Sun, 25 Jan 2015

Package snht updated to version 1.0.1 with previous version 1.0 dated 2014-11-03

Title: Standard Normal Homogeneity Test
Description: Robust and non-robust SNHT tests for changepoint detection.
Author: Josh Browning
Maintainer: Josh Browning

Diff between snht versions 1.0 dated 2014-11-03 and 1.0.1 dated 2015-01-25

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Package RegressionFactory updated to version 0.7.1 with previous version 0.7 dated 2014-12-01

Title: Expander Functions for Generating Full Gradient and Hessian from Single- and Multi-Slot Base Distributions
Description: The expander functions rely on the mathematics developed for the Hessian-definiteness invariance theorem for linear projection transformations of variables, described in authors' paper, to generate the full, high-dimensional gradient and Hessian from the lower-dimensional derivative objects. This greatly relieves the computational burden of generating the regression-function derivatives, which in turn can be fed into any optimization routine that utilizes such derivatives. The theorem guarantees that Hessian definiteness is preserved, meaning that reasoning about this property can be performed in the low-dimensional space of the base distribution. This is often a much easier task than its equivalent in the full, high-dimensional space. Definiteness of Hessian can be useful in selecting optimization/sampling algorithms such as Newton-Raphson optimization or its sampling equivalent, the Stochastic Newton Sampler. Finally, in addition to being a computational tool, the regression expansion framework is of conceptual value by offering new opportunities to generate novel regression problems.
Author: Alireza S. Mahani, Mansour T.A. Sharabiani
Maintainer: Alireza S. Mahani

Diff between RegressionFactory versions 0.7 dated 2014-12-01 and 0.7.1 dated 2015-01-25

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Sat, 24 Jan 2015

Package CensRegMod updated to version 1.0 with previous version 0.0 dated 2012-07-12

Title: Fits Normal and Student-t Censored Regression Model
Description: Fits univariate censored linear regression model under Normal or Student-t distribution
Author: Monique Bettio Massuia , Larissa Avila Matos and Victor Lachos
Maintainer: Monique Bettio Massuia

Diff between CensRegMod versions 0.0 dated 2012-07-12 and 1.0 dated 2015-01-24

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Package webutils updated to version 0.3 with previous version 0.2 dated 2014-10-30

Title: Utility Functions for Web Applications
Description: Utility functions for developing web applications. Includes parsers for application/x-www-form-urlencoded as well as multipart/form-data and examples of using the parser with either httpuv or rhttpd.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms

Diff between webutils versions 0.2 dated 2014-10-30 and 0.3 dated 2015-01-24

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Package NLP updated to version 0.1-6 with previous version 0.1-5 dated 2014-08-23

Title: Natural Language Processing Infrastructure
Description: Basic classes and methods for Natural Language Processing.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik

Diff between NLP versions 0.1-5 dated 2014-08-23 and 0.1-6 dated 2015-01-24

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Package ISOcodes updated to version 2015.01.24 with previous version 2014.03.24 dated 2014-03-24

Title: Selected ISO codes
Description: ISO language, territory, currency, script and character codes. Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217 currency codes, ISO 15924 script codes, and the ISO 8859 character codes as well as the UN M.49 area codes.
Author: Christian Buchta [aut], Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik

Diff between ISOcodes versions 2014.03.24 dated 2014-03-24 and 2015.01.24 dated 2015-01-24

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Package dfmta updated to version 1.1-2 with previous version 1.1-0 dated 2015-01-12

Title: Phase I/II Adaptive Dose-Finding Design For MTA
Description: Phase I/II adaptive dose-finding design for single-agent Molecularly Targeted Agent (MTA), according to the paper "Phase I/II Dose-Finding Design for Molecularly Targeted Agent: Plateau Determination using Adaptive Randomization".
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere

Diff between dfmta versions 1.1-0 dated 2015-01-12 and 1.1-2 dated 2015-01-24

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Package rlist updated to version 0.4 with previous version 0.3-2 dated 2014-08-22

Title: A Toolbox for Non-tabular Data Manipulation
Description: Provides a set of functions for data manipulation with list objects, including mapping, filtering, grouping, sorting, updating, searching, and other useful functions. Most functions are designed to be pipeline friendly so that data processing with lists can be chained.
Author: Kun Ren
Maintainer: Kun Ren

Diff between rlist versions 0.3-2 dated 2014-08-22 and 0.4 dated 2015-01-24

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Package RcppGSL updated to version 0.2.4 with previous version 0.2.3 dated 2015-01-12

Title: Rcpp Integration for GNU GSL Vectors and Matrices
Description: Rcpp integration for GNU GSL vectors and matrices The GNU Scientific Library (GSL) is a collection of numerical routines for scientific computing. It is particularly useful for C and C++ programs as it provides a standard C interface to a wide range of mathematical routines such as special functions, permutations, combinations, fast fourier transforms, eigensystems, random numbers, quadrature, random distributions, quasi-random sequences, Monte Carlo integration, N-tuples, differential equations, simulated annealing, numerical differentiation, interpolation, series acceleration, Chebyshev approximations, root-finding, discrete Hankel transforms physical constants, basis splines and wavelets. There are over 1000 functions in total with an extensive test suite. The RcppGSL package provides an easy-to-use interface between GSL data structures and R using concepts from Rcpp which is itself a package that eases the interfaces between R and C++. This package also serves as a prime example of how to build a package that uses Rcpp to connect to another third-party library. The autoconf script, inline plugin and example package can all be used as a stanza to write a similar package against another library.
Author: Romain Francois and Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel

Diff between RcppGSL versions 0.2.3 dated 2015-01-12 and 0.2.4 dated 2015-01-24

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Package Rcpp updated to version 0.11.4 with previous version 0.11.3 dated 2014-09-29

Title: Seamless R and C++ Integration
Description: The Rcpp package provides R functions as well as C++ classes which offer a seamless integration of R and C++. Many R data types and objects can be mapped back and forth to C++ equivalents which facilitates both writing of new code as well as easier integration of third-party libraries. Documentation about Rcpp is provided by several vignettes included in this package, via the Rcpp Gallery site at http://gallery.rcpp.org, the paper by Eddelbuettel and Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see 'citation("Rcpp")' for details on these last two.
Author: Dirk Eddelbuettel, Romain Francois, JJ Allaire, Kevin Ushey, Douglas Bates, and John Chambers
Maintainer: Dirk Eddelbuettel

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More information about Rcpp at CRAN
Permanent link

Package dfcomb updated to version 2.0-2 with previous version 1.0-1 dated 2014-11-07

Title: Phase I/II Adaptive Dose-Finding Design for Combination Studies
Description: Phase I/II adaptive dose-finding design for combination studies. Several methods are proposed depending on the type of combinations: (1) the combination of two cytotoxic agents, and (2) combination of a molecularly targeted agent with a cytotoxic agent.
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Marie-Karelle Riviere

Diff between dfcomb versions 1.0-1 dated 2014-11-07 and 2.0-2 dated 2015-01-24

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More information about dfcomb at CRAN
Permanent link

Package RcppAnnoy updated to version 0.0.5 with previous version 0.0.4 dated 2014-12-08

Title: Rcpp Bindings for Annoy, a Library for Approximate Nearest Neighbors
Description: Annoy is a small C++ library for Approximate Nearest Neighbors written for efficient memory usage as well an ability to load from / save to disk. This package provides an R interface by relying on the Rcpp and BH packages, exposing the same interface as the original Python wrapper to Annoy. See https://github.com/spotify/annoy for more on Annoy. Annoy is released under Version 2.0 of the Apache License. Also included is a small Windows port of mmap which is released under the MIT license.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel

Diff between RcppAnnoy versions 0.0.4 dated 2014-12-08 and 0.0.5 dated 2015-01-24

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More information about RcppAnnoy at CRAN
Permanent link

Package lgcp updated to version 1.3-7 with previous version 1.3-6 dated 2014-05-09

Title: Log-Gaussian Cox Process
Description: Spatial and spatio-temporal modelling of point patterns using the log-Gaussian Cox process. Bayesian inference for spatial, spatiotemporal, multivariate and aggregated point processes using Markov chain Monte Carlo.
Author: B. M. Taylor, T. M. Davies, B. S. Rowlingson, P. J. Diggle. Additional code contributions from E. Pebesma.
Maintainer: Benjamin M. Taylor

Diff between lgcp versions 1.3-6 dated 2014-05-09 and 1.3-7 dated 2015-01-24

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Package simsalapar updated to version 1.0-5 with previous version 1.0-4 dated 2014-09-17

Title: Tools for Simulation Studies in Parallel with R
Description: Tools for setting up, conducting, and evaluating larger-scale simulation studies, including parallel computations.
Author: Marius Hofert and Martin Maechler
Maintainer: Marius Hofert

Diff between simsalapar versions 1.0-4 dated 2014-09-17 and 1.0-5 dated 2015-01-24

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Package pscl updated to version 1.4.8 with previous version 1.4.6 dated 2014-08-27

Title: Political Science Computational Laboratory, Stanford University
Description: Bayesian analysis of item-response theory (IRT) models, roll call analysis; computing highest density regions; maximum likelihood estimation of zero-inflated and hurdle models for count data; goodness-of-fit measures for GLMs; data sets used in writing and teaching at the Political Science Computational Laboratory; seats-votes curves.
Author: Simon Jackman, with contributions from Alex Tahk, Achim Zeileis, Christina Maimone and Jim Fearon
Maintainer: Simon Jackman

Diff between pscl versions 1.4.6 dated 2014-08-27 and 1.4.8 dated 2015-01-24

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Package NAM updated to version 1.0.2.1 with previous version 1.0.2 dated 2015-01-15

Title: Nested Association Mapping analysis
Description: The NAM package was designed for association studies in nested association mapping (NAM) panels, but it also can handle biparental and random populations. It includes functions for genome-wide associations mapping of multiple populations, marker quality control, solving mixed models and finding variance components through REML.
Author: Alencar Xavier, William Muir, Katy Rainey, Tiago Pimenta, Qishan Wang, Shizhong Xu.
Maintainer: Alencar Xavier

Diff between NAM versions 1.0.2 dated 2015-01-15 and 1.0.2.1 dated 2015-01-24

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New package knncat with initial version 1.2.1
Package: knncat
Version: 1.2.1
Date: 2015-01-22
Title: Nearest-neighbor Classification with Categorical Variables
Author: Sam Buttrey
Maintainer: Sam Buttrey
Description: Scale categorical variables in such a way as to make NN classification as accurate as possible. The code also handles continuous variables and prior probabilities, and does intelligent variable selection and estimation of both error rates and the right number of NN's.
License: GPL-2
Packaged: 2015-01-23 20:17:52 UTC; sebuttre
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-01-24 06:41:56

More information about knncat at CRAN
Permanent link

Fri, 23 Jan 2015

Package pipeR updated to version 0.6 with previous version 0.5 dated 2014-09-30

Title: Multi-paradigm Pipeline Implementation
Description: Provides various styles of function chaining methods: Pipe operator, Pipe object, and pipeline function, each representing a distinct pipeline model yet sharing almost a common set of features: A value can be piped to the first unnamed argument of a function and to dot symbol in an enclosed expression. The syntax is designed to make the pipeline more readable and friendly to a wide range of operations.
Author: Kun Ren
Maintainer: Kun Ren

Diff between pipeR versions 0.5 dated 2014-09-30 and 0.6 dated 2015-01-23

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More information about pipeR at CRAN
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Package PBSmodelling updated to version 2.67.266 with previous version 2.66.264 dated 2014-04-07

Title: GUI Tools Made Easy: Interact with Models and Explore Data
Description: Provides software to facilitate the design, testing, and operation of computer models. It focuses particularly on tools that make it easy to construct and edit a customized graphical user interface (GUI). Although our simplified GUI language depends heavily on the R interface to the Tcl/Tk package, a user does not need to know Tcl/Tk. Examples illustrate models built with other R packages, including PBSmapping, PBSddesolve, and BRugs. A complete user's guide `PBSmodelling-UG.pdf' shows how to use this package effectively.
Author: Jon T. Schnute , Alex Couture-Beil , Rowan Haigh , A.R. (Rob) Kronlund , and Nicholas Boers
Maintainer: Rowan Haigh

Diff between PBSmodelling versions 2.66.264 dated 2014-04-07 and 2.67.266 dated 2015-01-23

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Package ONETr updated to version 1.0.2 with previous version 1.0.1 dated 2014-11-04

Title: Efficient authenticated interaction with the O*NET API
Description: Provides a series of functions designed to enable users to easily search and interact with occupational data from the O*NET API . The package produces parsed and listed XML data for custom interactions, or pre-packaged functions for easy extraction of specific data (e.g., Knowledge, Skills, Abilities, Work Styles, etc.).
Author: Eric Knudsen
Maintainer: Eric Knudsen

Diff between ONETr versions 1.0.1 dated 2014-11-04 and 1.0.2 dated 2015-01-23

 DESCRIPTION   |   12 ++++++------
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New package LDAvis with initial version 0.2
Package: LDAvis
Title: Interactive Visualization of Topic Models
Version: 0.2
Authors@R: c(person("Carson", "Sievert", role = c("aut", "cre"), email = "cpsievert1@gmail.com"), person("Kenny", "Shirley", role = "aut", email = "kshirley@research.att.com"))
Description: Tools to create an interactive web-based visualization of a topic model that has been fit to a corpus of text data using Latent Dirichlet Allocation (LDA). Given the estimated parameters of the topic model, it computes various summary statistics as input to an interactive visualization built with D3.js that is accessed via a browser. The goal is to help users interpret the topics in their LDA topic model.
Depends: R (>= 2.10)
Imports: proxy, RJSONIO, parallel
License: MIT + file LICENSE
Suggests: mallet, lda, topicmodels, gistr (>= 0.0.8.99), servr, shiny, knitr, rmarkdown
LazyData: true
VignetteBuilder: knitr
URL: https://github.com/cpsievert/LDAvis
BugReports: https://github.com/cpsievert/LDAvis/issues
Packaged: 2015-01-23 16:58:48 UTC; cpsievert
Author: Carson Sievert [aut, cre], Kenny Shirley [aut]
Maintainer: Carson Sievert
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-23 21:07:17

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Package ExomeDepth updated to version 1.1.4 with previous version 1.1.1 dated 2015-01-13

Title: Calls Copy Number Variants from Targeted Sequence Data
Description: Calls copy number variants (CNVs) from targeted sequence data, typically exome sequencing experiments designed to identify the genetic basis of Mendelian disorders.
Author: Vincent Plagnol
Maintainer: Vincent Plagnol

Diff between ExomeDepth versions 1.1.1 dated 2015-01-13 and 1.1.4 dated 2015-01-23

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Package unmarked updated to version 0.10-5 with previous version 0.10-4 dated 2014-04-28

Title: Models for Data from Unmarked Animals
Description: Fits hierarchical models of animal abundance and occurrence to data collected using survey methods such as point counts, site occupancy sampling, distance sampling, removal sampling, and double observer sampling. Parameters governing the state and observation processes can be modeled as functions of covariates.
Author: Ian Fiske, Richard Chandler, David Miller, Andy Royle, Marc Kery, Jeff Hostetler
Maintainer: Richard Chandler

Diff between unmarked versions 0.10-4 dated 2014-04-28 and 0.10-5 dated 2015-01-23

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Package rplos updated to version 0.4.6 with previous version 0.4.1 dated 2014-07-22

Title: Interface to PLoS Journals Search API
Description: A programmatic interface to the SOLR based search API provided by the Public Library of Science journals to search their articles. Functions are included for searching for articles, retrieving articles, making plots, doing faceted searches, doing highlight searches, and viewing results of highlighted searches in a browser.
Author: Scott Chamberlain [aut, cre], Carl Boettiger [aut], Karthik Ram [aut]
Maintainer: Scott Chamberlain

Diff between rplos versions 0.4.1 dated 2014-07-22 and 0.4.6 dated 2015-01-23

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Package repmis updated to version 0.4 with previous version 0.3.3 dated 2014-12-10

Title: Miscellaneous Tools for Reproducible Research with R.
Description: The package includes tools to load R packages and automatically generate BibTeX files citing them as well as load plain-text and Excel formatted data stored on Dropbox, GitHub, and from other sources.
Author: Christopher Gandrud [aut, cre]
Maintainer: Christopher Gandrud

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Package rcicr updated to version 0.3.0 with previous version 0.2.6 dated 2014-12-19

Title: Reverse correlation image classification toolbox
Description: Functions to generate stimuli and analyze data of reverse correlation image classification experiments.
Author: Ron Dotsch
Maintainer: Ron Dotsch

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Package PowerTOST updated to version 1.2-06 with previous version 1.2-05 dated 2015-01-06

Title: Power and Sample Size Based on Two One-sided t-Tests (TOST) for (Bio)Equivalence Studies
Description: Contains functions to calculate power and sample size for various study designs used for bioequivalence studies. See function known.designs() for study designs covered. Moreover the package contains functions for power and sample size based on 'expected' power in case of uncertain (estimated) variability. ----- Added are functions for the power and sample size for the ratio of two means with normally distributed data on the original scale (based on Fieller's confidence ('fiducial') interval). ----- Contains further functions for power and sample size calculations based on non-inferiority t-test. This is not a TOST procedure but eventually useful if the question of 'non-superiority' must be evaluated. The power and sample size calculations based on non-inferiority test may also performed via 'expected' power in case of uncertain (estimated) variability. ----- Contains functions power.scABEL() and sampleN.scABEL() to calculate power and sample size for the BE decision via scaled (widened) BE acceptance limits based on simulations. Contains further functions power.RSABE() and sampleN.RSABE() to calculate power and sample size for the BE decision via reference scaled ABE criterion according to the FDA procedure based on simulations. Contains further functions power.NTIDFDA() and sampleN.NTIDFDA() to calculate power and sample size for the BE decision via the FDA procedure for NTID's based on simulations. ----- Contains functions for power analysis of a sample size plan for ABE (pa.ABE()), scaled ABE (pa.scABE()) and scaled ABE for NTID's (pa.NTIDFDA()) analysing power if deviating from assumptions of the plan. ----- Contains further functions for power calculations / samplesize estimation for dose proportionality studies using the Power model.
Author: Detlew Labes [aut, cre], Helmut Schuetz [aut], Benjamin Lang [ctb]
Maintainer: Detlew Labes

Diff between PowerTOST versions 1.2-05 dated 2015-01-06 and 1.2-06 dated 2015-01-23

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Package Power2Stage updated to version 0.3-1 with previous version 0.2-2 dated 2014-12-08

Title: Power and Sample-size Distribution of 2-stage Bioequivalence Studies
Description: - Contains a function to calculate power and sample-size distribution of 2-stage bioequivalence (BE) studies with a 2x2 crossover design according to Potvin et al. / Montague et al. modified to include a futility Nmax and modified to do the sample size estimation step with PE and mse of stage 1. - Contains further a function with the modifications according to Karalis & Macheras which use PE and mse from stage 1 also for the power monitoring steps. - The third function power.2stage.fC() calculates power and sample size distribution of 2-stage BE studies with a futility criterion for the point estimator or CI of T/R from stage 1. - The fourth function power.2stage.GS() calculates power of non-adaptive group sequential (2-stage) BE studies. - The fifth function power.2stage.p() calculates power and sample size distribution of 2-stage BE studies with 2 parallel groups. - Another function power.2stage.ssr() allows the power calculation for 2-stage studies with (blinded) interim sample size re-estimation. All the functions use simulations to obtain their results.
Author: Detlew Labes [aut, cre], Helmut Schuetz [ctb]
Maintainer: Detlew Labes

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Package pbivnorm updated to version 0.6.0 with previous version 0.5-1 dated 2012-10-31

Title: Vectorized Bivariate Normal CDF
Description: Provides a vectorized R function for calculating probabilities from a standard bivariate normal CDF.
Author: Fortran code by Alan Genz. R code by Brenton Kenkel, based on Adelchi Azzalini's 'mnormt' package.
Maintainer: Brenton Kenkel

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Package grplasso updated to version 0.4-5 with previous version 0.4-4 dated 2014-08-18

Title: Fitting user specified models with Group Lasso penalty
Description: Fits user specified (GLM-) models with Group Lasso penalty
Author: Lukas Meier
Maintainer: Lukas Meier

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Package geostatsp updated to version 1.1.9 with previous version 1.1.8 dated 2015-01-05

Title: Geostatistical Modelling with Likelihood and Bayes
Description: Geostatistical modelling facilities using Raster and SpatialPoints objects are provided. Non-Gaussian models are fit using INLA, and Gaussian geostatistical models use Maximum Likelihood Estimation..
Author: Patrick Brown [aut, cre], Robert Hijmans [ctb]
Maintainer: Patrick Brown

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Package BDgraph updated to version 2.15 with previous version 2.14 dated 2014-12-19

Title: Graph Estimation Based on Birth-Death MCMC Approach
Description: This package provides a general framework to perform Bayesian structure learning in undirected graphical models. The package provides recent improvements in the Bayesian literature. The package consists of two main MCMC sampling algorithm efficiently implemented in C++ to maximize computational speed. The main target of the package is high-dimensional data analysis wherein either continuous or discrete variables and usually number of variables are less than number of observations. Acknowledgements: The help of the CRAN team to integrate C++ code with R is gratefully acknowledged.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi

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Package timeSeries updated to version 3012.99 with previous version 3011.98 dated 2014-10-28

Title: Rmetrics - Financial Time Series Objects
Description: Environment for teaching "Financial Engineering and Computational Finance". Managing financial time series objects.
Author: Rmetrics Core Team, Diethelm Wuertz [aut], Tobias Setz [cre], Yohan Chalabi [ctb]
Maintainer: Tobias Setz

Diff between timeSeries versions 3011.98 dated 2014-10-28 and 3012.99 dated 2015-01-23

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Package timeDate updated to version 3012.100 with previous version 3011.99 dated 2014-10-27

Title: Rmetrics - Chronological and Calendar Objects
Description: Environment for teaching "Financial Engineering and Computational Finance". Managing chronological and calendar objects.
Author: Rmetrics Core Team, Diethelm Wuertz [aut], Tobias Setz [cre], Yohan Chalabi [ctb], Martin Maechler [ctb], Joe W. Byers [ctb]
Maintainer: Tobias Setz

Diff between timeDate versions 3011.99 dated 2014-10-27 and 3012.100 dated 2015-01-23

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New package SpatPCA with initial version 1.0
Package: SpatPCA
Type: Package
Title: Regularized Principal Component Analysis for Spatial Data
Version: 1.0
Date: 2015-01-11
Author: Wen-Ting Wang and Hsin-Cheng Huang
Maintainer: Wen-Ting Wang
Description: This package provides regularized principal component analysis incorporating smoothness, sparseness and orthogonality of eigenfunctions by using alternating direction method of multipliers (ADMM) algorithm.
License: GPL-2
Depends: fields
Imports: Rcpp (>= 0.11.2)
Suggests: foreach
LinkingTo: Rcpp, RcppArmadillo
NeedsCompilation: yes
Packaged: 2015-01-23 02:59:16 UTC; Joseph
Repository: CRAN
Date/Publication: 2015-01-23 09:06:28

More information about SpatPCA at CRAN
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New package remMap with initial version 0.2-0
Package: remMap
Version: 0.2-0
Date: 2008-12-3
Title: Regularized Multivariate Regression for Identifying Master Predictors
Author: Jie Peng , Pei Wang , Ji Zhu .
Maintainer: Pei Wang
Description: remMap is developed for fitting multivariate response regression models under the high-dimension-low-sample-size setting
License: GPL (>= 2)
Packaged: 2015-01-22 19:04:20 UTC; xwan2
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-01-23 09:17:05

More information about remMap at CRAN
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Package RcmdrPlugin.temis updated to version 0.7.3 with previous version 0.7.2 dated 2014-09-06

Title: Graphical Integrated Text Mining Solution
Description: An R Commander plug-in providing an integrated solution to perform a series of text mining tasks such as importing and cleaning a corpus, and analyses like terms and documents counts, vocabulary tables, terms co-occurrences and documents similarity measures, time series analysis, correspondence analysis and hierarchical clustering. Corpora can be imported from spreadsheet-like files, directories of raw text files, Twitter queries, as well as from Dow Jones Factiva, LexisNexis, Europresse and Alceste files.
Author: Milan Bouchet-Valat [aut, cre], Gilles Bastin [aut]
Maintainer: Milan Bouchet-Valat

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Package evmix updated to version 2.4 with previous version 2.3 dated 2014-09-07

Title: Extreme Value Mixture Modelling, Threshold Estimation and Boundary Corrected Kernel Density Estimation
Description: The usual distribution functions, maximum likelihood inference and model diagnostics for univariate stationary extreme value mixture models are provided. Kernel density estimation including various boundary corrected kernel density estimation methods and a wide choice of kernels, with cross-validation likelihood based bandwidth estimator. Reasonable consistency with the base functions in the evd package is provided, so that users can safely interchange most code.
Author: Carl Scarrott and Yang Hu, University of Canterbury
Maintainer: Carl Scarrott

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Permanent link

Package compareGroups updated to version 3.0 with previous version 2.0.5 dated 2014-08-28

Title: Descriptive analysis by groups
Description: This package is designed to read, interpret, summarise, display and analyse epidemiological data. Can be used to create data summaries for quality control, extensive reports for exploring data, including publication-ready univariate or bivariate tables in plain text HTML and LaTeX, and a figures to quickly visualise the distribution of your data. Depending on the nature of the variable, various statistics are calculated (mean, median, frequencies, incidences) and appropriate tests are performed (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...). The latest version includes functionality for summarising genetic data, and for performing low-level quality control of your database (see radiograph()) to help identify data-entry errors. This version has also been implemented in a web-interface to make this package accessible to non-R-users.
Author: Isaac Subirana, Joan Vila, Héctor Sanz, Gavin Lucas, Judith Peñafiel and David Giménez
Maintainer: Isaac Subirana

Diff between compareGroups versions 2.0.5 dated 2014-08-28 and 3.0 dated 2015-01-23

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Permanent link

Package bnlearn updated to version 3.7.1 with previous version 3.7 dated 2015-01-13

Title: Bayesian Network Structure Learning, Parameter Learning and Inference
Description: Bayesian network structure learning, parameter learning and inference. This package implements constraint-based (GS, IAMB, Inter-IAMB, Fast-IAMB, MMPC, Hiton-PC), pairwise (ARACNE and Chow-Liu), score-based (Hill-Climbing and Tabu Search) and hybrid (MMHC and RSMAX2) structure learning algorithms for discrete, Gaussian and conditional Gaussian networks, along with many score functions and conditional independence tests. The Naive Bayes and the Tree-Augmented Naive Bayes (TAN) classifiers are also implemented. Some utility functions (model comparison and manipulation, random data generation, arc orientation testing, simple and advanced plots) are included, as well as support for parameter estimation (maximum likelihood and Bayesian) and inference, conditional probability queries and cross-validation. Development snapshots with the latest bugfixes are available from www.bnlearn.com.
Author: Marco Scutari
Maintainer: Marco Scutari

Diff between bnlearn versions 3.7 dated 2015-01-13 and 3.7.1 dated 2015-01-23

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More information about bnlearn at CRAN
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Package blockcluster updated to version 3.0.2 with previous version 3.0.1 dated 2014-01-16

Title: Coclustering package for binary, contingency, continuous and categorical data-sets
Description: Simultaneous clustering of rows and columns, usually designated by biclustering, co-clustering or block clustering, is an important technique in two way data analysis. It consists of estimating a mixture model which takes into account the block clustering problem on both the individual and variables sets. The blockcluster package provides a bridge between the C++ core library and the R statistical computing environment. This package allows to co-cluster binary, contingency, continuous and categorical data-sets. It also provides utility functions to visualize the results. This package may be useful for various applications in fields of Data mining,Information retrieval, Biology, computer vision and many more. More information about the project and comprehensive tutorial can be found on the link mentioned in URL.
Author: Parmeet Singh Bhatia , Serge Iovleff, Gerard Goavert, Vincent Brault, with contributions from Christophe Biernacki and Gilles Celeux.
Maintainer: Vincent KUBICKI

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Package nlrwr (with last version 1.1-0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2011-11-02 1.1-0
2009-03-25 1.0-6
2009-01-07 1.0-5
2008-03-21 1.0

Permanent link
Package LogicReg updated to version 1.5.6 with previous version 1.5.5 dated 2013-12-03

Title: Logic Regression
Description: Routines for Logic Regression
Author: Charles Kooperberg and Ingo Ruczinski
Maintainer: Charles Kooperberg

Diff between LogicReg versions 1.5.5 dated 2013-12-03 and 1.5.6 dated 2015-01-23

 DESCRIPTION  |   12 ++++++------
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Permanent link

Package hysteresis updated to version 2.5 with previous version 2.0 dated 2013-11-19

Title: Tools for Modeling Rate-Dependent Hysteretic Processes and Ellipses
Description: Fit, summarize and plot sinusoidal hysteretic processes using: two-step simple harmonic least squares, ellipse-specific non-linear least squares, the direct method, geometric least squares or linear least squares.
Author: Spencer Maynes, Fan Yang, and Anne Parkhurst
Maintainer: Anne Parkhurst

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More information about hysteresis at CRAN
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Thu, 22 Jan 2015

Package mirtCAT updated to version 0.4 with previous version 0.3 dated 2014-12-15

Title: Computerized Adaptive Testing with Multidimensional Item Response Theory
Description: Provides tools to generate an HTML interface for creating adaptive and non-adaptive educational and psychological tests using the shiny package. Suitable for applying unidimensional and multidimensional computerized adaptive tests using item response theory methodology and for creating simple questionnaires forms to collect response data directly in R.
Author: Phil Chalmers [aut, cre, cph]
Maintainer: Phil Chalmers

Diff between mirtCAT versions 0.3 dated 2014-12-15 and 0.4 dated 2015-01-22

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 35 files changed, 1392 insertions(+), 1060 deletions(-)

More information about mirtCAT at CRAN
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Package mirt updated to version 1.8 with previous version 1.7 dated 2014-12-15

Title: Multidimensional Item Response Theory
Description: Analysis of dichotomous and polytomous response data using unidimensional and multidimensional latent trait models under the Item Response Theory paradigm. Exploratory and confirmatory models can be estimated with quadrature (EM) or stochastic (MHRM) methods. Confirmatory bi-factor and two-tier analyses are available for modeling item testlets. Multiple group analysis and mixed effects designs also are available for detecting differential item functioning and modelling item and person covariates.
Author: Phil Chalmers [aut, cre, cph], Joshua Pritikin [ctb], Alexander Robitzsch [ctb], Mateusz Zoltak [ctb]
Maintainer: Phil Chalmers

Diff between mirt versions 1.7 dated 2014-12-15 and 1.8 dated 2015-01-22

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Package matrixStats updated to version 0.13.1 with previous version 0.13.0 dated 2015-01-21

Title: Methods that Apply to Rows and Columns of a Matrix
Description: Methods operating on rows and columns of matrices, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). There are also some vector-based methods, e.g. binMeans(), madDiff() and weightedMedians(). All methods have been optimized for speed and memory usage.
Author: Henrik Bengtsson [aut, cre, cph], Hector Corrada Bravo [ctb], Robert Gentleman [ctb], Ola Hossjer [ctb], Harris Jaffee [ctb], Peter Langfelder [ctb]
Maintainer: Henrik Bengtsson

Diff between matrixStats versions 0.13.0 dated 2015-01-21 and 0.13.1 dated 2015-01-22

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New package shinybootstrap2 with initial version 0.2
Package: shinybootstrap2
Title: Bootstrap 2 web components for use with Shiny
Version: 0.2
Authors@R: c( person("Winston", "Chang", role = c("aut", "cre"), email = "winston@rstudio.com"), person(family = "RStudio", role = "cph"), person("Mark", "Otto", role = "ctb", comment = "Bootstrap library"), person("Jacob", "Thornton", role = "ctb", comment = "Bootstrap library"), person(family = "Bootstrap contributors", role = "ctb", comment = "Bootstrap library; authors listed at https://github.com/twbs/bootstrap/graphs/contributors"), person(family = "Twitter, Inc", role = "cph", comment = "Bootstrap library"), person("Brian", "Reavis", role = c("ctb", "cph"), comment = "selectize.js library"), person("Egor", "Khmelev", role = c("ctb", "cph"), comment = "jslider library"), person(family = "SpryMedia Limited", role = c("ctb", "cph"), comment = "DataTables library") )
Description: Provides Bootstrap 2 web components for use with the Shiny package. With versions of Shiny prior to 0.11, these Bootstrap 2 components were included as part of the package. Later versions of Shiny include Bootstrap 3, so the Bootstrap 2 components have been moved into this package for those uses who rely on features specific to Bootstrap 2.
Depends: R (>= 3.0.0)
License: GPL-3 | file LICENSE
LazyData: true
Imports: htmltools (>= 0.2.6), jsonlite (>= 0.9.12), shiny
Packaged: 2015-01-22 17:07:03 UTC; winston
Author: Winston Chang [aut, cre], RStudio [cph], Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library; authors listed at https://github.com/twbs/bootstrap/graphs/contributors), Twitter, Inc [cph] (Bootstrap library), Brian Reavis [ctb, cph] (selectize.js library), Egor Khmelev [ctb, cph] (jslider library), SpryMedia Limited [ctb, cph] (DataTables library)
Maintainer: Winston Chang
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-22 19:16:49

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New package lba with initial version 1.0
Package: lba
Title: Latent Budget Analysis for Compositional Data
Version: 1.0
Date: 2015-01-22
Author: Enio G. Jelihovschi Ivan Bezerra Allaman
Maintainer: Enio G. Jelihovschi
Depends: R (>= 3.1.2), MASS, alabama, plotrix, ca
Description: Latent budget analysis is a method for the analysis of a two-way contingency table with an exploratory variable and a response variable. It is specially designed for compositional data.
Encoding: latin1
License: GPL (>= 2)
Packaged: 2015-01-22 12:13:45 UTC; ivan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-22 18:42:44

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Package ltsk updated to version 1.0.2 with previous version 1.0.1 dated 2014-02-06

Title: Local Time Space Kriging
Description: Implements local spatial and local spatiotemporal Kriging based on local spatial and local spatiotemporal variograms, respectively.
Author: Naresh Kumar, Dong Liang, Jin Chen, Jun Chen
Maintainer: Dong Liang

Diff between ltsk versions 1.0.1 dated 2014-02-06 and 1.0.2 dated 2015-01-22

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New package ESEA with initial version 1.0
Package: ESEA
Version: 1.0
Title: ESEA: Discovering the Dysregulated Pathways based on Edge Set Enrichment Analysis
Author: Junwei Han, Xinrui Shi, Chunquan Li
Maintainer: Xinrui Shi
Description: The package can identify the dysregulated canonical pathways by investigating the changes of biological relationships of pathways in the context of gene expression data. (1) The ESEA package constructs a background set of edges by extracting pathway structure (e.g. interaction, regulation, modification, and binding etc.) from the seven public databases (KEGG; Reactome; Biocarta; NCI; SPIKE; HumanCyc; Panther) and the edge sets of pathways for each of the above databases. (2) The ESEA package can can quantify the change of correlation between genes for each edge based on gene expression data with cases and controls. (3) The ESEA package uses the weighted Kolmogorov-Smirnov statistic to calculate an edge enrichment score (EES), which reflects the degree to which a given pathway is associated the specific phenotype. (4) The ESEA package can provide the visualization of the results.
Depends: R (>= 2.10),igraph,XML,parmigene
Suggests: Matrix,graph
Collate: calEdgeCorScore.R ESEA.Main.R PlotGlobEdgeCorProfile.R PlotPathwayGraph.R PlotRunEnrichment.R SavePathway2File.R getEnvironmentData.R GetExampleData.R GetEdgesBackgrandData.R GetPathwayEdgeData.R
LazyData: Yes
License: GPL (>= 2)
biocViews: Statistics, Pathways, edge, enrichment analysis
Packaged: 2015-01-22 12:50:32 UTC; Administrator
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-22 15:58:44

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New package RcmdrPlugin.NMBU with initial version 1.8.0
Package: RcmdrPlugin.NMBU
Type: Package
Title: R Commander Plug-In for University Level Applied Statistics
Version: 1.8.0
Date: 2015-01-22
Author: Kristian Hovde Liland, Solve Sæbø
Maintainer: Kristian Hovde Liland
Encoding: latin1
Depends: R (>= 3.0.0), mixlm (>= 1.0.8), MASS, pls, xtable
Imports: Rcmdr (>= 2.0-0), tcltk
Suggests: lme4, leaps, mvtnorm, gmodels, abind, lattice, pbkrtest, vcd, multcomp, e1071, nnet
Description: An R Commander "plug-in" extending functionality of linear models and providing an interface to Partial Least Squares Regression and Linear and Quadratic Discriminant analysis. Several statistical summaries are extended, predictions are offered for additional types of analyses, and extra plots, tests and mixed models are available.
License: GPL (>= 2)
LazyLoad: yes
LazyData: yes
RcmdrModels: mvr, lda, qda, prcomp, mer, rsm, glmerMod, lmerMod
NeedsCompilation: no
Packaged: 2015-01-22 08:26:37 UTC; kristian.liland
Repository: CRAN
Date/Publication: 2015-01-22 13:35:54

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Package BcDiag updated to version 1.0.8 with previous version 1.0.7 dated 2014-12-03

Title: Diagnostics plots for Bicluster Data
Description: Diagnostic tools based on two-way anova and median-polish residual plots for Bicluster output obtained from packages; "biclust" by Kaiser et al.(2008),"isa2" by Csardi et al. (2010) and "fabia" by Hochreiter et al. (2010). Moreover, It provides visualization tools for bicluster output and corresponding non-bicluster rows- or columns outcomes. It has also extended the idea of Kaiser et al.(2008) which is, extracting bicluster output in a text format, by adding two bicluster methods from the fabia and isa2 R packages.
Author: Aregay Mengsteab, Martin Otava, Tatsiana Khamiakova, Ewoud De Troyer
Maintainer: Ewoud De Troyer

Diff between BcDiag versions 1.0.7 dated 2014-12-03 and 1.0.8 dated 2015-01-22

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Package wesanderson updated to version 0.3.2 with previous version 0.3 dated 2014-03-27

Title: A Wes Anderson Palette Generator
Description: Palettes generated mostly from Wes Anderson movies
Author: Karthik Ram [aut, cre], Hadley Wickham [aut], Clark Richards [ctb]
Maintainer: Karthik Ram

Diff between wesanderson versions 0.3 dated 2014-03-27 and 0.3.2 dated 2015-01-22

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Package timeordered updated to version 0.9.8 with previous version 0.9.7 dated 2014-10-22

Title: Time-ordered and time-aggregated network analyses
Description: Methods for incorporating time into network analysis. Construction of time-ordered networks (temporal graphs). Shortest-time and shortest-path-length analyses. Resource spread calculations. Data resampling and rarefaction for null model construction. Reduction to time-aggregated networks with variable window sizes; application of common descriptive statistics to these networks. Vector clock latencies. Plotting functionalities.
Author: Benjamin Blonder
Maintainer: Benjamin Blonder

Diff between timeordered versions 0.9.7 dated 2014-10-22 and 0.9.8 dated 2015-01-22

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More information about timeordered at CRAN
Permanent link

Package spocc updated to version 0.2.4 with previous version 0.2.2 dated 2014-10-24

Title: R Interface to Species Occurrence Data Sources
Description: A programmatic interface to many species occurrence data sources, including GBIF, USGS's BISON, iNaturalist, Berkeley Ecoinformatics Engine eBird, AntWeb, and more as sources become easily available. This package includes functionality for retrieving species occurrence data, combining that data, and creating various kinds of static and interactive maps.
Author: Scott Chamberlain [aut, cre], Karthik Ram [aut], Ted Hart [aut]
Maintainer: Scott Chamberlain

Diff between spocc versions 0.2.2 dated 2014-10-24 and 0.2.4 dated 2015-01-22

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Package spacetime updated to version 1.1-3 with previous version 1.1-2 dated 2015-01-15

Title: Classes and Methods for Spatio-Temporal Data
Description: Classes and methods for spatio-temporal data, including space-time regular lattices, sparse lattices, irregular data, and trajectories; utility functions for plotting data as map sequences (lattice or animation) or multiple time series; methods for spatial and temporal selection and subsetting, as well as for spatial/temporal/spatio-temporal combining or aggregating, retrieving coordinates, print, summary, etc.
Author: Edzer Pebesma [cre, aut], Benedikt Graeler [ctb], Tom Gottfried [ctb], Robert J. Hijmans [ctb]
Maintainer: Edzer Pebesma

Diff between spacetime versions 1.1-2 dated 2015-01-15 and 1.1-3 dated 2015-01-22

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Package UsingR updated to version 2.0-4 with previous version 2.0-3 dated 2015-01-21

Title: Data Sets, etc. for the Text "Using R for Introductory Statistics", Second Edition
Description: A collection of data sets to accompany the textbook "Using R for Introductory Statistics," second edition.
Author: John Verzani
Maintainer: John Verzani

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Package Frames2 updated to version 0.1.0 with previous version 0.0.3 dated 2014-09-02

Title: Estimation in dual frame surveys
Description: Point and interval estimation in dual frame surveys. In contrast to classic sampling theory, where only one sampling frame is considered, dual frame methodology assumes that there are two frames available for sampling and that, overall, they cover the entire target population. Then, two probability samples (one from each frame) are drawn and information collected is suitably combined to get estimators of the parameter of interest.
Author: Antonio Arcos , Maria del Mar Rueda , Maria Giovanna Ranalli and David Molina
Maintainer: David Molina

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Wed, 21 Jan 2015

New package TRD with initial version 1.0
Package: TRD
Type: Package
Title: Transmission Ratio Distortion
Version: 1.0
Date: 2015-01-21
Author: Lam Opal Huang
Maintainer: Lam Opal Huang
Depends: Rlab (>= 2.14.0)
Description: Transmission Ratio Distortion (TRD) is a genetic phenomenon where two alleles from either parent are not transmitted to the offspring at the Mendelian 1:1 ratio. Occurrence of TRD in general population can lead to false inflation or attenuation of association signals in case populations. Therefore, it is necessary to adjust for TRD in model fitting of case populations. This package uses models such as loglinear model (Weinberg 1998), augmented loglinear model (Huang 2014), and tests such as TDT (Spielman 1993), augmented TDT (Labbe 2013), on simulated or real datasets. This package has a simulation function which generates a population that is under the influence of TRD, and samples a sub-population, which can serve as the dataset to fit a loglinear model or to perform a TDT. Real dataset with the same data structure as described in the help file of the function 'll' can also be used in the loglinear model and the TDT functions. No real dataset is included in this package.
License: GPL (>= 2)
Packaged: 2015-01-21 18:53:44 UTC; Opal - AL
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-22 00:48:35

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Package sig updated to version 0.0-5 with previous version 0.0-4 dated 2013-07-11

Title: Print Function Signatures
Description: Print function signatures and find overly complicated code.
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton

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Package rvertnet updated to version 0.2.2 with previous version 0.0-5 dated 2012-11-23

Title: Search VertNet, a Database of Vertebrate Specimen Records
Description: Retrieve, map and summarize data from the VertNet.org archives. Functions allow searching by many parameters, including taxonomic names, places, dates. In addition, there is an interface for conducting spatially delimited searches, and another for requesting large datasets via email.
Author: Scott Chamberlain [aut, cre], Chris Ray [aut], Vijay Barve [aut]
Maintainer: Scott Chamberlain

Diff between rvertnet versions 0.0-5 dated 2012-11-23 and 0.2.2 dated 2015-01-21

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New package rebus with initial version 0.0-4
Package: rebus
Type: Package
Title: Build Regular Expressions in a Human Readable Way
Version: 0.0-4
Date: 2015-01-20
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton
Authors@R: person("Richard", "Cotton", role = c("aut", "cre"), email = "richierocks@gmail.com")
Description: Build regular expressions piece by piece using human readable code.
Depends: R (>= 3.1.0)
Suggests: testthat
License: Unlimited
LazyLoad: yes
LazyData: yes
Acknowledgments: Development of this package was partially funded by the Proteomics Core at Weill Cornell Medical College in Qatar . The Core is supported by 'Biomedical Research Program' funds, a program funded by Qatar Foundation.
Collate: 'alternation.R' 'regex-methods.R' 'backreferences.R' 'capture.R' 'internal.R' 'grouping-and-repetition.R' 'constants.R' 'class-groups.R' 'concatenation.R' 'compound-constants.R' 'escape_special.R' 'datetime.R' 'lookaround.R' 'misc.R' 'number_range.R' 'regex-package.R' 'unicode-groups.R' 'unicode.R' 'zzz.R'
Packaged: 2015-01-20 13:49:39 UTC; rjc2003
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-22 00:46:57

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Package mvSLOUCH updated to version 1.1.5 with previous version 1.1.4 dated 2014-11-02

Title: Multivariate Stochastic Linear Ornstein-Uhlenbeck Models for Phylogenetic Comparative Hypotheses
Description: Fits multivariate Ornstein-Uhlenbeck types of models to continues trait data from species related by a common evolutionary history.
Author: Krzysztof Bartoszek
Maintainer: Krzysztof Bartoszek

Diff between mvSLOUCH versions 1.1.4 dated 2014-11-02 and 1.1.5 dated 2015-01-21

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Package micromapST updated to version 1.0.5 with previous version 1.0.3 dated 2014-03-09

Title: Linked Micromap Plots for U. S. States
Description: This package provides the user with the ability to quickly create Linked Micromap plots of the 50 U.S. states and District of Columbia (51 areas). Linked Micromap plots are visualizations of geo-referenced data that link statistical graphics to an organized series of small maps. The Help description contains examples of how to use the micromapST function. This package contains the US and State boundary files and U. S. FIPS code to State conversion tables used by the micromapST function and several data sets used in the micromapST examples. Copyrighted 2013, 2014 and 2015 by Carr, Pearson and Pickle.
Author: Dan Carr and James B Pearson , with contributions from Linda Pickle .
Maintainer: Jim Pearson

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Package googleVis updated to version 0.5.8 with previous version 0.5.7 dated 2014-12-20

Title: R Interface to Google Charts
Description: R interface to Google Charts API, allowing users to create interactive charts based on data frames. Charts are displayed locally via the R HTTP help server. A modern browser with Internet connection is required and for some charts a Flash player. The data remains local and is not uploaded to Google.
Author: Markus Gesmann [aut, cre], Diego de Castillo [aut], Joe Cheng [ctb]
Maintainer: Markus Gesmann

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Package extRemes updated to version 2.0-5 with previous version 2.0-4 dated 2014-12-17

Title: Extreme Value Analysis
Description: Functions for performing extreme value analysis.
Author: Eric Gilleland
Maintainer: Eric Gilleland

Diff between extRemes versions 2.0-4 dated 2014-12-17 and 2.0-5 dated 2015-01-21

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Package cec2013 updated to version 0.1-5 with previous version 0.1-4 dated 2013-03-05

Title: Benchmark functions for the Special Session and Competition on Real-Parameter Single Objective Optimization at CEC-2013
Description: This package provides R wrappers for the C implementation of 28 benchmark functions defined for the Special Session and Competition on Real-Parameter Single Objective Optimization at CEC-2013. The focus of this package is to provide an open-source and multi-platform implementation of the CEC2013 benchmark functions, in order to make easier for researchers to test the performance of new optimization algorithms in a reproducible way. The original C code (Windows only) was provided by Jane Jing Liang, while GNU/Linux comments were made by Janez Brest. This package was gently authorised for publication on CRAN by Ponnuthurai Nagaratnam Suganthan. The official documentation is available at http://www.ntu.edu.sg/home/EPNSugan/index_files/CEC2013/CEC2013.htm. Bugs reports/comments/questions are very welcomed (in English, Spanish or Italian).
Author: Mauricio Zambrano-Bigiarini [aut, cre], Yasser Gonzalez-Fernandez [aut]
Maintainer: Mauricio Zambrano-Bigiarini

Diff between cec2013 versions 0.1-4 dated 2013-03-05 and 0.1-5 dated 2015-01-21

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Package SoundexBR updated to version 1.1 with previous version 1.0 dated 2014-12-22

Title: Phonetic-Coding For Portuguese
Description: The SoundexBR package provides an algorithm for decoding names into phonetic codes, as pronounced in Portuguese. The goal is for homophones to be encoded to the same representation so that they can be matched despite minor differences in spelling. The algorithm mainly encodes consonants; a vowel will not be encoded unless it is the first letter. The soundex code resultant consists of a four digits long string composed by one letter followed by three numerical digits: the letter is the first letter of the name, and the digits encode the remaining consonants.
Author: Daniel Marcelino
Maintainer: Daniel Marcelino

Diff between SoundexBR versions 1.0 dated 2014-12-22 and 1.1 dated 2015-01-21

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Package PracTools updated to version 0.1 with previous version 0.0-2 dated 2014-06-22

Title: Tools for Designing and Weighting Survey Samples
Description: PracTools contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs. Other functions compute variance components for multistage designs and sample sizes in two-phase designs. A number of example datasets are included.
Author: Richard Valliant, Jill A. Dever, Frauke Kreuter
Maintainer: Richard Valliant

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Package ordinal updated to version 2015.1-21 with previous version 2014.12-22 dated 2014-12-23

Title: Regression Models for Ordinal Data
Description: Implementation of cumulative link (mixed) models also known as ordered regression models, proportional odds models, proportional hazards models for grouped survival times and ordered logit/probit/... models. Estimation is via maximum likelihood and mixed models are fitted with the Laplace approximation and adaptive Gauss-Hermite quadrature. Multiple random effect terms are allowed and they may be nested, crossed or partially nested/crossed. Restrictions of symmetry and equidistance can be imposed on the thresholds (cut-points/intercepts). Standard model methods are available (summary, anova, drop-methods, step, confint, predict etc.) in addition to profile methods and slice methods for visualizing the likelihood function and checking convergence.
Author: Rune Haubo Bojesen Christensen [aut, cre]
Maintainer: Rune Haubo Bojesen Christensen

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Package drmdel updated to version 1.3.1 with previous version 1.3 dated 2014-04-09

Title: Dual Empirical Likelihood Inference under Density Ratio Models in the Presence of Multiple Samples
Description: Dual empirical likelihood (DEL) inference under semiparametric density ratio models (DRM) in the presence of multiple samples, including population cumulative distribution function estimation, quantile estimation and comparison, density estimation, composite hypothesis testing for DRM parameters which encompasses testing for changes in population distribution functions as a special case, etc.
Author: Song Cai
Maintainer: Song Cai

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New package compLasso with initial version 0.0-1
Package: compLasso
Type: Package
Title: Implements the Component Lasso Method Functions
Version: 0.0-1
Date: 2014-10-04
Imports: quadprog, Matrix
Author: Nadine Hussami, Robert Tibshirani and Jerome Friedman
Maintainer: Nadine Hussami
Description: Implements the Component lasso method for linear regression using the sample covariance matrix connected-components structure, described in A Component Lasso, by Hussami and Tibshirani (2013)
License: GPL (>= 2)
Packaged: 2015-01-21 17:47:49 UTC; nadine
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-01-21 21:28:36

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Package UsingR updated to version 2.0-3 with previous version 2.0-2 dated 2014-09-02

Title: Data sets, etc. for the text "Using R for Introductory Statistics", second edition
Description: A collection of data sets to accompany the textbook "Using R for Introductory Statistics," second edition.
Author: John Verzani
Maintainer: John Verzani

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Package sensR updated to version 1.4-5 with previous version 1.4-4 dated 2014-12-23

Title: Thurstonian Models for Sensory Discrimination
Description: Provides methods for sensory discrimination methods; duotrio, tetrad, triangle, 2-AFC, 3-AFC, A-not A, same-different, 2-AC and degree-of-difference. This enables the calculation of d-primes, standard errors of d-primes, sample size and power computations, and comparisons of different d-primes. Methods for profile likelihood confidence intervals and plotting are included.
Author: Rune Haubo Bojesen Christensen [aut, cre], Per Bruun Brockhoff [aut]
Maintainer: Rune Haubo Bojesen Christensen

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Package SemiParSampleSel updated to version 1.2 with previous version 1.1-1 dated 2014-08-27

Title: Semiparametric Sample Selection Modelling with Continuous or Discrete Response
Description: Routine for fitting continuous or discrete response copula sample selection models with semiparametric predictors, including linear and nonlinear effects.
Author: Giampiero Marra, Rosalba Radice, Malgorzata Wojtys and Karol Wyszynski
Maintainer: Giampiero Marra

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Package RSA updated to version 0.9.6 with previous version 0.9.3 dated 2014-06-27

Title: Response Surface Analysis
Description: Advanced response surface analysis. The main function RSA computes and compares several nested polynomial regression models (full polynomial, shifted and rotated squared differences, rising ridge surfaces, basic squared differences). The package provides plotting functions for 3d wireframe surfaces, interactive 3d plots, and contour plots. Calculates many surface parameters (a1 to a4, principal axes, stationary point, eigenvalues) and provides standard, robust, or bootstrapped standard errors and confidence intervals for them.
Author: Felix Schönbrodt
Maintainer: Felix Schönbrodt

Diff between RSA versions 0.9.3 dated 2014-06-27 and 0.9.6 dated 2015-01-21

 DESCRIPTION          |   17 +--
 MD5                  |   59 +++++------
 NAMESPACE            |    8 +
 R/RSA.R              |  271 +++++++++++++++++++++++++++++++++++----------------
 R/RSA.ST.R           |   51 ++++-----
 R/aictab.R           |   26 +++-
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 R/plot.RSA.R         |  257 +++++++++++++++++++++++++++++++++++-------------
 R/print.RSA.R        |   73 ++++++++++++-
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 man/motcon.Rd        |    3 
 man/movieRSA.Rd      |    3 
 man/plotRSA.Rd       |  105 ++++++++++---------
 man/residuals.RSA.Rd |    3 
 32 files changed, 863 insertions(+), 387 deletions(-)

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Package RgoogleMaps updated to version 1.2.0.7 with previous version 1.2.0.6 dated 2014-04-30

Title: Overlays on Google map tiles in R
Description: This package serves two purposes: (i) Provide a comfortable R interface to query the Google server for static maps, and (ii) Use the map as a background image to overlay plots within R. This requires proper coordinate scaling.
Author: Markus Loecher
Maintainer: Markus Loecher

Diff between RgoogleMaps versions 1.2.0.6 dated 2014-04-30 and 1.2.0.7 dated 2015-01-21

 DESCRIPTION                      |   10 ++--
 MD5                              |   79 +++++++++++++++++++--------------------
 NAMESPACE                        |    4 +
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 41 files changed, 170 insertions(+), 136 deletions(-)

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Permanent link

New package npIntFactRep with initial version 1.0
Package: npIntFactRep
Type: Package
Title: Nonparametric Rank Test for Interaction in Factorial Designs with Repeated Measures
Version: 1.0
Date: 2015-01-15
Author: Jos Feys
Maintainer: Jos Feys
Description: Noparametric interaction tests on data set in 'wide' format with repeated measures. Choice between 1) Aligend Regular ranks, 2) Friedman ranks , and Koch ranks
License: GPL (>= 2)
Packaged: 2015-01-21 13:10:38 UTC; Jos
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-21 17:14:54

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Package MODISTools updated to version 0.94.6 with previous version 0.94.5 dated 2014-12-23

Title: MODIS Subsetting Tools
Description: Provides several functions for downloading, storing and processing subsets of MODIS Land Processes data as a batch process.
Author: Sean Tuck, Helen Phillips
Maintainer: Sean Tuck

Diff between MODISTools versions 0.94.5 dated 2014-12-23 and 0.94.6 dated 2015-01-21

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 5 files changed, 22 insertions(+), 36 deletions(-)

More information about MODISTools at CRAN
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Package HiveR updated to version 0.2-28 with previous version 0.2-27 dated 2014-06-02

Title: 2D and 3D Hive Plots for R
Description: HiveR creates and plots 2D and 3D hive plots. Hive plots are a unique method of displaying networks of many types in which node properties are mapped to axes using meaningful properties rather than being arbitrarily positioned. The hive plot concept was invented by Martin Krzywinski at the Genome Science Center (www.hiveplot.net/). Keywords: networks, food webs, linnet, systems biology, bioinformatics.
Author: Bryan A. Hanson [aut, cre], Vesna Memisevic [ctb], Jonathan Chung [ctb]
Maintainer: Bryan A. Hanson

Diff between HiveR versions 0.2-27 dated 2014-06-02 and 0.2-28 dated 2015-01-21

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 HiveR-0.2-28/HiveR/inst/CITATION        |    5 +--
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 27 files changed, 95 insertions(+), 87 deletions(-)

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Package hht updated to version 2.1.2 with previous version 2.1.1 dated 2014-10-28

Title: The Hilbert-Huang Transform: Tools and Methods
Description: This package builds on the EMD package to provide additional tools for empirical mode decomposition (EMD) and Hilbert spectral analysis. It also implements the ensemble empirical decomposition (EEMD) and the complete ensemble empirical mode decomposition (CEEMD) methods to avoid mode mixing and intermittency problems found in EMD analysis. The package comes with several plotting methods that can be used to view intrinsic mode functions, the HHT spectrum, and the Fourier spectrum. To see the version history and download the bleeding-edge version (at your own risk!), see the project website at code.google.com below. See the other links for PDF files describing numerical and exact analytical methods for determining instantaneous frequency, some examples of signals processed with this package, and some examples of the ensemble empirical mode decomposition method.
Author: Daniel C. Bowman [aut, cre], Jonathan M. Lees [ctb]
Maintainer: Daniel C. Bowman

Diff between hht versions 2.1.1 dated 2014-10-28 and 2.1.2 dated 2015-01-21

 DESCRIPTION                |    6 +++---
 MD5                        |    8 ++++----
 NEWS                       |    3 +++
 R/rendering_and_plotting.R |    2 +-
 inst/CITATION              |   22 ++++++++++------------
 5 files changed, 21 insertions(+), 20 deletions(-)

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Package coxphf updated to version 1.11 with previous version 1.10 dated 2013-07-08

Title: Cox regression with Firth's penalized likelihood
Description: Cox regression with Firth's penalized likelihood
Author: R by Meinhard Ploner, Fortran by Georg Heinze
Maintainer: Georg Heinze

Diff between coxphf versions 1.10 dated 2013-07-08 and 1.11 dated 2015-01-21

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 6 files changed, 39 insertions(+), 31 deletions(-)

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Package ChemoSpec updated to version 3.0-1 with previous version 2.0-2 dated 2014-05-31

Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for plotting spectra (NMR, IR etc) and carrying out various forms of top-down exploratory data analysis, such as HCA, PCA and model-based clustering. The design allows comparison of data from samples which fall into groups such as treatment vs. control. Robust methods appropriate for this type of high-dimensional data are available. ChemoSpec is designed to be very user friendly and suitable for people with limited background in R.
Author: Bryan A. Hanson DePauw University, Greencastle Indiana USA
Maintainer: Bryan A. Hanson

Diff between ChemoSpec versions 2.0-2 dated 2014-05-31 and 3.0-1 dated 2015-01-21

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 86 files changed, 606 insertions(+), 516 deletions(-)

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Permanent link

New package mixlm with initial version 1.0.8
Package: mixlm
Type: Package
Title: Mixed Model ANOVA and Statistics for Education
Version: 1.0.8
Date: 2015-01-21
Authors@R: c(person("Kristian Hovde", "Liland", role = c("aut","cre"), email="kristian.liland@nmbu.no"), person("Solve", "Sæbø", role=c("ctb")), person(family="R-Core", role="ctb"))
Maintainer: Kristian Hovde Liland
Encoding: latin1
Description: The main functions perform mixed models analysis by least squares or REML by adding the function r() to formulas of lm and glm. A collection of text-book statistics for higher education is also included, e.g. modifications of the functions lm, glm and associated summaries from the package stats.
Depends: multcomp, pls, pracma
Imports: leaps, lme4, car
License: GPL (>= 2)
LazyLoad: yes
LazyData: yes
NeedsCompilation: no
Packaged: 2015-01-21 07:50:17 UTC; kristian.liland
Author: Kristian Hovde Liland [aut, cre], Solve Sæbø [ctb], R-Core [ctb]
X-CRAN-Comment: Earlier versions were removed on 2015-01-20 for copyright violation.
Repository: CRAN
Date/Publication: 2015-01-21 12:57:12

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Package MenuCollection updated to version 1.2 with previous version 1.1 dated 2015-01-05

Title: Collection of Configurable GTK+ Menus
Description: Set of configurable menus built with GTK+ to graphically interface new functions.
Author: Gianmarco Polotti
Maintainer: Gianmarco Polotti

Diff between MenuCollection versions 1.1 dated 2015-01-05 and 1.2 dated 2015-01-21

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Package ggm updated to version 2.3 with previous version 2.2 dated 2014-12-04

Title: Functions for graphical Markov models
Description: Functions and datasets for maximum likelihood fitting of some classes of graphical Markov models.
Author: Giovanni M. Marchetti, Mathias Drton, Kayvan Sadeghi
Maintainer: Giovanni M. Marchetti

Diff between ggm versions 2.2 dated 2014-12-04 and 2.3 dated 2015-01-21

 DESCRIPTION      |   12 ++++++------
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 3 files changed, 9 insertions(+), 10 deletions(-)

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Package psych updated to version 1.5.1 with previous version 1.4.8.11 dated 2014-08-12

Title: Procedures for Psychological, Psychometric, and Personality Research
Description: A general purpose toolbox for personality, psychometrics and experimental psychology. Functions are primarily for scale construction using factor analysis, principal component analysis, cluster analysis and reliability analysis, although others provide basic descriptive statistics. Item Response Theory is done using factor analysis of tetrachoric and polychoric correlations. Functions for analyzing data at multi-levels include within and between group statistics, including correlations and factor analysis. Functions for simulating particular item and test structures are included. Several functions serve as a useful front end for structural equation modeling. Graphical displays of path diagrams, factor analysis and structural equation models are created using basic graphics. Some of the functions are written to support a book on psychometrics as well as publications in personality research. For more information, see the personality-project.org/r webpage.
Author: William Revelle
Maintainer: William Revelle

Diff between psych versions 1.4.8.11 dated 2014-08-12 and 1.5.1 dated 2015-01-21

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Package onlinePCA updated to version 1.0-1 with previous version 1.0 dated 2014-12-26

Title: Online Principal Component Analysis
Description: Online PCA for multivariate and functional data using perturbation, incremental, and stochastic gradient methods.
Author: David Degras [aut, cre], Herve Cardot [ctb]
Maintainer: David Degras

Diff between onlinePCA versions 1.0 dated 2014-12-26 and 1.0-1 dated 2015-01-21

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 MD5                      |   25 +++++++++++++------------
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 R/perturbationRpca.R     |    7 +++----
 R/secularRpca.R          |    8 ++++----
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 R/snlpca.R               |    8 ++++----
 man/incRpca.Rd           |    1 +
 man/onlinePCA-package.Rd |    5 +++--
 man/perturbationRpca.Rd  |    6 ++++--
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More information about onlinePCA at CRAN
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Package matrixStats updated to version 0.13.0 with previous version 0.12.2 dated 2014-12-07

Title: Methods that Apply to Rows and Columns of a Matrix
Description: Methods operating on rows and columns of matrices, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). There are also some vector-based methods, e.g. binMeans(), madDiff() and weightedMedians(). All methods have been optimized for speed and memory usage.
Author: Henrik Bengtsson [aut, cre, cph], Hector Corrada Bravo [ctb], Robert Gentleman [ctb], Ola Hossjer [ctb], Harris Jaffee [ctb], Peter Langfelder [ctb]
Maintainer: Henrik Bengtsson

Diff between matrixStats versions 0.12.2 dated 2014-12-07 and 0.13.0 dated 2015-01-21

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More information about matrixStats at CRAN
Permanent link

New package gammSlice with initial version 1.3
Package: gammSlice
Type: Package
Title: Generalized additive mixed model analysis via slice sampling
Version: 1.3
Date: 2015-01-21
Author: Tung Pham and Matt Wand
Maintainer: Tung Pham
Description: Uses a slice sampling-based Markov chain Monte Carlo to conduct Bayesian fitting and inference for generalized additive mixed models (GAMM). Generalized linear mixed models and generalized additive models are also handled as special cases of GAMM.
Depends: R(>= 2.13), KernSmooth, lattice, mgcv
License: GPL (>= 2)
Packaged: 2015-01-21 06:46:35 UTC; tungp
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-01-21 08:24:52

More information about gammSlice at CRAN
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New package conformal with initial version 0.1
Package: conformal
Type: Package
Title: Conformal Prediction for Regression and Classification
Version: 0.1
Date: 04/10/2014
Author: Isidro Cortes
Maintainer: Isidro Cortes
Depends: R (>= 2.12.0), caret, ggplot2, grid, randomForest, e1071, methods
Suggests: kernlab
Description: Implementation of conformal prediction using caret models for classification and regression
License: GPL
LazyLoad: yes
Packaged: 2015-01-20 23:49:25 UTC; icortes
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-21 07:19:33

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Package bigGP updated to version 0.1-5 with previous version 0.1-4 dated 2014-12-06

Title: Distributed Gaussian Process Calculations
Description: Distributes Gaussian process calculations across nodes in a distributed memory setting, using Rmpi. The bigGP class provides high-level methods for maximum likelihood with normal data, prediction, calculation of uncertainty (i.e., posterior covariance calculations), and simulation of realizations. In addition, bigGP provides an API for basic matrix calculations with distributed covariance matrices, including Cholesky decomposition, back/forwardsolve, crossproduct, and matrix multiplication.
Author: Christopher Paciorek [aut, cre], Benjamin Lipshitz [aut], Prabhat [ctb], Cari Kaufman [ctb], Tina Zhuo [ctb], Rollin Thomas [ctb]
Maintainer: Christopher Paciorek

Diff between bigGP versions 0.1-4 dated 2014-12-06 and 0.1-5 dated 2015-01-21

 DESCRIPTION               |    8 ++++----
 MD5                       |   12 ++++++------
 NEWS                      |    4 ++++
 data/SN2011fe.rda         |binary
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 man/bigGP.Rd              |    3 +--
 man/krigeProblem-class.Rd |    7 +++----
 7 files changed, 41 insertions(+), 32 deletions(-)

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New package ArfimaMLM with initial version 1.3
Package: ArfimaMLM
Type: Package
Title: Arfima-MLM Estimation For Repeated Cross-Sectional Data
Version: 1.3
Date: 2015-01-20
Authors@R: c(person("Patrick", "Kraft", role = c("aut", "cre"), email = "patrick.kraft@stonybrook.edu"), person("Christopher", "Weber", role = "ctb"))
Description: Functions to facilitate the estimation of Arfima-MLM models for repeated cross-sectional data and pooled cross-sectional time-series data (see Lebo and Weber 2015). The estimation procedure uses double filtering with Arfima methods to account for autocorrelation in repeated cross-sectional data followed by multilevel modeling (MLM) to estimate aggregate as well as individual-level parameters simultaneously.
Depends: R (>= 3.0.0), lme4, fractal
Imports: fracdiff
License: GPL (>= 2)
URL: https://github.com/pwkraft/ArfimaMLM
Packaged: 2015-01-20 23:53:31 UTC; patrick
Author: Patrick Kraft [aut, cre], Christopher Weber [ctb]
Maintainer: Patrick Kraft
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-01-21 07:09:03

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Tue, 20 Jan 2015

Package plotrix updated to version 3.5-11 with previous version 3.5-10 dated 2014-11-09

Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling functions.
Author: Jim Lemon, Ben Bolker, Sander Oom, Eduardo Klein, Barry Rowlingson, Hadley Wickham, Anupam Tyagi, Olivier Eterradossi, Gabor Grothendieck, Michael Toews, John Kane, Rolf Turner, Carl Witthoft, Julian Stander, Thomas Petzoldt, Remko Duursma, Elisa Biancotto, Ofir Levy, Christophe Dutang, Peter Solymos, Robby Engelmann, Michael Hecker, Felix Steinbeck, Hans Borchers, Henrik Singmann, Ted Toal, Derek Ogle
Maintainer: Jim Lemon

Diff between plotrix versions 3.5-10 dated 2014-11-09 and 3.5-11 dated 2015-01-20

 DESCRIPTION |   10 +++++-----
 MD5         |    4 ++--
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 3 files changed, 11 insertions(+), 7 deletions(-)

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Package nbpMatching updated to version 1.4.4 with previous version 1.4.0 dated 2013-04-17

Title: Functions for Optimal Non-bipartite Matching
Description: This package provides functions for performing nonbipartite matching and matched randomization. A "bipartite" matching utilizes two separate groups, e.g. smokers being matched to nonsmokers or cases being matched to controls. A "nonbipartite" matching creates mates from one big group, e.g. 100 hospitals being randomized for a two-arm cluster randomized trial or 5000 children who have been exposed to various levels of secondhand smoke and are being paired to form a greater exposure vs. lesser exposure comparison. At the core of a nonbipartite matching is a NxN distance matrix for N potential mates. The distance between two units expresses a measure of similarity or quality as mates (the lower the better). The 'gendistance()' and 'distancematrix()' functions assist in creating this. The 'nonbimatch()' function creates the matching that minimizes the total sum of distances between mates; hence, it is referred to as an "optimal" matching. The 'assign.grp()' function aids in performing a matched randomization. Note the package can also perform bipartite matching using the prevent option in 'gendistance()'.
Author: Cole Beck [aut, cre], Bo Lu [aut], Robert Greevy [aut]
Maintainer: Cole Beck

Diff between nbpMatching versions 1.4.0 dated 2013-04-17 and 1.4.4 dated 2015-01-20

 DESCRIPTION                 |   39 +
 MD5                         |   55 +-
 NAMESPACE                   |   24 -
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 R/distancematrix.R          |   69 ++-
 R/fill.missing.R            |   36 +
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Package loa updated to version 0.2.22 with previous version 0.2.21 dated 2015-01-13

Title: Various Options and Add-ins for Lattice
Description: This package, Lattice Options and Add-ins (or loa), contains various plots and functions that make use of the lattice/trellis plotting framework. The plots (which include loaPlot, GoogleMap and trianglePlot) use panelPal, a function that extends lattice and hexbin package methods to automate plot subscripting and panel-to-panel and panel-to key synchronization/management. See ?loa for further details.
Author: Karl Ropkins
Maintainer: Karl Ropkins

Diff between loa versions 0.2.21 dated 2015-01-13 and 0.2.22 dated 2015-01-20

 DESCRIPTION        |   14 +++++++-------
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 4 files changed, 21 insertions(+), 19 deletions(-)

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Package GeneNet updated to version 1.2.12 with previous version 1.2.11 dated 2014-11-16

Title: Modeling and Inferring Gene Networks
Description: GeneNet is a package for analyzing gene expression (time series) data with focus on the inference of gene networks. In particular, GeneNet implements the methods of Schaefer and Strimmer (2005a,b,c) and Opgen-Rhein and Strimmer (2006, 2007) for learning large-scale gene association networks (including assignment of putative directions).
Author: Juliane Schaefer, Rainer Opgen-Rhein, and Korbinian Strimmer.
Maintainer: Korbinian Strimmer

Diff between GeneNet versions 1.2.11 dated 2014-11-16 and 1.2.12 dated 2015-01-20

 DESCRIPTION            |    8 ++++----
 MD5                    |    6 +++---
 NEWS                   |    6 ++++++
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 4 files changed, 14 insertions(+), 8 deletions(-)

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Package eventInterval updated to version 1.2 with previous version 1.0-1 dated 2014-01-17

Title: Sequential Event Interval Analysis
Description: Functions for analysis of rate changes in sequential events
Author: Jim Lemon ,
Maintainer: Jim Lemon

Diff between eventInterval versions 1.0-1 dated 2014-01-17 and 1.2 dated 2015-01-20

 DESCRIPTION                  |   14 +++++++-------
 MD5                          |   10 +++++-----
 NEWS                         |    4 ++++
 R/EIglm.R                    |   12 +++++-------
 man/EIglm.Rd                 |   23 ++++++++++++++++++++---
 man/eventInterval-package.Rd |    7 ++++---
 6 files changed, 45 insertions(+), 25 deletions(-)

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Package D2C updated to version 1.2.1 with previous version 1.1 dated 2014-12-16

Title: Predicting Causal Direction from Dependency Features
Description: The relationship between statistical dependency and causality lies at the heart of all statistical approaches to causal inference. The D2C package implements a supervised machine learning approach to infer the existence of a directed causal link between two variables in multivariate settings with n>2 variables. The approach relies on the asymmetry of some conditional (in)dependence relations between the members of the Markov blankets of two variables causally connected. The D2C algorithm predicts the existence of a direct causal link between two variables in a multivariate setting by (i) creating a set of of features of the relationship based on asymmetric descriptors of the multivariate dependency and (ii) using a classifier to learn a mapping between the features and the presence of a causal link
Author: Gianluca Bontempi, Catharina Olsen, Maxime Flauder
Maintainer: Catharina Olsen

Diff between D2C versions 1.1 dated 2014-12-16 and 1.2.1 dated 2015-01-20

 D2C-1.1/D2C/CHANGES                                   |only
 D2C-1.1/D2C/R/D2c.Data.R                              |only
 D2C-1.1/D2C/R/D2c.network.R                           |only
 D2C-1.1/D2C/man/D2C.descriptor-class.Rd               |only
 D2C-1.2.1/D2C/DESCRIPTION                             |   12 +--
 D2C-1.2.1/D2C/MD5                                     |   39 ++++++----
 D2C-1.2.1/D2C/NAMESPACE                               |   24 +++++-
 D2C-1.2.1/D2C/R/classes.R                             |only
 D2C-1.2.1/D2C/R/d2c.R                                 |   45 ++---------
 D2C-1.2.1/D2C/R/util.R                                |   68 +++++++++++++++++-
 D2C-1.2.1/D2C/build                                   |only
 D2C-1.2.1/D2C/data/alarm.RData                        |only
 D2C-1.2.1/D2C/data/datalist                           |    2 
 D2C-1.2.1/D2C/inst                                    |only
 D2C-1.2.1/D2C/man/BER.Rd                              |only
 D2C-1.2.1/D2C/man/alarm.Rd                            |only
 D2C-1.2.1/D2C/man/dataset.Rd                          |only
 D2C-1.2.1/D2C/man/example.Rd                          |    6 +
 D2C-1.2.1/D2C/man/initialize-D2C-method.Rd            |    5 +
 D2C-1.2.1/D2C/man/initialize-D2C.descriptor-method.Rd |    1 
 D2C-1.2.1/D2C/man/initialize-DAG.network-method.Rd    |    2 
 D2C-1.2.1/D2C/man/initialize-simulatedDAG-method.Rd   |   10 ++
 D2C-1.2.1/D2C/man/predict-D2C-method.Rd               |    1 
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 D2C-1.2.1/D2C/man/update-simulatedDAG-method.Rd       |only
 D2C-1.2.1/D2C/man/updateD2C-D2C-method.Rd             |only
 D2C-1.2.1/D2C/vignettes                               |only
 27 files changed, 148 insertions(+), 67 deletions(-)

More information about D2C at CRAN
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