 14, 2017 Title Co-Operation: Fast Covariance, Correlation, and Cosine Similarity Operations Version 0.6-1 Fast implementations of the co-operations: covariance, correlation,
Package flexcwm. R topics documented: July 2, Type Package. Title Flexible Cluster-Weighted Modeling. Version 1.1.
Package flexcwm July 2, 2014 Type Package Title Flexible Cluster-Weighted Modeling Version 1.1 Date 2013-11-03 Author Mazza A., Punzo A., Ingrassia S. Maintainer Angelo Mazza Description
Package SK. May 16, 2018
Type Package Package SK May 16, 2018 Title Segment-Based Ordinary Kriging and Segment-Based Regression Kriging for Spatial Prediction Date 2018-05-10 Version 1.1 Maintainer Yongze Song
Package supernova. February 23, 2018
Type Package Package supernova February 23, 2018 Title Judd & McClelland Formatting for ANOVA Output Version 1.0 Date 2018-02-09 LazyData yes Produces ANOVA tables in the format used by Judd, McClelland,
Package Blendstat. February 21, 2018
Package Blendstat February 21, 2018 Type Package Title Joint Analysis of Experiments with Mixtures and Random Effects Version 1.0.0 Date 2018-02-20 Author Marcelo Angelo Cirillo Paulo
Package RTransferEntropy
Type Package Package RTransferEntropy March 12, 2019 Title Measuring Information Flow Between Time Series with Shannon and Renyi Transfer Entropy Version 0.2.8 Measuring information flow between time series
Package gwqs. R topics documented: May 7, Type Package. Title Generalized Weighted Quantile Sum Regression. Version 1.1.0
Package gwqs May 7, 2018 Type Package Title Generalized Weighted Quantile Sum Regression Version 1.1.0 Author Stefano Renzetti, Paul Curtin, Allan C Just, Ghalib Bello, Chris Gennings Maintainer Stefano
Package RootsExtremaInflections
Type Package Package RootsExtremaInflections May 10, 2017 Title Finds Roots, Extrema and Inflection Points of a Curve Version 1.1 Date 2017-05-10 Author Demetris T. Christopoulos Maintainer Demetris T.
Package FinCovRegularization
Type Package Package FinCovRegularization April 25, 2016 Title Covariance Matrix Estimation and Regularization for Finance Version 1.1.0 Estimation and regularization for covariance matrix of asset returns.
Package monmlp. R topics documented: December 5, Type Package
Type Package Package monmlp December 5, 2017 Title Multi-Layer Perceptron Neural Network with Optional Monotonicity Constraints Version 1.1.5 Author Ale J. Cannon Maintainer Ale J. Cannon
Package CoxRidge. February 27, 2015
Type Package Title Cox Models with Dynamic Ridge Penalties Version 0.9.2 Date 2015-02-12 Package CoxRidge February 27, 2015 Author Aris Perperoglou Maintainer Aris Perperoglou
Package dhsic. R topics documented: July 27, 2017
Package dhsic July 27, 2017 Type Package Title Independence Testing via Hilbert Schmidt Independence Criterion Version 2.0 Date 2017-07-24 Author Niklas Pfister and Jonas Peters Maintainer Niklas Pfister
Package spcov. R topics documented: February 20, 2015
Package spcov February 20, 2015 Type Package Title Sparse Estimation of a Covariance Matrix Version 1.01 Date 2012-03-04 Author Jacob Bien and Rob Tibshirani Maintainer Jacob Bien Description
Package xdcclarge. R topics documented: July 12, Type Package
Type Package Package xdcclarge July 12, 2018 Title Estimating a (c)dcc-garch Model in Large Dimensions Version 0.1.0 Functions for Estimating a (c)dcc-garch Model in large dimensions based on a publication
Package bivariate. December 10, 2018
Title Bivariate Probability Distributions Version 0.3.0 Date 2018-12-10 License GPL (>= 2) Package bivariate December 10, 2018 Maintainer Abby Spurdle Author Abby Spurdle URL https://sites.google.com/site/asrpws
Package tspi. August 7, 2017
Package tspi August 7, 2017 Title Improved Prediction Intervals for ARIMA Processes and Structural Time Series Version 1.0.2 Date 2017-08-07 Author Jouni Helske Maintainer Jouni Helske
Package Delaporte. August 13, 2017
Type Package Package Delaporte August 13, 2017 Title Statistical Functions for the Delaporte Distribution Version 6.1.0 Date 2017-08-13 Description Provides probability mass, distribution, quantile, random-variate
Package LCAextend. August 29, 2013
Type Package Package LCAextend August 29, 2013 Title Latent Class Analysis (LCA) with familial dependence in extended pedigrees Version 1.2 Date 2012-03-15 Author Arafat TAYEB ,
Package milineage. October 20, 2017
Type Package Package milineage October 20, 2017 Title Association Tests for Microbial Lineages on a Taxonomic Tree Version 2.0 Date 2017-10-18 Author Zheng-Zheng Tang Maintainer Zheng-Zheng Tang
Package rnmf. February 20, 2015
Type Package Title Robust Nonnegative Matrix Factorization Package rnmf February 20, 2015 An implementation of robust nonnegative matrix factorization (rnmf). The rnmf algorithm decomposes a nonnegative
Package EMVS. April 24, 2018
Type Package Package EMVS April 24, 2018 Title The Expectation-Maximization Approach to Bayesian Variable Selection Version 1.0 Date 2018-04-23 Author Veronika Rockova [aut,cre], Gemma Moran [aut] Maintainer
Package breakaway. R topics documented: March 30, 2016
Title Species Richness Estimation and Modeling Version 3.0 Date 2016-03-29 Author and John Bunge Maintainer Package breakaway March 30, 2016 Species richness estimation is an important
Package ebal. R topics documented: February 19, Type Package
Type Package Package ebal February 19, 2015 Title Entropy reweighting to create balanced samples Version 0.1-6 Date 2014-01-25 Author Maintainer Package implements entropy balancing,
Package ICBayes. September 24, 2017
Package ICBayes September 24, 2017 Title Bayesian Semiparametric Models for Interval-Censored Data Version 1.1 Date 2017-9-24 Author Chun Pan, Bo Cai, Lianming Wang, and Xiaoyan Lin Maintainer Chun Pan
Package IndepTest. August 23, 2018
Type Package Package IndepTest August 23, 2018 Title Nonparametric Independence Tests Based on Entropy Estimation Version 0.2.0 Date 2018-08-23 Author Thomas B. Berrett [aut],
Package AID. R topics documented: November 10, Type Package Title Box-Cox Power Transformation Version 2.3 Date Depends R (>= 2.15.
Type Package Title Box-Cox Power Transformation Version 2.3 Date 2017-11-10 Depends R (>= 2.15.0) Package AID November 10, 2017 Imports MASS, tseries, nortest, ggplot2, graphics, psych, stats Author Osman
Package REGARMA. R topics documented: October 1, Type Package. Title Regularized estimation of Lasso, adaptive lasso, elastic net and REGARMA
Package REGARMA October 1, 2014 Type Package Title Regularized estimation of Lasso, adaptive lasso, elastic net and REGARMA Version 0.1.1.1 Date 2014-10-01 Depends R(>= 2.10.0) Imports tseries, msgps Author
Package HIMA. November 8, 2017
Type Package Title High-Dimensional Mediation Analysis Version 1.0.5 Date 2017-11-05 Package HIMA November 8, 2017 Description Allows to estimate and test high-dimensional mediation effects based on sure
Package TwoStepCLogit
Package TwoStepCLogit March 21, 2016 Type Package Title Conditional Logistic Regression: A Two-Step Estimation Method Version 1.2.5 Date 2016-03-19 Author Radu V. Craiu, Thierry Duchesne, Daniel Fortin
Package CMC. R topics documented: February 19, 2015
Type Package Title Cronbach-Mesbah Curve Version 1.0 Date 2010-03-13 Author Michela Cameletti and Valeria Caviezel Package CMC February 19, 2015 Maintainer Michela Cameletti
Package horseshoe. November 8, 2016
Title Implementation of the Horseshoe Prior Version 0.1.0 Package horseshoe November 8, 2016 Description Contains functions for applying the horseshoe prior to highdimensional linear regression, yielding
Package LIStest. February 19, 2015
Type Package Package LIStest February 19, 2015 Title Tests of independence based on the Longest Increasing Subsequence Version 2.1 Date 2014-03-12 Author J. E. Garcia and V. A. Gonzalez-Lopez Maintainer
Package MAPA. R topics documented: January 5, Type Package Title Multiple Aggregation Prediction Algorithm Version 2.0.4
Type Package Title Multiple Aggregation Prediction Algorithm Version 2.0.4 Package MAPA January 5, 2018 Functions and wrappers for using the Multiple Aggregation Prediction Algorithm (MAPA) for time series
Package blme. August 29, 2016
Version 1.0-4 Date 2015-06-13 Title Bayesian Linear Mixed-Effects Models Author Vincent Dorie Maintainer Vincent Dorie Package blme August 29, 2016 Description Maximum a posteriori
Package CompQuadForm
Type Package Package CompQuadForm April 12, 2017 Title Distribution Function of Quadratic Forms in Normal Variables Version 1.4.3 Date 2017-04-10 Author P. Lafaye de Micheaux Maintainer P. Lafaye de Micheaux
Package NlinTS. September 10, 2018
Type Package Title Non Linear Time Series Analysis Version 1.3.5 Date 2018-09-05 Package NlinTS September 10, 2018 Maintainer Youssef Hmamouche Models for time series forecasting
Package SpatialPack. March 20, 2018
Version 0.3 Date 2018-03-20 Package SpatialPack March 20, 2018 Title Tools for Assessment the Association Between Two Spatial Processes Tools to assess the association between two spatial processes. Currently,
Package emg. R topics documented: May 17, 2018
Package emg May 17, 2018 Type Package Title Exponentially Modified Gaussian (EMG) Distribution Version 1.0.7 Date 2018-05-17 Author Shawn Garbett, Mark Kozdoba Maintainer Shawn Garbett
Package RcppSMC. March 18, 2018
Type Package Title Rcpp Bindings for Sequential Monte Carlo Version 0.2.1 Date 2018-03-18 Package RcppSMC March 18, 2018 Author Dirk Eddelbuettel, Adam M. Johansen and Leah F. South Maintainer Dirk Eddelbuettel
Package mmm. R topics documented: February 20, Type Package
Package mmm February 20, 2015 Type Package Title an R package for analyzing multivariate longitudinal data with multivariate marginal models Version 1.4 Date 2014-01-01 Author Ozgur Asar, Ozlem Ilk Depends
Package rela. R topics documented: February 20, Version 4.1 Date Title Item Analysis Package with Standard Errors
Version 4.1 Date 2009-10-25 Title Item Analysis Package with Standard Errors Package rela February 20, 2015 Author Michael Chajewski Maintainer Michael Chajewski
Package symmoments. R topics documented: February 20, Type Package
Type Package Package symmoments February 20, 2015 Title Symbolic central and noncentral moments of the multivariate normal distribution Version 1.2 Date 2014-05-21 Author Kem Phillips Depends mvtnorm,
Package riv. R topics documented: May 24, Title Robust Instrumental Variables Estimator. Version Date
Title Robust Instrumental Variables Estimator Version 2.0-5 Date 2018-05-023 Package riv May 24, 2018 Author Gabriela Cohen-Freue and Davor Cubranic, with contributions from B. Kaufmann and R.H. Zamar
Package matrixnormal
Version 0.0.0 Date 2018-10-26 Type Package Title The Matrix Normal Distribution Depends R (>= 3.5.0) Imports mvtnorm (>= 1.0.8), utils (>= 3.5.0) Package matrixnormal October 30, 2018 Suggests datasets
Package robustrao. August 14, 2017
Type Package Package robustrao August 14, 2017 Title An Extended Rao-Stirling Diversity Index to Handle Missing Data Version 1.0-3 Date 2016-01-31 Author María del Carmen Calatrava Moreno [aut, cre], Thomas
Package SpatialNP. June 5, 2018
Type Package Package SpatialNP June 5, 2018 Title Multivariate Nonparametric Methods Based on Spatial Signs and Ranks Version 1.1-3 Date 2018-06-05 Author Seija Sirkia, Jari Miettinen, Klaus Nordhausen,
Package depth.plot. December 20, 2015
Package depth.plot December 20, 2015 Type Package Title Multivariate Analogy of Quantiles Version 0.1 Date 2015-12-19 Maintainer Could be used to obtain spatial depths, spatial ranks and outliers of multivariate
Package severity. February 20, 2015
Type Package Title Mayo's Post-data Severity Evaluation Version 2.0 Date 2013-03-27 Author Nicole Mee-Hyaang Jinn Package severity February 20, 2015 Maintainer Nicole Mee-Hyaang Jinn
Package weightquant. R topics documented: December 30, Type Package
Type Package Package weightquant December 30, 2018 Title Weights for Incomplete Longitudinal Data and Quantile Regression Version 1.0 Date 2018-12-18 Author Viviane Philipps Maintainer Viviane Philipps
Package clogitboost. R topics documented: December 21, 2015
Package December 21, 2015 Type Package Title Boosting Conditional Logit Model Version 1.1 Date 2015-12-09 Author Haolun Shi and Guosheng Yin Maintainer A set of functions to fit a boosting conditional
Package funrar. March 5, 2018
Title Functional Rarity Indices Computation Version 1.2.2 Package funrar March 5, 2018 Computes functional rarity indices as proposed by Violle et al. (2017) . Various indices
Package bayeslm. R topics documented: June 18, Type Package
Type Package Package bayeslm June 18, 2018 Title Efficient Sampling for Gaussian Linear Regression with Arbitrary Priors Version 0.8.0 Date 2018-6-17 Author P. Richard Hahn, Jingyu He, Hedibert Lopes Maintainer
Package DTK. February 15, Type Package
Package DTK February 15, 2013 Type Package Title Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted for Unequal Variances and Unequal Sample Sizes Version 3.1 Date 2011-03-17 Author Matthew
Package OrdNor. February 28, 2019
Type Package Package OrdNor February 28, 2019 Title Concurrent Generation of Ordinal and Normal Data with Given Correlation Matrix and Marginal Distributions Version 2.2 Date 2019-02-24 Author Anup Amatya,
Package RI2by2. October 21, 2016
Package RI2by2 October 21, 2016 Type Package Title Randomization Inference for Treatment Effects on a Binary Outcome Version 1.3 Author Joseph Rigdon, Wen Wei Loh, Michael G. Hudgens Maintainer Wen Wei
Package r2glmm. August 5, 2017
Type Package Package r2glmm August 5, 2017 Title Computes R Squared for Mixed (Multilevel) Models Date 2017-08-04 Version 0.1.2 The model R squared and semi-partial R squared for the linear and generalized
Package LBLGXE. R topics documented: July 20, Type Package
Type Package Package LBLGXE July 20, 2015 Title Bayesian Lasso for detecting Rare (or Common) Haplotype Association and their interactions with Environmental Covariates Version 1.2 Date 2015-07-09 Author
Package ENA. February 15, 2013
Package ENA February 15, 2013 Type Package Title Ensemble Network Aggregation Version 1.2-4 Date 2013-02-14 Author Maintainer Depends R (>= 2.13.0), space (>= 0.1), WGCNA (>= 1.20), GeneNet(>= 1.2.5),
Package bspmma. R topics documented: February 19, 2015
Package bspmma February 19, 2015 Title bspmma: Bayesian Semiparametric Models for Meta-Analysis Version 0.1-1 Date 2012-07-12 Author Deborah Burr Maintainer Deborah Burr Some functions
Package threg. August 10, 2015
Package threg August 10, 2015 Title Threshold Regression Version 1.0.3 Date 2015-08-10 Author Tao Xiao Maintainer Tao Xiao Depends R (>= 2.10), survival, Formula Fit a threshold regression
Package SimCorMultRes
Type Package Package SimCorMultRes Title Simulates Correlated Multinomial Responses July 10, 2018 Description Simulates correlated multinomial responses conditional on a marginal model specification. Version
Package NonpModelCheck
Type Package Package NonpModelCheck April 27, 2017 Title Model Checking and Variable Selection in Nonparametric Regression Version 3.0 Date 2017-04-27 Author Adriano Zanin Zambom Maintainer Adriano Zanin
Package gma. September 19, 2017
Type Package Title Granger Mediation Analysis Version 1.0 Date 2018-08-23 Package gma September 19, 2017 Author Yi Zhao , Xi Luo Maintainer Yi Zhao
Package GeneExpressionSignature
Package GeneExpressionSignature September 6, 2018 Title Gene Expression Signature based Similarity Metric Version 1.26.0 Date 2012-10-24 Author Yang Cao Maintainer Yang Cao , Fei
Package BNSL. R topics documented: September 18, 2017
Type Package Title Bayesian Network Structure Learning Version 0.1.3 Date 2017-09-19 Author Package BNSL September 18, 2017 Maintainer Joe Suzuki Depends bnlearn, igraph