Sat, 06 Feb 2016

Package densityClust updated to version 0.2.1 with previous version 0.1-1 dated 2014-07-21

Title: Clustering by Fast Search and Find of Density Peaks
Description: An implementation of the clustering algorithm described by Alex Rodriguez and Alessandro Laio (Science, 2014 vol. 344), along with tools to inspect and visualize the results.
Author: Thomas Lin Pedersen [aut, cre], Sean Hughes [aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>

Diff between densityClust versions 0.1-1 dated 2014-07-21 and 0.2.1 dated 2016-02-06

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Package visreg updated to version 2.2-2 with previous version 2.2-1 dated 2016-01-05

Title: Visualization of Regression Models
Description: Provides a convenient interface for constructing plots to visualize the fit of regression models arising from a wide variety of models in R (lm, glm, coxph, rlm, gam, locfit, randomForest, etc.)
Author: Patrick Breheny, Woodrow Burchett
Maintainer: Patrick Breheny <patrick-breheny@uiowa.edu>

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Package tikzDevice updated to version 0.10 with previous version 0.9 dated 2015-11-17

Title: R Graphics Output in LaTeX Format
Description: Provides a graphics output device for R that records plots in a LaTeX-friendly format. The device transforms plotting commands issued by R functions into LaTeX code blocks. When included in a LaTeX document, these blocks are interpreted with the help of 'TikZ'---a graphics package for TeX and friends written by Till Tantau. Using the 'tikzDevice', the text of R plots can contain LaTeX commands such as mathematical formula. The device also allows arbitrary LaTeX code to be inserted into the output stream.
Author: Charlie Sharpsteen [aut], Cameron Bracken [aut], Kirill Müller [ctb, cre], Yihui Xie [ctb]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>

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Package SigTree updated to version 1.10.3 with previous version 1.10.2 dated 2015-07-18

Title: Identify and Visualize Significantly Responsive Branches in a Phylogenetic Tree
Description: Takes a phylogenetic tree (of class phylo) and a data frame (or matrix) of corresponding tip labels and p-values, and determines the significance of the branches (families of p-values) and plots the tree with colored branches (corresponding to families) according to their levels of significance. Also produces a CSV file with the p-values of all of the branches as well as which tips belong to which branches. Finally, it exports a file that can be opened in FigTree that produces a colored plot (colored branches according to their significance of corresponding groups of p-values) with p-value annotations.
Author: John R. Stevens and Todd R. Jones
Maintainer: John R. Stevens <john.r.stevens@usu.edu>

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Package RGA updated to version 0.4.1 with previous version 0.4.0 dated 2016-02-02

Title: A Google Analytics API Client
Description: Provides functions for accessing and retrieving data from the Google Analytics APIs (https://developers.google.com/analytics/). Supports OAuth 2.0 authorization. Package provides access to the Management, Core Reporting, Multi-Channel Funnels Reporting, Real Time Reporting and Metadata APIs. Access to all the Google Analytics accounts which the user has access to. Auto-pagination to return more than 10,000 rows of the results by combining multiple data requests. Also package provides shiny app to explore the core reporting API dimensions and metrics.
Author: Artem Klevtsov [aut, cre], Philipp Upravitelev [ctb], Olga Shramko [ctb]
Maintainer: Artem Klevtsov <a.a.klevtsov@gmail.com>

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Package oai updated to version 0.2.0 with previous version 0.1.0 dated 2015-09-11

Title: General Purpose 'Oai-PMH' Services Client
Description: A general purpose client to work with any 'OAI-PMH' (Open Archives Initiative Protocol for 'Metadata' Harvesting) service. The 'OAI-PMH' protocol is described at http://www.openarchives.org/OAI/openarchivesprotocol.html. Functions are provided to work with the 'OAI-PMH' verbs: 'GetRecord', 'Identify', 'ListIdentifiers', 'ListMetadataFormats', 'ListRecords', and 'ListSets'.
Author: Scott Chamberlain [aut, cre], Michal Bojanowski [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>

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Package MeanShift updated to version 1.0-2 with previous version 1.0-1 dated 2016-02-02

Title: Clustering via the Mean Shift Algorithm
Description: Clustering using the mean shift algorithm (multi-core processing is supported) or its blurring version.
Author: Mattia Ciollaro and Daren Wang
Maintainer: Mattia Ciollaro <mattiaciollaro@gmail.com>

Diff between MeanShift versions 1.0-1 dated 2016-02-02 and 1.0-2 dated 2016-02-06

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Package diveMove updated to version 1.4.1 with previous version 1.4.0 dated 2015-08-23

Title: Dive Analysis and Calibration
Description: Utilities to represent, visualize, filter, analyse, and summarize time-depth recorder (TDR) data. Miscellaneous functions for handling location data are also provided.
Author: Sebastian P. Luque <spluque@gmail.com>
Maintainer: Sebastian P. Luque <spluque@gmail.com>

Diff between diveMove versions 1.4.0 dated 2015-08-23 and 1.4.1 dated 2016-02-06

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Package DJL updated to version 2.0 with previous version 1.9 dated 2016-01-17

Title: Distance Measure Based Judgment and Learning
Description: Implements various decision support tools related to the new product development. Subroutines include combinatorial search (all possible subset regression), productivity evaluation using distance measures: DDF (directional distance function), DEA (data envelopment analysis), SBM (slack-based measure), and SF (shortage function), benchmarking, risk analysis, technology adoption model, new product target setting, etc.
Author: Dong-Joon Lim, PhD
Maintainer: Dong-Joon Lim <tgno3.com@gmail.com>

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Package coala updated to version 0.4.0 with previous version 0.3.0 dated 2015-12-21

Title: A Framework for Coalescent Simulation
Description: Coalescent simulators can rapidly simulate biological sequences evolving according to a given model of evolution. You can use this package to specify such models, to conduct the simulations and to calculate additional statistics from the results. It relies on existing simulators for doing the simulation, and currently supports the programs 'ms', 'msms' and 'scrm'. It also supports finite-sites mutation models by combining the simulators with the program 'seq-gen'.
Author: Paul Staab [aut, cre], Dirk Metzler [aut, ths]
Maintainer: Paul Staab <develop@paulstaab.de>

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Package cdfquantreg updated to version 1.0.2 with previous version 1.0.1 dated 2016-01-24

Title: Quantile Regression for Random Variables on the Unit Interval
Description: Employs a two-parameter family of distributions for modelling random variables on the (0, 1) interval by applying the cumulative distribution function (cdf) of one parent distribution to the quantile function of another.
Author: Yiyun Shou [aut, cre], Michael Smithson [aut]
Maintainer: Yiyun Shou <yiyun.shou@anu.edu.au>

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Fri, 05 Feb 2016

Package tidyr updated to version 0.4.1 with previous version 0.4.0 dated 2016-01-18

Title: Easily Tidy Data with `spread()` and `gather()` Functions
Description: An evolution of 'reshape2'. It's designed specifically for data tidying (not general reshaping or aggregating) and works well with 'dplyr' data pipelines.
Author: Hadley Wickham [aut, cre], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package sp updated to version 1.2-2 with previous version 1.2-1 dated 2015-10-18

Title: Classes and Methods for Spatial Data
Description: Classes and methods for spatial data; the classes document where the spatial location information resides, for 2D or 3D data. Utility functions are provided, e.g. for plotting data as maps, spatial selection, as well as methods for retrieving coordinates, for subsetting, print, summary, etc.
Author: Edzer Pebesma [aut, cre], Roger Bivand [aut], Barry Rowlingson [ctb], Virgilio Gomez-Rubio [ctb], Robert Hijmans [ctb], Michael Sumner [ctb], Don MacQueen [ctb], Jim Lemon [ctb], Josh O'Brien [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>

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Package rdian updated to version 0.1.1 with previous version 0.1.0 dated 2016-01-01

Title: Client Library for The Guardian
Description: A client library for 'The Guardian' (https://www.guardian.com/) and their API, this package allows users to search for Guardian articles and retrieve both the content and metadata.
Author: Oliver Keyes
Maintainer: Oliver Keyes <ironholds@gmail.com>

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Package plotROC updated to version 2.0.1 with previous version 2.0.0 dated 2015-12-22

Title: Generate Useful ROC Curve Charts for Print and Interactive Use
Description: Most ROC curve plots obscure the cutoff values and inhibit interpretation and comparison of multiple curves. This attempts to address those shortcomings by providing plotting and interactive tools. Functions are provided to generate an interactive ROC curve plot for web use, and print versions. A Shiny application implementing the functions is also included.
Author: Michael C Sachs
Maintainer: Michael C Sachs <sachsmc@gmail.com>

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Package nadiv updated to version 2.14.2 with previous version 2.14.1 dated 2015-07-22

Title: (Non)Additive Genetic Relatedness Matrices
Description: Constructs (non)additive genetic relationship matrices, and their inverses, from a pedigree to be used in linear mixed effect models (A.K.A. the 'animal model'). Also includes other functions to facilitate the use of animal models. Some functions have been created to be used in conjunction with the R package 'asreml' for the 'ASReml' software, which can be obtained upon purchase from 'VSN' international (http://www.vsni.co.uk/software/asreml).
Author: Matthew Wolak [cre, aut]
Maintainer: Matthew Wolak <matthewwolak@gmail.com>

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Package jomo updated to version 2.1-1 with previous version 2.1-0 dated 2016-01-29

Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package pan, jomo is a package for multilevel joint modelling multiple imputation. Novel aspects of jomo are the possibility of handling binary and categorical data through latent normal variables and the option to use cluster-specific covariance matrices.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <matteo.quartagno@lshtm.ac.uk>

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Package FMP updated to version 1.3 with previous version 1.1 dated 2016-01-28

Title: Filtered Monotonic Polynomial IRT Models
Description: Estimates Filtered Monotonic Polynomial IRT Models as described by Liang and Browne (2015) <DOI:10.3102/1076998614556816>.
Author: Niels G. Waller <nwaller@umn.edu>
Maintainer: Niels G. Waller <nwaller@umn.edu>

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Package xtable updated to version 1.8-2 with previous version 1.8-0 dated 2015-11-02

Title: Export Tables to LaTeX or HTML
Description: Coerce data to LaTeX and HTML tables.
Author: David B. Dahl <dahl@stat.byu.edu>
Maintainer: David Scott <d.scott@auckland.ac.nz>

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Package WikipediaR updated to version 1.1 with previous version 1.0 dated 2015-04-19

Title: R-Based Wikipedia Client
Description: Provides an interface to the Wikipedia web application programming interface (API), using internet connexion.Three functions provide details for a specific Wikipedia page : all links that are present, all pages that link to, all the contributions (revisions for main pages, and discussions for talk pages). Two functions provide details for a specific user : all contributions, and general information (as name, gender, rights or groups). It provides additional information compared to others packages, as WikipediR. It does not need login. The multiplex network that can be constructed from the results of the functions of WikipediaR can be modeled as Stochastic Block Model as in Barbillon P., Donnet, S., Lazega E., and Bar-Hen A. : Stochastic Block Models for Multiplex networks: an application to networks of researchers, ArXiv 1501.06444, http://arxiv.org/abs/1501.06444.
Author: Avner Bar-Hen [aut, cre], Louise Baschet [ctb], Francois-Xavier Jollois [ctb], Jeremie Riou [ctb]
Maintainer: Avner Bar-Hen <Avner.Bar-Hen@mi.parisdescartes.fr>

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Package Surrogate updated to version 0.1-67 with previous version 0.1-66 dated 2016-01-22

Title: Evaluation of Surrogate Endpoints in Clinical Trials
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a biomarker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's 7th Framework Programme for research, technological development and demonstration under Grant Agreement no 602552.
Author: Wim Van der Elst, Paul Meyvisch, Ariel Alonso & Geert Molenberghs
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>

Diff between Surrogate versions 0.1-66 dated 2016-01-22 and 0.1-67 dated 2016-02-05

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Package TEQR updated to version 6.0-0 with previous version 5.0-0 dated 2014-07-19

Title: Target Equivalence Range Design
Description: The TEQR package contains software to calculate the operating characteristics for the TEQR and the ACT designs.The TEQR (toxicity equivalence range) design is a toxicity based cumulative cohort design with added safety rules. The ACT (Activity constrained for toxicity) design is also a cumulative cohort design with additional safety rules. The unique feature of this design is that dose is escalated based on lack of activity rather than on lack of toxicity and is de-escalated only if an unacceptable level of toxicity is experienced.
Author: M. Suzette Blanchard
Maintainer: M. Suzette Blanchard <sblanchard@coh.org>

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Package SHELF updated to version 1.1.0 with previous version 1.0.1 dated 2015-07-07

Title: Tools to Support the Sheffield Elicitation Framework (SHELF)
Description: Implements various methods for eliciting a probability distribution for a single parameter from an expert or a group of experts. The expert provides a small number of probability or quantile judgements, corresponding to points on his or her cumulative distribution function. A range of parametric distributions can then be fitted and displayed, with feedback provided in the form of additional quantiles. A graphical interface for the roulette elicitation method is also provided. For multiple experts, a weighted linear pool can be calculated. Also includes functions for eliciting beliefs about population distributions.
Author: Jeremy Oakley
Maintainer: Jeremy Oakley <j.oakley@sheffield.ac.uk>

Diff between SHELF versions 1.0.1 dated 2015-07-07 and 1.1.0 dated 2016-02-05

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Package rcicr updated to version 0.3.2.1 with previous version 0.3.2 dated 2015-07-20

Title: Reverse-Correlation Image-Classification Toolbox
Description: Functions to generate stimuli and analyze data of reverse correlation image classification experiments (psychophysical tasks aimed at visualizing cognitive mental representations of faces).
Author: Ron Dotsch <rdotsch@gmail.com>
Maintainer: Ron Dotsch <rdotsch@gmail.com>

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Package PVAClone updated to version 0.1-5 with previous version 0.1-4 dated 2016-01-14

Title: Population Viability Analysis with Data Cloning
Description: Likelihood based population viability analysis in the presence of observation error and missing data. The package can be used to fit, compare, predict, and forecast various growth model types using data cloning.
Author: Khurram Nadeem, Peter Solymos
Maintainer: Peter Solymos <solymos@ualberta.ca>

Diff between PVAClone versions 0.1-4 dated 2016-01-14 and 0.1-5 dated 2016-02-05

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Package partykit updated to version 1.0-5 with previous version 1.0-4 dated 2015-09-29

Title: A Toolkit for Recursive Partytioning
Description: A toolkit with infrastructure for representing, summarizing, and visualizing tree-structured regression and classification models. This unified infrastructure can be used for reading/coercing tree models from different sources (rpart, RWeka, PMML) yielding objects that share functionality for print/plot/predict methods. Furthermore, new and improved reimplementations of conditional inference trees (ctree) and model-based recursive partitioning (mob) from the party package are provided based on the new infrastructure.
Author: Torsten Hothorn [aut, cre], Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

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Package LambertW updated to version 0.6.2 with previous version 0.6.0 dated 2015-09-08

Title: Probabilistic Models to Analyze and Gaussianize Heavy-Tailed, Skewed Data
Description: Lambert W x F distributions are a generalized framework to analyze skewed, heavy-tailed data. It is based on an input/output system, where the output random variable (RV) Y is a non-linearly transformed version of an input RV X ~ F with similar properties as X, but slightly skewed (heavy-tailed). The transformed RV Y has a Lambert W x F distribution. This package contains functions to model and analyze skewed, heavy-tailed data the Lambert Way: simulate random samples, estimate parameters, compute quantiles, and plot/ print results nicely. Probably the most important function is 'Gaussianize', which works similarly to 'scale', but actually makes the data Gaussian. A do-it-yourself toolkit allows users to define their own Lambert W x 'MyFavoriteDistribution' and use it in their analysis right away.
Author: Georg M. Goerg <im@gmge.org>
Maintainer: Georg M. Goerg <im@gmge.org>

Diff between LambertW versions 0.6.0 dated 2015-09-08 and 0.6.2 dated 2016-02-05

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Package KFAS updated to version 1.2.1 with previous version 1.2.0 dated 2016-01-31

Title: Kalman Filter and Smoother for Exponential Family State Space Models
Description: Functions for Kalman filtering, smoothing, forecasting and simulation of multivariate exponential family state space models with exact diffuse initialization and sequential processing.
Author: Jouni Helske <jouni.helske@jyu.fi>
Maintainer: Jouni Helske <jouni.helske@jyu.fi>

Diff between KFAS versions 1.2.0 dated 2016-01-31 and 1.2.1 dated 2016-02-05

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Package jaatha updated to version 3.1.1 with previous version 3.1.0 dated 2016-01-27

Title: Simulation-Based Maximum Likelihood Parameter Estimation
Description: An estimation method that can use computer simulations to approximate maximum-likelihood estimates even when the likelihood function can not be evaluated directly. It can be applied whenever it is feasible to conduct many simulations, but works best when the data is approximately Poisson distributed. It was originally designed for demographic inference in evolutionary biology. It has optional support for conducting coalescent simulation using the 'coala' package.
Author: Paul Staab [aut, cre], Lisha Mathew [aut], Dirk Metzler [aut, ths]
Maintainer: Paul Staab <develop@paulstaab.de>

Diff between jaatha versions 3.1.0 dated 2016-01-27 and 3.1.1 dated 2016-02-05

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Package HydeNet updated to version 0.10.3 with previous version 0.10.0 dated 2015-10-11

Title: Hybrid Bayesian Networks Using R and JAGS
Description: Facilities for easy implementation of hybrid Bayesian networks using R. Bayesian networks are directed acyclic graphs representing joint probability distributions, where each node represents a random variable and each edge represents conditionality. The full joint distribution is therefore factorized as a product of conditional densities, where each node is assumed to be independent of its non-descendents given information on its parent nodes. Since exact, closed-form algorithms are computationally burdensome for inference within hybrid networks that contain a combination of continuous and discrete nodes, particle-based approximation techniques like Markov Chain Monte Carlo are popular. We provide a user-friendly interface to constructing these networks and running inference using the 'rjags' package. Econometric analyses (maximum expected utility under competing policies, value of information) involving decision and utility nodes are also supported.
Author: Jarrod E. Dalton <daltonj@ccf.org> and Benjamin Nutter <benjamin.nutter@gmail.com>
Maintainer: Benjamin Nutter <benjamin.nutter@gmail.com>

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Package ca updated to version 0.64 with previous version 0.58 dated 2014-12-31

Title: Simple, Multiple and Joint Correspondence Analysis
Description: Computation and visualization of simple, multiple and joint correspondence analysis.
Author: Michael Greenacre [aut], Oleg Nenadic [aut, cre], Michael Friendly [ctb]
Maintainer: Oleg Nenadic <onenadi@uni-goettingen.de>

Diff between ca versions 0.58 dated 2014-12-31 and 0.64 dated 2016-02-05

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Thu, 04 Feb 2016

Package treatSens updated to version 2.0.1 with previous version 2.0 dated 2015-07-14

Title: Sensitivity Analysis for Causal Inference
Description: Utilities to investigate sensitivity to unmeasured confounding in parametric models with either binary or continuous treatment.
Author: Nicole Bohme Carnegie [aut, cre], Masataka Harada [aut], Vincent Dorie [aut], Jennifer Hill [ctb]
Maintainer: Nicole Bohme Carnegie <carnegin@uwm.edu>

Diff between treatSens versions 2.0 dated 2015-07-14 and 2.0.1 dated 2016-02-04

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Package smcfcs updated to version 1.2.1 with previous version 1.2.0 dated 2016-01-30

Title: Multiple Imputation of Covariates by Substantive Model Compatible Fully Conditional Specification
Description: Implements multiple imputation of missing covariates by Substantive Model Compatible Fully Conditional Specification. This is a modification of the popular FCS/chained equations multiple imputation approach, and allows imputation of missing covariate values from models which are compatible with the user specified substantive model.
Author: Jonathan Bartlett [aut, cre]
Maintainer: Jonathan Bartlett <jwb133@googlemail.com>

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Package mpath updated to version 0.2-1 with previous version 0.1-20 dated 2015-11-22

Title: Regularized Linear Models
Description: Algorithms for fitting model-based penalized coefficient paths. Currently the models include penalized Poisson, negative binomial, zero-inflated Poisson and zero-inflated negative binomial regression models. The penalties include least absolute shrinkage and selection operator (LASSO), smoothly clipped absolute deviation (SCAD) and minimax concave penalty (MCP), and each possibly combining with L_2 penalty.
Author: Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian Ripley, Trevor Hastie, Rob Tibshirani, Balasubramanian Narasimhan, Gil Chu and Patrick Breheny
Maintainer: Zhu Wang <zwang@connecticutchildrens.org>

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Package ameco updated to version 0.2.2 with previous version 0.2 dated 2016-01-19

Title: European Commission Annual Macro-Economic (AMECO) Database
Description: Annual macro-economic database provided by the European Commission.
Author: Eric Persson [aut, cre]
Maintainer: Eric Persson <expersso5@gmail.com>

Diff between ameco versions 0.2 dated 2016-01-19 and 0.2.2 dated 2016-02-04

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Package withr updated to version 1.0.1 with previous version 1.0.0 dated 2015-09-22

Title: Run Code 'With' Temporarily Modified Global State
Description: A set of functions to run code 'with' safely and temporarily modified global state. Many of these functions were originally a part of the 'devtools' package, this provides a simple package with limited dependencies to provide access to these functions.
Author: Jim Hester [aut, cre], Kirill Müller [aut], Hadley Wickham [aut], Winston Chang [aut], RStudio [cph]
Maintainer: Jim Hester <james.f.hester@gmail.com>

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Package sweidnumbr updated to version 1.1.0 with previous version 1.0.0 dated 2015-12-23

Title: Handling of Swedish Identity Numbers
Description: Structural handling of identity numbers used in the Swedish administration such as personal identity numbers ('personnummer') and organizational identity numbers ('organisationsnummer').
Author: Mans Magnusson and Erik Bulow
Maintainer: Mans Magnusson <mons.magnusson@gmail.com>

Diff between sweidnumbr versions 1.0.0 dated 2015-12-23 and 1.1.0 dated 2016-02-04

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Package SEHmodel updated to version 0.0.11 with previous version 0.0.10 dated 2015-11-19

Title: Spatial Exposure-Hazard Model for Exposure and Impact Assessment on Exposed Individuals
Description: A model coupling polygon and point processes for assessing risk due to contaminant sources and their impact on exposed individuals.
Author: Emily Walker [aut], Jean-Francois Rey [aut, cre], Melen Leclerc [aut], Samuel Soubeyrand [ctb], Marc Bourotte [ctb]
Maintainer: Jean-Francois Rey <jean-francois.rey@paca.inra.fr>

Diff between SEHmodel versions 0.0.10 dated 2015-11-19 and 0.0.11 dated 2016-02-04

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Package lfda updated to version 1.1.1 with previous version 1.1.0 dated 2015-08-18

Title: Local Fisher Discriminant Analysis
Description: Functions for performing and visualizing Local Fisher Discriminant Analysis(LFDA), Kernel Fisher Discriminant Analysis(KLFDA), and Semi-supervised Local Fisher Discriminant Analysis(SELF).
Author: Yuan Tang <terrytangyuan@gmail.com> and Zachary Deane-Mayer with contributions from Nan Xiao.
Maintainer: Yuan Tang <terrytangyuan@gmail.com>

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Package IFP updated to version 0.2.1 with previous version 0.2.0 dated 2015-06-11

Title: Identifying Functional Polymorphisms
Description: A suite for identifying causal models using relative concordances and identifying causal polymorphisms in case-control genetic association data, especially with large controls re-sequenced data.
Author: Leeyoung Park
Maintainer: Leeyoung Park <lypark@yonsei.ac.kr>

Diff between IFP versions 0.2.0 dated 2015-06-11 and 0.2.1 dated 2016-02-04

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Package epandist updated to version 1.1.1 with previous version 1.1.0 dated 2016-02-02

Title: Statistical Functions for the Censored and Uncensored Epanechnikov Distribution
Description: Analyzing censored variables usually requires the use of optimization algorithms. This package provides an alternative algebraic approach to the task of determining the expected value of a random censored variable with a known censoring point. Likewise this approach allows for the determination of the censoring point if the expected value is known. These results are derived under the assumption that the variable follows an Epanechnikov kernel distribution with known mean and range prior to censoring. Statistical functions related to the uncensored Epanechnikov distribution are also provided by this package.
Author: Mathias Borritz Milfeldt [aut, cre]
Maintainer: Mathias Borritz Milfeldt <mathias@milfeldt.dk>

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Package SuperLearner updated to version 2.0-19 with previous version 2.0-15 dated 2014-07-21

Title: Super Learner Prediction
Description: Implements the super learner prediction method and contains a library of prediction algorithms to be used in the super learner.
Author: Eric Polley, Erin LeDell, Mark van der Laan
Maintainer: Eric Polley <polley.eric@mayo.edu>

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Package bioinactivation updated to version 1.1.1 with previous version 1.0.1 dated 2015-12-11

Title: Simulation of Dynamic Microbial Inactivation
Description: Prediction and adjustment to experimental data of microbial inactivation. Several models available in the literature are implemented.
Author: Alberto Garre [aut, cre], Pablo S. Fernandez [aut], Jose A. Egea [aut]
Maintainer: Alberto Garre <garre.alberto@gmail.com>

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Package abbyyR updated to version 0.3 with previous version 0.2.3 dated 2015-12-06

Title: Access to Abbyy Optical Character Recognition (OCR) API
Description: Get text from images of text using Abbyy Cloud Optical Character Recognition (OCR) API. Easily OCR images, barcodes, forms, documents with machine readable zones, e.g. passports. Get the results in a variety of formats including plain text and XML. To learn more about the Abbyy OCR API, see http:// ocrsdk.com/.
Author: Gaurav Sood [aut, cre]
Maintainer: Gaurav Sood <gsood07@gmail.com>

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Package tumgr updated to version 0.0.4 with previous version 0.0.3 dated 2015-08-06

Title: Tumor Growth Rate Analysis
Description: A tool to obtain tumor growth rates from clinical trial patient data. Output includes individual and summary data for tumor growth rate estimates as well as optional plots of the observed and predicted tumor quantity over time.
Author: Julia Wilkerson
Maintainer: Julia Wilkerson <jmwilkers@outlook.com>

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Package PSCBS updated to version 0.61.0 with previous version 0.60.0 dated 2015-11-18

Title: Analysis of Parent-Specific DNA Copy Numbers
Description: Segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumor-only analyses are supported.
Author: Henrik Bengtsson [aut, cre, cph], Pierre Neuvial [aut], Venkatraman E. Seshan [aut], Adam B. Olshen [aut], Paul T. Spellman [aut], Richard A. Olshen [aut]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

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Package Lmoments updated to version 1.2-2 with previous version 1.1-6 dated 2014-11-29

Title: L-Moments and Quantile Mixtures
Description: Contains functions to estimate L-moments and trimmed L-moments from the data. Also contains functions to estimate the parameters of the normal polynomial quantile mixture and the Cauchy polynomial quantile mixture from L-moments and trimmed L-moments.
Author: Juha Karvanen
Maintainer: Juha Karvanen <juha.karvanen@iki.fi>

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Package kantorovich updated to version 1.1.0 with previous version 1.0.0 dated 2016-01-15

Title: Kantorovich Distance Between Probability Measures
Description: Computes the Kantorovich distance between two probability measures on a finite set.
Author: Stéphane Laurent
Maintainer: Stéphane Laurent <laurent_step@yahoo.fr>

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Package equateIRT updated to version 1.2-3 with previous version 1.2-2 dated 2015-12-18

Title: Direct, Chain and Average Equating Coefficients with Standard Errors Using IRT Methods
Description: Computation of direct, chain and average (bisector) equating coefficients with standard errors using Item Response Theory (IRT) methods for dichotomous items.
Author: Michela Battauz
Maintainer: Michela Battauz <michela.battauz@uniud.it>

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Package eemR updated to version 0.1.2 with previous version 0.1.1 dated 2015-11-24

Title: Tools for Pre-Processing Emission-Excitation-Matrix (EEM) Fluorescence Data
Description: Provides various tools to calculate EEM fluorescence metrics and preprocess EEM for PARAFAC analysis.
Author: Philippe Massicotte [aut, cre]
Maintainer: Philippe Massicotte <pm@bios.au.dk>

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Package ABHgenotypeR updated to version 1.0.1 with previous version 1.0.0 dated 2016-01-21

Title: Easy Visualization of ABH Genotypes
Description: Easy to use functions to visualize marker data from biparental populations. Useful for both analyzing and presenting genotypes in the ABH format.
Author: Stefan Reuscher [aut, cre], Tomoyuki Furuta [aut]
Maintainer: Stefan Reuscher <reuscher.stefan@gmail.com>

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Wed, 03 Feb 2016

Package Tmisc updated to version 0.1.5 with previous version 0.1.4 dated 2016-01-25

Title: Turner Miscellaneous
Description: Miscellaneous data and utility functions for manipulating data and your R environment.
Author: Stephen Turner <vustephen@gmail.com>
Maintainer: Stephen Turner <vustephen@gmail.com>

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Package synthpop updated to version 1.2-0 with previous version 1.1-1 dated 2015-07-08

Title: Generating Synthetic Versions of Sensitive Microdata for Statistical Disclosure Control
Description: A tool for producing synthetic versions of microdata containing confidential information so that they are safe to be released to users for exploratory analysis. The key objective of generating synthetic data is to replace sensitive original values with synthetic ones causing minimal distortion of the statistical information contained in the data set. Variables, which can be categorical or continuous, are synthesised one-by-one using sequential modelling. Replacements are generated by drawing from conditional distributions fitted to the original data using parametric or classification and regression trees models. Data are synthesised via the function syn() which can be largely automated, if default settings are used, or with methods defined by the user. Optional parameters can be used to influence the disclosure risk and the analytical quality of the synthesised data.
Author: Beata Nowok, Gillian M Raab, Joshua Snoke and Chris Dibben
Maintainer: Beata Nowok <beata.nowok@gmail.com>

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Package R.matlab updated to version 3.4.0 with previous version 3.3.0 dated 2015-09-22

Title: Read and Write MAT Files and Call MATLAB from Within R
Description: Methods readMat() and writeMat() for reading and writing MAT files. For user with MATLAB v6 or newer installed (either locally or on a remote host), the package also provides methods for controlling MATLAB (trademark) via R and sending and retrieving data between R and MATLAB.
Author: Henrik Bengtsson [aut, cre, cph], Andy Jacobson [ctb] (Internal MAT v4 reader), Jason Riedy [ctb] (Support for reading compressed files (via 'Rcompression'), sparse matrices and UTF-encoded strings.)
Maintainer: Henrik Bengtsson <henrikb@braju.com>

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Package ParamHelpers updated to version 1.7 with previous version 1.6 dated 2015-11-18

Title: Helpers for Parameters in Black-Box Optimization, Tuning and Machine Learning
Description: Functions for parameter descriptions and operations in black-box optimization, tuning and machine learning. Parameters can be described (type, constraints, defaults, etc.), combined to parameter sets and can in general be programmed on. A useful OptPath object (archive) to log function evaluations is also provided.
Author: Bernd Bischl [aut, cre], Michel Lang [aut], Jakob Bossek [aut], Daniel Horn [aut], Karin Schork [aut]
Maintainer: Bernd Bischl <bernd_bischl@gmx.net>

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Package MLCIRTwithin updated to version 1.1 with previous version 1.0 dated 2015-06-03

Title: Latent Class Item Response Theory (LC-IRT) Models under Within-Item Multidimensionality
Description: Framework for the Item Response Theory analysis of dichotomous and ordinal polytomous outcomes under the assumption of within-item multidimensionality and discreteness of the latent traits. The fitting algorithms allow for missing responses and for different item parametrizations and are based on the Expectation-Maximization paradigm. Individual covariates affecting the class weights may be included in the new version.
Author: Francesco Bartolucci, Silvia Bacci - University of Perugia (IT)
Maintainer: Francesco Bartolucci <bart@stat.unipg.it>

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Package MDMR updated to version 0.3.0 with previous version 0.2.1 dated 2016-01-27

Title: Multivariate Distance Matrix Regression
Description: Allows a user to conduct multivariate distance matrix regression using analytic p-values and compute measures of effect size.
Author: Daniel B. McArtor (dmcartor@nd.edu) [aut, cre]
Maintainer: Daniel B. McArtor <dmcartor@nd.edu>

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Package lqmm updated to version 1.5.3 with previous version 1.5.2 dated 2015-09-23

Title: Linear Quantile Mixed Models
Description: This is a collection of functions to fit quantile regression models for independent and hierarchical data.
Author: Marco Geraci
Maintainer: Marco Geraci <geraci@mailbox.sc.edu>

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Package HH updated to version 3.1-25 with previous version 3.1-24 dated 2015-12-15

Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.
Author: Richard M. Heiberger
Maintainer: Richard M. Heiberger <rmh@temple.edu>

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Package effects updated to version 3.0-6 with previous version 3.0-5 dated 2015-12-14

Title: Effect Displays for Linear, Generalized Linear, and Other Models
Description: Graphical and tabular effect displays, e.g., of interactions, for various statistical models with linear predictors.
Author: John Fox [aut, cre], Sanford Weisberg [aut], Michael Friendly [aut], Jangman Hong [aut], Robert Andersen [ctb], David Firth [ctb], Steve Taylor [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>

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Package CARBayes updated to version 4.4 with previous version 4.3 dated 2015-09-16

Title: Spatial Generalised Linear Mixed Models for Areal Unit Data
Description: Implements a class of spatial generalised linear mixed models for areal unit data, with inference in a Bayesian setting using Markov chain Monte Carlo (McMC) simulation. The response variable can be binomial, Gaussian or Poisson. The spatial autocorrelation is modelled by a set of random effects, which are assigned a conditional autoregressive (CAR) prior distribution. A number of different CAR priors are available for the random effects, and full details are given in the vignette accompanying this package. The initial creation of this package was supported by the Economic and Social Research Council (ESRC) grant RES-000-22-4256, and on-going development was supported by the Engineering and Physical Science Research Council (EPSRC) grant EP/J017442/1.
Author: Duncan Lee
Maintainer: Duncan Lee <Duncan.Lee@glasgow.ac.uk>

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Package biotools updated to version 3.0 with previous version 2.2 dated 2015-08-08

Title: Tools for Biometry and Applied Statistics in Agricultural Science
Description: Tools designed to perform and work with cluster analysis (including Tocher's algorithm), discriminant analysis and path analysis (standard and under collinearity), as well as some useful miscellaneous tools for dealing with sample size and optimum plot size calculations. Mantel's permutation test can be found in this package. A new approach for calculating its power is implemented. biotools also contains the new tests for genetic covariance components.
Author: Anderson Rodrigo da Silva
Maintainer: Anderson Rodrigo da Silva <anderson.agro@hotmail.com>

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Package BAS updated to version 1.0.9 with previous version 1.0.8 dated 2015-11-12

Title: Bayesian Model Averaging using Bayesian Adaptive Sampling
Description: Package for Bayesian Model Averaging in linear models and generalized linear models using stochastic or deterministic sampling without replacement from posterior distributions. Prior distributions on coefficients are from Zellner's g-prior or mixtures of g-priors corresponding to the Zellner-Siow Cauchy Priors or the Liang et al hyper-g priors (JASA 2008) or mixtures of g-priors in GLMS of Li and Clyde 2015. Other model selection criteria include AIC and BIC. Sampling probabilities may be updated based on the sampled models using Sampling w/out Replacement or an MCMC algorithm samples models using the BAS tree structure as an efficient hash table. Allows uniform or beta-binomial prior distributions on models, and may force variables to always be included.
Author: Merlise Clyde [aut, cre, cph], Michael Littman [ctb], Quanli Wang [ctb], Joyee Ghosh [ctb], Yingbo Li [ctb]
Maintainer: Merlise Clyde <clyde@stat.duke.edu>

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Package rworldmap updated to version 1.3-6 with previous version 1.3-1 dated 2013-08-22

Title: Mapping Global Data
Description: Enables mapping of country level and gridded user datasets.
Author: Andy South
Maintainer: Andy South <southandy@gmail.com>

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Package rotl updated to version 0.5.0 with previous version 0.4.1 dated 2015-07-24

Title: Interface to the 'Open Tree of Life' API
Description: An interface to the 'Open Tree of Life' API to retrieve phylogenetic trees, information about studies used to assemble the synthetic tree, and utilities to match taxonomic names to 'Open Tree identifiers'. The 'Open Tree of Life' aims at assembling a comprehensive phylogenetic tree for all named species.
Author: Francois Michonneau [aut, cre], Joseph Brown [aut], David Winter [aut]
Maintainer: Francois Michonneau <francois.michonneau@gmail.com>

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Package RcmdrPlugin.EZR updated to version 1.32 with previous version 1.31 dated 2015-11-29

Title: R Commander Plug-in for the EZR (Easy R) Package
Description: EZR (Easy R) adds a variety of statistical functions, including survival analyses, ROC analyses, metaanalyses, sample size calculation, and so on, to the R commander. EZR enables point-and-click easy access to statistical functions, especially for medical statistics. EZR is platform-independent and runs on Windows, Mac OS X, and UNIX. Its complete manual is available only in Japanese (Chugai Igakusha, ISBN: 978-4-498-10901-8 or Nankodo, ISBN: 978-4-524-26158-1), but an report that introduced the investigation of EZR was published in Bone Marrow Transplantation (Nature Publishing Group) as an Open article. This report can be used as a simple manual. It can be freely downloaded from the journal website as shown below.
Author: Yoshinobu Kanda
Maintainer: Yoshinobu Kanda <ycanda-tky@umin.ac.jp>

Diff between RcmdrPlugin.EZR versions 1.31 dated 2015-11-29 and 1.32 dated 2016-02-03

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Package prettymapr updated to version 0.1.4 with previous version 0.1.3 dated 2015-12-07

Title: Scale Bar, North Arrow, and Pretty Margins in R
Description: Automates the process of creating a scale bar and north arrow in any package that uses base graphics to plot in R. Bounding box tools help find and manipulate extents. Finally, there is a function to automate the process of setting margins, plotting the map, scale bar, and north arrow, and resetting graphic parameters upon completion.
Author: Dewey Dunnington <dewey@fishandwhistle.net>
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>

Diff between prettymapr versions 0.1.3 dated 2015-12-07 and 0.1.4 dated 2016-02-03

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Package multgee updated to version 1.5.3 with previous version 1.5.2 dated 2015-09-08

Title: GEE Solver for Correlated Nominal or Ordinal Multinomial Responses
Description: GEE solver for correlated nominal or ordinal multinomial responses using a local odds ratios parameterization.
Author: Anestis Touloumis <A.Touloumis@brighton.ac.uk>
Maintainer: Anestis Touloumis <A.Touloumis@brighton.ac.uk>

Diff between multgee versions 1.5.2 dated 2015-09-08 and 1.5.3 dated 2016-02-03

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Package multcomp updated to version 1.4-3 with previous version 1.4-2 dated 2016-01-19

Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals for general linear hypotheses in parametric models, including linear, generalized linear, linear mixed effects, and survival models. The package includes demos reproducing analyzes presented in the book "Multiple Comparisons Using R" (Bretz, Hothorn, Westfall, 2010, CRC Press).
Author: Torsten Hothorn [aut, cre], Frank Bretz [aut], Peter Westfall [aut], Richard M. Heiberger [ctb], Andre Schuetzenmeister [ctb], Susan Scheibe [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

Diff between multcomp versions 1.4-2 dated 2016-01-19 and 1.4-3 dated 2016-02-03

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Package install.load updated to version 1.0.4 with previous version 1.0.3 dated 2015-05-11

Title: Check, Install and Load CRAN & USGS GRAN Packages
Description: Checks the local R library(ies) to see if the required package(s) is/are installed or not. If the package(s) is/are not installed, then the package(s) will be installed along with the required dependency(ies). This function pulls source or binary packages from the Revolution Analytics CRAN mirror and/or the USGS GRAN Repository. Lastly, the chosen package(s) is/are loaded.
Author: Original install_load function written by maloneypatr as a contribution to Stack Overflow on February 28 2014 (http://stackoverflow.com/questions/ 15155814/check-if-r-package-is-installed-then-load-library). Irucka Embry has revised the original function.
Maintainer: Irucka Embry <iembry@ecoccs.com>

Diff between install.load versions 1.0.3 dated 2015-05-11 and 1.0.4 dated 2016-02-03

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Package globe updated to version 1.1-2 with previous version 1.1-1 dated 2016-01-14

Title: Plot 2D and 3D Views of the Earth, Including Major Coastline
Description: Basic functions for plotting 2D and 3D views of a sphere, by default the Earth with its major coastline, and additional lines and points.
Author: Adrian Baddeley [aut, cre], Thomas Lawrence [aut]
Maintainer: Adrian Baddeley <adrian.baddeley@curtin.edu.au>

Diff between globe versions 1.1-1 dated 2016-01-14 and 1.1-2 dated 2016-02-03

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Package globals updated to version 0.6.1 with previous version 0.6.0 dated 2015-12-12

Title: Identify Global Objects in R Expressions
Description: Identifies global ("unknown") objects in R expressions by code inspection using various strategies, e.g. conservative or liberal. The objective of this package is to make it as simple as possible to identify global objects for the purpose of exporting them in distributed compute environments.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>

Diff between globals versions 0.6.0 dated 2015-12-12 and 0.6.1 dated 2016-02-03

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Tue, 02 Feb 2016

Package rsdmx updated to version 0.5-1 with previous version 0.5-0 dated 2015-10-06

Title: Tools for Reading SDMX Data and Metadata
Description: Set of classes and methods to read data and metadata documents exchanged through the Statistical Data and Metadata Exchange (SDMX) framework, currently focusing on the SDMX XML standard format (SDMX-ML).
Author: Emmanuel Blondel [aut, cre], Matthieu Stigler [ctb]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>

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Package resemble updated to version 1.2.1 with previous version 1.1.1 dated 2014-03-19

Title: Regression and Similarity Evaluation for Memory-Based Learning in Spectral Chemometrics
Description: Implementation of functions for spectral similarity/dissimilarity analysis and memory-based learning (MBL) for non-linear modeling in complex spectral datasets. MBL is also known as local modeling in the chemometrics literature.
Author: Leonardo Ramirez-Lopez [aut, cre], Antoine Stevens [aut]
Maintainer: Leonardo Ramirez-Lopez <ramirez.lopez.leo@gmail.com>

Diff between resemble versions 1.1.1 dated 2014-03-19 and 1.2.1 dated 2016-02-02

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Package preseqR updated to version 2.0.0 with previous version 1.2.1 dated 2015-06-04

Title: Predicting Species Accumulation Curves
Description: Estimating the number of species represented r or more times in a random sample.
Author: Chao Deng, Timothy Daley and Andrew D. Smith
Maintainer: Chao Deng <chaodeng@usc.edu>

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Package photobiology updated to version 0.9.5 with previous version 0.9.4 dated 2016-02-01

Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use in photobiology and radiation meteorology and climatology. Calculation of effective (weighted) and not-weighted irradiances/doses, fluence rates, transmittance, reflectance, absorptance, absorbance and diverse ratios and other derived quantities from spectral data. Local maxima and minima. Conversion between energy- and photon-based units. Wavelength interpolation. Astronomical calculations related solar angles and day length. Colours and vision.
Author: Pedro J. Aphalo [aut, cre]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>

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Package mvSLOUCH updated to version 1.2.2 with previous version 1.2.1 dated 2015-08-12

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 <bartoszekkj@gmail.com>
Maintainer: Krzysztof Bartoszek <bartoszekkj@gmail.com>

Diff between mvSLOUCH versions 1.2.1 dated 2015-08-12 and 1.2.2 dated 2016-02-02

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Package logspline updated to version 2.1.9 with previous version 2.1.8 dated 2015-07-02

Title: Logspline Density Estimation Routines
Description: Routines for the logspline density estimation. oldlogspline() uses the same algorithm as the logspline 1.0.x package - the Kooperberg and Stone (1992) <DOI: 10.2307/1390786> algorithm (with an improved interface). The recommended routine logspline() uses an algorithm from Stone et al (1997). <DOI: 10.1214/aos/1031594728>
Author: Charles Kooperberg <clk@fredhutch.org>
Maintainer: Charles Kooperberg <clk@fredhutch.org>

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Package httk updated to version 1.4 with previous version 1.3 dated 2015-10-14

Title: High-Throughput Toxicokinetics
Description: Functions and data tables for simulation and statistical analysis of chemical toxicokinetics ("TK") using data obtained from relatively high throughput, in vitro studies. Both physiologically-based ("PBTK") and empirical (e.g., one compartment) "TK" models can be parameterized for several hundred chemicals and multiple species. These models are solved efficiently, often using compiled (C-based) code. A Monte Carlo sampler is included for simulating biological variability and measurement limitations. Functions are also provided for exporting "PBTK" models to "SBML" and "JARNAC" for use with other simulation software. These functions and data provide a set of tools for in vitro-in vivo extrapolation ("IVIVE") of high throughput screening data (e.g., ToxCast) to real-world exposures via reverse dosimetry (also known as "RTK").
Author: John Wambaugh and Robert Pearce, Schmitt method implementation by Jimena Davis, dynamic model adapted from code by R. Woodrow Setzer, Rabbit parameters from Nisha Sipes
Maintainer: John Wambaugh <wambaugh.john@epa.gov>

Diff between httk versions 1.3 dated 2015-10-14 and 1.4 dated 2016-02-02

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Package episensr updated to version 0.7.2 with previous version 0.7.1 dated 2015-10-05

Title: Basic Sensitivity Analysis of Epidemiological Results
Description: Basic sensitivity analysis of the observed relative risks adjusting for unmeasured confounding and misclassification of the exposure/outcome, or both. It follows the bias analysis methods and examples from the book by Lash T.L, Fox M.P, and Fink A.K. "Applying Quantitative Bias Analysis to Epidemiologic Data", ('Springer', 2009).
Author: Denis Haine [aut, cre]
Maintainer: Denis Haine <denis.haine@gmail.com>

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Package epanetReader updated to version 0.3.1 with previous version 0.2.2 dated 2015-09-08

Title: Read Epanet Files into R
Description: Reads water network simulation data in Epanet's text-based '.inp' and '.rpt' formats into R. Also reads results from Epanet-msx. Provides basic summary information and plots. The README file has a quick introduction. See http://www2.epa.gov/ water-research/epanet for more information on the Epanet software for modeling hydraulic and water quality behavior of water piping systems.
Author: Bradley J. Eck
Maintainer: Bradley Eck <brad@bradeck.net>

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Package dygraphs updated to version 0.7 with previous version 0.6 dated 2015-12-21

Title: Interface to 'Dygraphs' Interactive Time Series Charting Library
Description: An R interface to the 'dygraphs' JavaScript charting library (a copy of which is included in the package). Provides rich facilities for charting time-series data in R, including highly configurable series- and axis-display and interactive features like zoom/pan and series/point highlighting.
Author: Dan Vanderkam [aut, cph] (dygraphs library in htmlwidgets/lib, http://dygraphs.com/), JJ Allaire [aut, cre] (R interface), RStudio [cph], Jonathan Owen [aut, cph], Daniel Gromer [aut, cph], Petr Shevtsov [aut, cph], Benoit Thieurmel [aut, cph], jQuery Foundation [cph] (jQuery library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/htmlwidgets/lib/jquery/AUTHORS.txt)
Maintainer: JJ Allaire <jj@rstudio.com>

Diff between dygraphs versions 0.6 dated 2015-12-21 and 0.7 dated 2016-02-02

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More information about dygraphs at CRAN
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Package DoseFinding updated to version 0.9-14 with previous version 0.9-13 dated 2015-11-10

Title: Planning and Analyzing Dose Finding Experiments
Description: The DoseFinding package provides functions for the design and analysis of dose-finding experiments (with focus on pharmaceutical Phase II clinical trials). It provides functions for: multiple contrast tests, fitting non-linear dose-response models (using Bayesian and non-Bayesian estimation), calculating optimal designs and an implementation of the MCPMod methodology.
Author: Bjoern Bornkamp, Jose Pinheiro, Frank Bretz
Maintainer: Bjoern Bornkamp <bbnkmp@gmail.com>

Diff between DoseFinding versions 0.9-13 dated 2015-11-10 and 0.9-14 dated 2016-02-02

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More information about DoseFinding at CRAN
Permanent link

Package sgeostat updated to version 1.0-27 with previous version 1.0-26 dated 2015-09-01

Title: An Object-Oriented Framework for Geostatistical Modeling in S+
Description: An Object-oriented Framework for Geostatistical Modeling in S+ containing functions for variogram estimation, variogram fitting and kriging as well as some plot functions. Written entirely in S, therefore works only for small data sets in acceptable computing time.
Author: S original by James J. Majure <majure@iastate.edu> Iowa State University, R port + extensions by Albrecht Gebhardt <albrecht.gebhardt@aau.at>
Maintainer: Albrecht Gebhardt <albrecht.gebhardt@aau.at>

Diff between sgeostat versions 1.0-26 dated 2015-09-01 and 1.0-27 dated 2016-02-02

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More information about sgeostat at CRAN
Permanent link

Package RGA updated to version 0.4.0 with previous version 0.3.2 dated 2015-12-27

Title: A Google Analytics API Client
Description: Provides functions for accessing and retrieving data from the Google Analytics APIs (https://developers.google.com/analytics/). Supports OAuth 2.0 authorization. Package provides access to the Management, Core Reporting, Multi-Channel Funnels Reporting, Real Time Reporting and Metadata APIs. Access to all the Google Analytics accounts which the user has access to. Auto-pagination to return more than 10,000 rows of the results by combining multiple data requests. Also package provides shiny app to explore the core reporting API dimensions and metrics.
Author: Artem Klevtsov [aut, cre], Philipp Upravitelev [ctb], Olga Shramko [ctb]
Maintainer: Artem Klevtsov <a.a.klevtsov@gmail.com>

Diff between RGA versions 0.3.2 dated 2015-12-27 and 0.4.0 dated 2016-02-02

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More information about RGA at CRAN
Permanent link

Package epandist updated to version 1.1.0 with previous version 1.0.2 dated 2015-11-10

Title: Statistical Functions for the Censored and Uncensored Epanechnikov Distribution
Description: Analyzing censored variables usually requires the use of optimization algorithms. This package provides an alternative algebraic approach to the task of determining the expected value of a random censored variable with a known censoring point. Likewise this approach allows for the determination of the censoring point if the expected value is known. These results are derived under the assumption that the variable follows an Epanechnikov kernel distribution with known mean and range prior to censoring. Statistical functions related to the uncensored Epanechnikov distribution are also provided by this package.
Author: Mathias Borritz Milfeldt [aut, cre]
Maintainer: Mathias Borritz Milfeldt <mathias@milfeldt.dk>

Diff between epandist versions 1.0.2 dated 2015-11-10 and 1.1.0 dated 2016-02-02

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More information about epandist at CRAN
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Package dti updated to version 1.2-4 with previous version 1.2-0.1 dated 2014-12-16

Title: Analysis of Diffusion Weighted Imaging (DWI) Data
Description: Diffusion Weighted Imaging (DWI) is a Magnetic Resonance Imaging modality, that measures diffusion of water in tissues like the human brain. The package contains R-functions to process diffusion-weighted data. The functionality includes diffusion tensor imaging (DTI), diffusion kurtosis imaging (DKI), modeling for high angular resolution diffusion weighted imaging (HARDI) using Q-ball-reconstruction and tensor mixture models, several methods for structural adaptive smoothing including POAS and msPOAS, and a streamline fiber tracking for tensor and tensor mixture models. The package provides functionality to manipulate and visualize results in 2D and 3D.
Author: Karsten Tabelow [aut, cre], Joerg Polzehl [aut], Felix Anker [ctb]
Maintainer: Karsten Tabelow <karsten.tabelow@wias-berlin.de>

Diff between dti versions 1.2-0.1 dated 2014-12-16 and 1.2-4 dated 2016-02-02

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More information about dti at CRAN
Permanent link

Package ahp updated to version 0.2.7 with previous version 0.2.4 dated 2016-01-15

Title: Analytic Hierarchy Process
Description: Model and analyse complex decision making problems using the Analytic Hierarchy Process (AHP) by Thomas Saaty.
Author: Christoph Glur
Maintainer: Christoph Glur <christoph.glur@ipub.com>

Diff between ahp versions 0.2.4 dated 2016-01-15 and 0.2.7 dated 2016-02-02

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More information about ahp at CRAN
Permanent link

Package surveyplanning updated to version 1.2 with previous version 1.0 dated 2015-12-23

Title: Survey Planning Tools
Description: Tools for sample survey planning, including sample size calculation, estimation of expected precision for the estimates of totals, and calculation of optimal sample size allocation.
Author: Juris Breidaks [aut, cre], Martins Liberts [aut], Janis Jukams [aut]
Maintainer: Juris Breidaks <rcsb@csb.gov.lv>

Diff between surveyplanning versions 1.0 dated 2015-12-23 and 1.2 dated 2016-02-02

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More information about surveyplanning at CRAN
Permanent link

Package rbamtools updated to version 2.13.0 with previous version 2.12.3 dated 2015-07-27

Title: An R Package for Reading and Writing BAM (Binary Alignment) Files
Description: Provides an interface to functions of the 'SAMtools' C-Library by Heng Li.
Author: Wolfgang Kaisers
Maintainer: Wolfgang Kaisers <kaisers@med.uni-duesseldorf.de>

Diff between rbamtools versions 2.12.3 dated 2015-07-27 and 2.13.0 dated 2016-02-02

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More information about rbamtools at CRAN
Permanent link

Package mvtnorm updated to version 1.0-5 with previous version 1.0-4 dated 2016-01-19

Title: Multivariate Normal and t Distributions
Description: Computes multivariate normal and t probabilities, quantiles, random deviates and densities.
Author: Alan Genz [aut], Frank Bretz [aut], Tetsuhisa Miwa [aut], Xuefei Mi [aut], Friedrich Leisch [ctb], Fabian Scheipl [ctb], Bjoern Bornkamp [ctb], Martin Maechler [ctb], Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>

Diff between mvtnorm versions 1.0-4 dated 2016-01-19 and 1.0-5 dated 2016-02-02

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More information about mvtnorm at CRAN
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Package smacof updated to version 1.8-10 with previous version 1.7-0 dated 2015-08-10

Title: Multidimensional Scaling
Description: Provides the following approaches for multidimensional scaling (MDS) based on stress minimization by means of majorization (smacof): basic MDS on symmetric dissimilarity matrices, MDS with external constraints on the configuration, individual difference scaling (idioscal, indscal, and friends), MDS with spherical restrictions, and unfolding. The MDS type can be ratio, interval, ordinal, and monotone splines. Various tools and extensions like jackknife MDS, permutation tests, gravity models, inverse MDS, unidimensional scaling, classical scaling, and Procrustes.
Author: Patrick Mair [aut, cre], Jan De Leeuw [aut], Ingwer Borg [ctb], Patrick J. F. Groenen [ctb]
Maintainer: Patrick Mair <mair@fas.harvard.edu>

Diff between smacof versions 1.7-0 dated 2015-08-10 and 1.8-10 dated 2016-02-02

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Package REBayes updated to version 0.62 with previous version 0.61 dated 2016-01-09

Title: Empirical Bayes Estimation and Inference in R
Description: Kiefer-Wolfowitz maximum likelihood estimation for mixture models and some other density estimation and regression methods based on convex optimization.
Author: Roger Koenker [aut, cre], Jiaying Gu [ctb], Ivan Mizera [ctb]
Maintainer: Roger Koenker <rkoenker@uiuc.edu>

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Package quantileDA updated to version 1.1 with previous version 1.0 dated 2015-10-03

Title: Quantile Classifier
Description: Code for centroid, median and quantile classifiers.
Author: Christian Hennig, Cinzia Viroli
Maintainer: Cinzia Viroli <cinzia.viroli@unibo.it>

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Package move updated to version 1.6.539 with previous version 1.5.514 dated 2015-07-07

Title: Visualizing and Analyzing Animal Track Data
Description: Contains functions to access movement data stored in movebank.org as well as tools to visualize and statistically analyze animal movement data, among others functions to calculate dynamic Brownian Bridge Movement Models. Move helps addressing movement ecology questions.
Author: Bart Kranstauber <bart.kranstauber@uni-konstanz.de>, Marco Smolla <marco.smolla@postgrad.manchester.ac.uk>
Maintainer: Bart Kranstauber <bart.kranstauber@uni-konstanz.de>

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Package caseMatch updated to version 1.0.5 with previous version 1.0.1 dated 2014-09-05

Title: Identify Similar Cases for Qualitative Case Studies
Description: Allows users to identify similar cases for qualitative case studies using statistical matching methods.
Author: Rich Nielsen
Maintainer: Rich Nielsen <rnielsen@mit.edu>

Diff between caseMatch versions 1.0.1 dated 2014-09-05 and 1.0.5 dated 2016-02-02

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Package nnet updated to version 7.3-12 with previous version 7.3-11 dated 2015-08-30

Title: Feed-Forward Neural Networks and Multinomial Log-Linear Models
Description: Software for feed-forward neural networks with a single hidden layer, and for multinomial log-linear models.
Author: Brian Ripley [aut, cre, cph], William Venables [cph]
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>

Diff between nnet versions 7.3-11 dated 2015-08-30 and 7.3-12 dated 2016-02-02

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Package tigris updated to version 0.2 with previous version 0.1 dated 2015-10-11

Title: Load Census TIGER/Line Shapefiles into R
Description: Download TIGER/Line shapefiles from the United States Census Bureau and load into R as 'SpatialDataFrame' objects.
Author: Kyle Walker [aut, cre], Bob Rudis [ctb]
Maintainer: Kyle Walker <kyle.walker@tcu.edu>

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Package statmod updated to version 1.4.24 with previous version 1.4.23 dated 2016-01-05

Title: Statistical Modeling
Description: A collection of algorithms and functions to aid statistical modeling. Includes growth curve comparisons, limiting dilution analysis (aka ELDA), mixed linear models, heteroscedastic regression, inverse-Gaussian probability calculations, Gauss quadrature and a secure convergence algorithm for nonlinear models. Includes advanced generalized linear model functions that implement secure convergence, dispersion modeling and Tweedie power-law families.
Author: Gordon Smyth [cre, aut], Yifang Hu [ctb], Peter Dunn [ctb], Belinda Phipson [ctb], Yunshun Chen [ctb]
Maintainer: Gordon Smyth <smyth@wehi.edu.au>

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Package RKEELjars updated to version 1.0.11 with previous version 1.0.9 dated 2016-01-31

Title: Java Executable .jar Files for 'RKEEL'
Description: KEEL is a popular Java software for a large number of different knowledge data discovery tasks. Furthermore, 'RKEEL' is a package with a R code layer between R and KEEL, for using KEEL in R code. This package downloads and install the .jar files necessary for 'RKEEL' algorithms execution. For more information about KEEL, see <http://www.keel.es/>.
Author: Jose Moyano [aut, cre], Luciano Sanchez Ramos [aut]
Maintainer: Jose Moyano <i02momuj@uco.es>

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