Fri, 04 Sep 2015

Package minpack.lm updated to version 1.1-9 with previous version 1.1-8 dated 2013-08-31

Title: R Interface to the Levenberg-Marquardt Nonlinear Least-Squares Algorithm Found in MINPACK, Plus Support for Bounds
Description: The nls.lm function provides an R interface to lmder and lmdif from the MINPACK library, for solving nonlinear least-squares problems by a modification of the Levenberg-Marquardt algorithm, with support for lower and upper parameter bounds. The implementation can be used via nls-like calls using the nlsLM function.
Author: Timur V. Elzhov, Katharine M. Mullen, Andrej-Nikolai Spiess, Ben Bolker
Maintainer: Katharine M. Mullen <mullenkate@gmail.com>

Diff between minpack.lm versions 1.1-8 dated 2013-08-31 and 1.1-9 dated 2015-09-04

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Package marelac updated to version 2.1.5 with previous version 2.1.4 dated 2014-11-04

Title: Tools for Aquatic Sciences
Description: Datasets, constants, conversion factors, utilities for MArine, Riverine, Estuarine, LAcustrine and Coastal science. The package contains among others: (1) chemical and physical constants and datasets, e.g. atomic weights, gas constants, the earths bathymetry; (2) conversion factors (e.g. gram to mol to liter, barometric units, temperature, salinity); (3) physical functions, e.g. to estimate concentrations of conservative substances, gas transfer and diffusion coefficients, the Coriolis force and gravity; (4) thermophysical properties of the seawater, as from the UNESCO polynomial or from the more recent derivation based on a Gibbs function.
Author: Karline Soetaert <karline.soetaert@nioz.nl>, Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>, Filip Meysman <filip.meysman@nioz.nl>
Maintainer: Karline Soetaert <karline.soetaert@nioz.nl>

Diff between marelac versions 2.1.4 dated 2014-11-04 and 2.1.5 dated 2015-09-04

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More information about marelac at CRAN
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Package icd9 updated to version 1.2.1 with previous version 1.2 dated 2015-04-21

Title: Tools for Working with ICD-9 Codes, and Finding Comorbidities
Description: Calculate comorbidities, Charlson scores, perform fast and accurate validation, conversion, manipulation, filtering and comparison of ICD-9-CM (clinical modification) codes. ICD-9 codes appear numeric but leading and trailing zeroes, and both decimal and non-decimal "short" format codes exist. The package enables a work flow from raw lists of ICD-9 codes from hospital billing databases to comorbidities. ICD-9 to comorbidity mappings from Quan (Deyo and Elixhauser versions), Elixhauser and AHRQ included. Any other mapping of codes, such as ICD-10, to comorbidities can be used.
Author: Jack O. Wasey [aut, cre, cph], William Murphy [ctb]
Maintainer: Jack O. Wasey <jack@jackwasey.com>

Diff between icd9 versions 1.2 dated 2015-04-21 and 1.2.1 dated 2015-09-04

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Package ExomeDepth updated to version 1.1.6 with previous version 1.1.5 dated 2015-05-29

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 <v.plagnol@ucl.ac.uk>

Diff between ExomeDepth versions 1.1.5 dated 2015-05-29 and 1.1.6 dated 2015-09-04

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Package DoubleExpSeq updated to version 1.1 with previous version 1.0 dated 2014-05-14

Title: Differential Exon Usage Test for RNA-Seq Data via Empirical Bayes Shrinkage of the Dispersion Parameter
Description: Differential exon usage test for RNA-Seq data via an empirical Bayes shrinkage method for the dispersion parameter the utilizes inclusion-exclusion data to analyze the propensity to skip an exon across groups. The input data consists of two matrices where each row represents an exon and the columns represent the biological samples. The first matrix is the count of the number of reads expressing the exon for each sample. The second matrix is the count of the number of reads that either express the exon or explicitly skip the exon across the samples, a.k.a. the total count matrix. Dividing the two matrices yields proportions representing the propensity to express the exon versus skipping the exon for each sample.
Author: Sean Ruddy
Maintainer: Sean Ruddy <s.ruddy@yahoo.com>

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More information about DoubleExpSeq at CRAN
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Package MRH updated to version 2.1 with previous version 2.0 dated 2015-01-13

Title: Multi-Resolution Estimation of the Hazard Rate
Description: Used on survival data to jointly estimate the hazard rate and the effects of covariates on failure times. Can accommodate covariates under the proportional and non-proportional hazards setting, and is ideal for analysis of survival data with long-term follow-up.
Author: Yolanda Hagar, Yuanting Chen, Vanja Dukic
Maintainer: Yolanda Hagar <yolanda.hagar@colorado.edu>

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Package kohonen updated to version 2.0.19 with previous version 2.0.18 dated 2015-03-25

Title: Supervised and Unsupervised Self-Organising Maps
Description: Functions to train supervised and self-organising maps (SOMs). Also interrogation of the maps and prediction using trained maps are supported. The name of the package refers to Teuvo Kohonen, the inventor of the SOM.
Author: Ron Wehrens
Maintainer: Ron Wehrens <ron.wehrens@gmail.com>

Diff between kohonen versions 2.0.18 dated 2015-03-25 and 2.0.19 dated 2015-09-04

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Package gender updated to version 0.5.1 with previous version 0.5.0 dated 2015-08-22

Title: Predict Gender from Names Using Historical Data
Description: Encodes gender based on names and dates of birth using historical datasets. By using these datasets instead of lists of male and female names, this package is able to more accurately guess the gender of a name, and it is able to report the probability that a name was male or female.
Author: Lincoln Mullen [aut, cre], Cameron Blevins [ctb], Ben Schmidt [ctb]
Maintainer: Lincoln Mullen <lincoln@lincolnmullen.com>

Diff between gender versions 0.5.0 dated 2015-08-22 and 0.5.1 dated 2015-09-04

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Package FRESA.CAD updated to version 2.1.3 with previous version 2.0.2 dated 2015-02-22

Title: FeatuRE Selection Algorithms for Computer Aided Diagnosis
Description: Contains a set of utilities for building and testing formula-based models (linear, logistic or COX) for Computer Aided Diagnosis/Prognosis applications. Utilities include data adjustment, univariate analysis, model building, model-validation, longitudinal analysis, reporting and visualization.
Author: Jose Gerardo Tamez-Pena, Antonio Martinez-Torteya and Israel Alanis
Maintainer: Jose Gerardo Tamez-Pena <jose.tamezpena@itesm.mx>

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Package CORElearn updated to version 1.47.1 with previous version 0.9.46 dated 2015-06-03

Title: Classification, Regression and Feature Evaluation
Description: This is a suite of machine learning algorithms written in C++ with R interface. It contains several machine learning model learning techniques in classification and regression, for example classification and regression trees with optional constructive induction and models in the leaves, random forests, kNN, naive Bayes, and locally weighted regression. All predictions obtained with these models can be explained and visualized with ExplainPrediction package. The package is especially strong in feature evaluation where it contains several variants of Relief algorithm and many impurity based attribute evaluation functions, e.g., Gini, information gain, MDL, and DKM. These methods can be used for example to discretize numeric attributes. Its additional feature is OrdEval algorithm and its visualization used for evaluation of data sets with ordinal features and class, enabling analysis according to the Kano model of customer satisfaction. Several algorithms support parallel multithreaded execution via OpenMP. The top-level documentation is reachable through ?CORElearn.
Author: Marko Robnik-Sikonja and Petr Savicky with contributions from John Adeyanju Alao
Maintainer: "Marko Robnik-Sikonja" <marko.robnik@fri.uni-lj.si>

Diff between CORElearn versions 0.9.46 dated 2015-06-03 and 1.47.1 dated 2015-09-04

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Package ChemometricsWithR updated to version 0.1.9 with previous version 0.1.8 dated 2014-08-04

Title: Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences
Description: Functions and scripts used in the book "Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences" by Ron Wehrens, Springer (2011).
Author: Ron Wehren9
Maintainer: Ron Wehrens <ron.wehrens@gmail.com>

Diff between ChemometricsWithR versions 0.1.8 dated 2014-08-04 and 0.1.9 dated 2015-09-04

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Thu, 03 Sep 2015

Package RNiftyReg updated to version 1.1.5 with previous version 1.1.3 dated 2015-02-18

Title: Medical Image Registration Using the NiftyReg Library
Description: Provides an R interface to the NiftyReg image registration tools <http://sourceforge.net/projects/niftyreg/>. Linear and nonlinear registration are supported.
Author: Jon Clayden, based on original code by Marc Modat and Pankaj Daga
Maintainer: Jon Clayden <code@clayden.org>

Diff between RNiftyReg versions 1.1.3 dated 2015-02-18 and 1.1.5 dated 2015-09-03

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Package qicharts updated to version 0.3.2 with previous version 0.3.1 dated 2015-07-29

Title: Quality Improvement Charts
Description: Functions for making run charts and basic Shewhart control charts for measure and count data. The main function, qic(), creates run and control charts and has a simple interface with a rich set of options to control data analysis and plotting, including options for automatic data aggregation by subgroups, easy analysis of before-and-after data, exclusion of one or more data points from analysis, and splitting charts into sequential time periods. Missing values and empty subgroups are handled gracefully.
Author: Jacob Anhoej [aut, cre], Timo Roeder [ctb]
Maintainer: Jacob Anhoej <jacob@anhoej.net>

Diff between qicharts versions 0.3.1 dated 2015-07-29 and 0.3.2 dated 2015-09-03

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Package zic updated to version 0.9 with previous version 0.8.1 dated 2013-12-08

Title: Bayesian Inference for Zero-Inflated Count Models
Description: Provides MCMC algorithms for the analysis of zero-inflated count models. The case of stochastic search variable selection (SVS) is also considered. All MCMC samplers are coded in C++ for improved efficiency. A data set considering the demand for health care is provided.
Author: Markus Jochmann <markus.jochmann@ncl.ac.uk>
Maintainer: Markus Jochmann <markus.jochmann@ncl.ac.uk>

Diff between zic versions 0.8.1 dated 2013-12-08 and 0.9 dated 2015-09-03

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Package sgt updated to version 2.0 with previous version 1.1 dated 2015-02-25

Title: Skewed Generalized T Distribution Tree
Description: Density, distribution function, quantile function and random generation for the skewed generalized t distribution. This package also provides a function that can fit data to the skewed generalized t distribution using maximum likelihood estimation.
Author: Carter Davis
Maintainer: Carter Davis <cdavis40@chicagobooth.edu>

Diff between sgt versions 1.1 dated 2015-02-25 and 2.0 dated 2015-09-03

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Package semiArtificial updated to version 2.0.1 with previous version 1.2.0 dated 2014-03-17

Title: Generator of Semi-Artificial Data
Description: Package semiArtificial contains methods to generate and evaluate semi-artificial data sets. Based on a given data set different methods learn data properties using machine learning algorithms and generate new data with the same properties. The package currently includes the following data generator: -a RBF network based generator using rbfDDA from RSNNS package, -a Random Forest based generator for both classification and regression problems -a density forest based generator for unsupervised data Data evaluation support tools include: -single attribute based statistical evaluation: mean, median, standard deviation, skewness, kurtosis, medcouple, L/RMC, KS test, Hellinger distance -evaluation based on clustering using Adjusted Rand Index (ARI) and FM -evaluation based on classification performance with various learning models, eg, random forests.
Author: Marko Robnik-Sikonja
Maintainer: Marko Robnik-Sikonja <marko.robnik@fri.uni-lj.si>

Diff between semiArtificial versions 1.2.0 dated 2014-03-17 and 2.0.1 dated 2015-09-03

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Package clipr updated to version 0.1.1 with previous version 0.1.0 dated 2015-09-02

Title: Read and Write from the System Clipboard
Description: Simple utility functions to read from and write to the system clipboards of Windows, OS X, and Linux.
Author: Matthew Lincoln [aut, cre], Louis Maddox [ctb]
Maintainer: Matthew Lincoln <matthew.d.lincoln@gmail.com>

Diff between clipr versions 0.1.0 dated 2015-09-02 and 0.1.1 dated 2015-09-03

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Package WaterML updated to version 1.4.0 with previous version 1.3.2 dated 2015-07-12

Title: Fetch and Analyze Data from WaterML or CUAHSI WaterOneFlow Web Service
Description: Lets you connect to any CUAHSI WaterOneFlow web service from any hydroserver. To see list of available hydroservers, see http://hiscentral.cuahsi.org. The package has five data download functions: GetServices(): show all public HydroServers from the HIS Central Catalog. HISCentral_GetSites() and HISCentral_GetSeriesCatalog(): search for sites or time series from the HIS Central catalog based on geographic bounding box, server, or keyword. GetVariables(): Show a data.frame with all variables on the server. GetSites(): Show a data.frame with all sites on the server. GetSiteInfo(): Show what variables, methods and quality control levels are available at the specific site. GetValues(): Given a site code, variable code, start time and endtime, fetch a data.frame of all the observation time series data values. The data.frame has two columns: time and DataValue. This function has an optional "daily" parameter, you can set daily="max", daily="min" or daily="mean" to get aggregated daily values. The GetValues function can also retrieve WaterML 1 or WaterML 2.0 data from a custom URL or from a local file. The package also has five data upload functions: AddSites(), AddVariables(), AddMethods(), AddSources(), and AddValues(). These functions can be used for uploading data to a HydroServer Lite ODM database via the JSON data upload web service interface.
Author: Jiri Kadlec [aut, cre]
Maintainer: Jiri Kadlec <jirikadlec2@gmail.com>

Diff between WaterML versions 1.3.2 dated 2015-07-12 and 1.4.0 dated 2015-09-03

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Package RcppArmadillo updated to version 0.5.500.2.0 with previous version 0.5.400.2.0 dated 2015-08-17

Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad Sanderson) that aims towards a good balance between speed and ease of use. Integer, floating point and complex numbers are supported, as well as a subset of trigonometric and statistics functions. Various matrix decompositions are provided through optional integration with LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the header files from the templated 'Armadillo' library. Thus users do not need to install 'Armadillo' itself in order to use 'RcppArmadillo'. 'Armadillo' is licensed under the MPL 2.0, while 'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel, Romain Francois and Doug Bates
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppArmadillo versions 0.5.400.2.0 dated 2015-08-17 and 0.5.500.2.0 dated 2015-09-03

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Package mvProbit updated to version 0.1-4 with previous version 0.1-0 dated 2011-11-13

Title: Multivariate Probit Models
Description: Tools for estimating multivariate probit models, calculating conditional and unconditional expectations, and calculating marginal effects on conditional and unconditional expectations.
Author: Arne Henningsen <arne.henningsen@gmail.com>
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>

Diff between mvProbit versions 0.1-0 dated 2011-11-13 and 0.1-4 dated 2015-09-03

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Package multiplex updated to version 1.7.1 with previous version 1.7 dated 2015-09-01

Title: Analysis of Multiple Social Networks with Algebra
Description: Algebraic procedures for the analysis of multiple social networks are delivered with this package. Among other things, it is possible to create and manipulate multivariate network data with different formats, and there are effective ways available to treat multiple networks with routines that combine algebraic systems like the partially ordered semigroup or the semiring structure together with the relational bundles occurring in different types of multivariate network data sets. As well an algebraic approach for two-mode networks is made through Galois derivations between families of the pair of subsets.
Author: J. Antonio Rivero Ostoic
Maintainer: Antonio Rivero Ostoic <multiplex@post.com>

Diff between multiplex versions 1.7 dated 2015-09-01 and 1.7.1 dated 2015-09-03

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Package ggmcmc updated to version 0.7.2 with previous version 0.7.1 dated 2015-07-29

Title: Tools for Analyzing MCMC Simulations from Bayesian Inference
Description: Tools for assessing and diagnosing convergence of Markov Chain Monte Carlo simulations, as well as for graphically display results from full MCMC analysis. The package also facilitates the graphical interpretation of models by providing flexible functions to plot the results against observed variables.
Author: Xavier Fernández i Marín <xavier.fim@gmail.com>
Maintainer: Xavier Fernández i Marín <xavier.fim@gmail.com>

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Package ELT updated to version 1.4 with previous version 1.3 dated 2014-08-16

Title: Experience Life Tables
Description: Build experience life tables.
Author: Julien Tomas, Frederic Planchet, Wassim Youssef
Maintainer: Wassim Youssef <Wassim.G.Youssef@gmail.com>

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Package dbscan updated to version 0.9-3 with previous version 0.9-2 dated 2015-08-11

Title: Density Based Clustering of Applications with Noise (DBSCAN) and Related Algorithms
Description: A fast reimplementation of several density-based algorithms of the DBSCAN family for spatial data. Includes the DBSCAN (density-based spatial clustering of applications with noise) and OPTICS (ordering points to identify the clustering structure) clustering algorithms and the LOF (local outlier factor) algorithm. The implementations uses the kd-tree data structure (from library ANN) for faster k-nearest neighbor search. An R interface to fast kNN and fixed-radius NN search is also provided.
Author: Michael Hahsler [aut, cre, cph], Sunil Arya [ctb, cph], David Mount [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

Diff between dbscan versions 0.9-2 dated 2015-08-11 and 0.9-3 dated 2015-09-03

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Package simecol updated to version 0.8-7 with previous version 0.8-6 dated 2015-03-19

Title: Simulation of Ecological (and Other) Dynamic Systems
Description: An object oriented framework to simulate ecological (and other) dynamic systems. It can be used for differential equations, individual-based (or agent-based) and other models as well. The package helps to organize scenarios (to avoid copy and paste) and aims to improve readability and usability of code.
Author: Thomas Petzoldt
Maintainer: Thomas Petzoldt <thomas.petzoldt@tu-dresden.de>

Diff between simecol versions 0.8-6 dated 2015-03-19 and 0.8-7 dated 2015-09-03

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Package car updated to version 2.1-0 with previous version 2.0-26 dated 2015-08-06

Title: Companion to Applied Regression
Description: Functions and Datasets to Accompany J. Fox and S. Weisberg, An R Companion to Applied Regression, Second Edition, Sage, 2011.
Author: John Fox [aut, cre], Sanford Weisberg [aut], Daniel Adler [ctb], Douglas Bates [ctb], Gabriel Baud-Bovy [ctb], Steve Ellison [ctb], David Firth [ctb], Michael Friendly [ctb], Gregor Gorjanc [ctb], Spencer Graves [ctb], Richard Heiberger [ctb], Rafael Laboissiere [ctb], Georges Monette [ctb], Duncan Murdoch [ctb], Henric Nilsson [ctb], Derek Ogle [ctb], Brian Ripley [ctb], William Venables [ctb], Achim Zeileis [ctb], R-Core [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>

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Package mime updated to version 0.4 with previous version 0.3 dated 2015-03-29

Title: Map Filenames to MIME Types
Description: Guesses the MIME type from a filename extension using the data derived from /etc/mime.types in UNIX-type systems.
Author: Jeffrey Horner [ctb], Yihui Xie [aut, cre]
Maintainer: Yihui Xie <xie@yihui.name>

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Package lintr updated to version 0.3.1 with previous version 0.2.0 dated 2014-12-01

Title: Static R Code Analysis
Description: Checks adherence to a given style, syntax errors and possible semantic issues. Supports on the fly checking of R code edited with Emacs, Vim and Sublime Text.
Author: Jim Hester [aut, cre]
Maintainer: Jim Hester <james.f.hester@gmail.com>

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Package gamlss updated to version 4.3-6 with previous version 4.3-5 dated 2015-07-03

Title: Generalised Additive Models for Location Scale and Shape
Description: Functions for fitting, displaying and checking GAMLSS Models.
Author: Mikis Stasinopoulos [aut, cre, cph], Bob Rigby [aut], Vlasios Voudouris [ctb], Calliope Akantziliotou [ctb], Marco Enea [ctb]
Maintainer: Mikis Stasinopoulos <d.stasinopoulos@londonmet.ac.uk>

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Package DAAG updated to version 1.22 with previous version 1.20 dated 2014-04-30

Title: Data Analysis and Graphics Data and Functions
Description: Various data sets used in examples and exercises in the book Maindonald, J.H. and Braun, W.J. (2003, 2007, 2010) "Data Analysis and Graphics Using R".
Author: John H. Maindonald and W. John Braun
Maintainer: W. John Braun <braun@stats.uwo.ca>

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Package unmarked updated to version 0.11-0 with previous version 0.10-6 dated 2015-01-27

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, Rebecca Hutchinson
Maintainer: Andy Royle <aroyle@usgs.gov>

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Package geiger updated to version 2.0.5 with previous version 2.0.3 dated 2014-05-16

Title: Analysis of Evolutionary Diversification
Description: Methods for fitting macroevolutionary models to phylogenetic trees.
Author: Luke Harmon <lukeh@uidaho.edu>, Jason Weir, Chad Brock, Rich Glor, Wendell Challenger, Gene Hunt, Rich FitzJohn, Matt Pennell, Graham Slater, Joseph Brown, Josef Uyeda, and Jon Eastman <jonathan.eastman@gmail.com>
Maintainer: Matt Pennell <mwpennell@gmail.com>

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Package estimability updated to version 1.1-1 with previous version 1.1 dated 2015-02-12

Title: Tools for Assessing Estimability of Linear Predictions
Description: Provides tools for determining estimability of linear functions of regression coefficients, and 'epredict' methods that handle non-estimable cases correctly.
Author: Russell V. Lenth
Maintainer: Russell V. Lenth <russell-lenth@uiowa.edu>

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Package TSP updated to version 1.1-3 with previous version 1.1-2 dated 2015-06-30

Title: Traveling Salesperson Problem (TSP)
Description: Basic infrastructure and some algorithms for the traveling salesperson problem (also traveling salesman problem; TSP). The package provides some simple algorithms and an interface to the Concorde TSP solver and its implementation of the Chained-Lin-Kernighan heuristic. Concorde itself is not included in the package and has to be obtained separately from http://www.math.uwaterloo.ca/tsp/concorde.html.
Author: Michael Hahsler [aut, cre, cph], Kurt Hornik [aut, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>

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Package rsm updated to version 2.7-3 with previous version 2.7-2 dated 2015-05-12

Title: Response-Surface Analysis
Description: Provides functions to generate response-surface designs, fit first- and second-order response-surface models, make surface plots, obtain the path of steepest ascent, and do canonical analysis.
Author: Russell V. Lenth
Maintainer: Russell V Lenth <russell-lenth@uiowa.edu>

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Package parfm updated to version 2.5.10 with previous version 2.5.8 dated 2015-06-08

Title: Parametric Frailty Models
Description: Fits Parametric Frailty Models by maximum marginal likelihood. Possible baseline hazards: Weibull, inverse Weibull, exponential, Gompertz, lognormal and loglogistic. Possible Frailty distributions: gamma, inverse Gaussian, positive stable and lognormal.
Author: Federico Rotolo <federico.rotolo@gustaveroussy.fr> and Marco Munda <marco.munda@arlenda.com>
Maintainer: Federico Rotolo <federico.rotolo@gustaveroussy.fr>

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Package lfactors updated to version 0.5.3 with previous version 0.4.0 dated 2015-04-27

Title: Factors with Levels
Description: Provides an extension to factors called 'lfactor' that are similar to factors but allow users to refer to 'lfactor' levels by either the level or the label.
Author: Paul Bailey [aut, cre]
Maintainer: Paul Bailey <pbailey@air.org>

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Wed, 02 Sep 2015

Package sca updated to version 0.9-0 with previous version 0.8-9 dated 2012-09-01

Title: Simple Component Analysis
Description: Simple Component Analysis (SCA) often provides much more interpretable components than Principal Components (PCA) while still representing much of the variability in the data.
Author: Valentin Rousson <rousson@ifspm.unizh.ch> and Martin Maechler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>

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Package ParetoPosStable updated to version 1.1 with previous version 1.0.3 dated 2014-10-22

Title: Computing, Fitting and Validating the PPS Distribution
Description: Statistical functions to describe a Pareto Positive Stable (PPS) distribution and fit it to real data. Graphical and statistical tools to validate the fits are included.
Author: Antonio Jose Saez-Castillo [aut, cre], Faustino Prieto [aut], Jose Maria Sarabia [aut]
Maintainer: Antonio Jose Saez-Castillo <ajsaez@ujaen.es>

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Package NAM updated to version 1.4 with previous version 1.3.4 dated 2015-08-09

Title: Nested Association Mapping Analysis
Description: Designed for association studies in nested association mapping (NAM) panels, also handling biparental and random panels. It includes functions for genome-wide associations mapping of multiple populations, marker quality control, solving mixed models and finding variance components through REML and Gibbs sampling.
Author: Alencar Xavier, William Muir, Katy Rainey, Tiago Pimenta, Qishan Wang, Shizhong Xu.
Maintainer: Alencar Xavier <xaviera@purdue.edu>

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Package lsmeans updated to version 2.20-2 with previous version 2.20 dated 2015-08-29

Title: Least-Squares Means
Description: Obtain least-squares means for many linear, generalized linear, and mixed models. Compute contrasts or linear functions of least-squares means, and comparisons of slopes. Plots and compact letter displays.
Author: Russell Lenth [aut, cre], Maxime Herv\'e [ctb]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>

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Package georob updated to version 0.2-1 with previous version 0.1-5 dated 2014-08-28

Title: Robust Geostatistical Analysis of Spatial Data
Description: The georob package provides functions for efficiently fitting linear models with spatially correlated errors by robust and Gaussian (Restricted) Maximum Likelihood and for computing robust and customary point and block external-drift kriging predictions, along with utility functions for variogram modelling in ad-hoc geostatistical analyses, model building, model evaluation by cross-validation and for unbiased back-transformation of kriging predictions of log-transformed data.
Author: Andreas Papritz [cre, aut], Cornelia Schwierz [ctb]
Maintainer: Andreas Papritz <andreas.papritz@env.ethz.ch>

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Package functools updated to version 0.2.0 with previous version 0.1.0 dated 2015-07-23

Title: Functional Programming in R
Description: Extends functional programming in R by providing support to the usual higher order functional suspects (Map, Reduce, Filter, etc.).
Author: Paul Hendricks [aut, cre]
Maintainer: Paul Hendricks <paul.hendricks.2013@owu.edu>

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Package coneproj updated to version 1.7 with previous version 1.6 dated 2015-05-22

Title: Primal or Dual Cone Projections with Routines for Constrained Regression
Description: Routines doing cone projection and quadratic programming, as well as doing estimation and inference for constrained parametric regression and shape-restricted regression problems.
Author: Mary C. Meyer and Xiyue Liao
Maintainer: Xiyue Liao <xiyue@rams.colostate.edu>

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Package switchr updated to version 0.9.18 with previous version 0.9.10 dated 2015-07-01

Title: Installing, Managing, and Switching Between Distinct Sets of Installed Packages
Description: Provides an abstraction for managing, installing, and switching between sets of installed R packages. This allows users to maintain multiple package libraries simultaneously, e.g. to maintain strict, package-version-specific reproducibility of many analyses, or work within a devel/release paradigm. Introduces a generalized package installation process which supports multiple repository and non-repository sources and tracks package provenance.
Author: Gabriel Becker[aut, cre]
Maintainer: Gabriel Becker <becker.gabriel@gene.com>

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Tue, 01 Sep 2015

Package rfishbase updated to version 2.0.2 with previous version 2.0.1 dated 2015-08-15

Title: R Interface to 'FishBase'
Description: A programmatic interface to http://www.fishbase.org, re-written based on an accompanying 'RESTful' API. Access tables describing over 30,000 species of fish, their biology, ecology, morphology, and more. This package also supports experimental access to http://www.sealifebase.org data, which contains nearly 200,000 species records for all types of aquatic life not covered by 'FishBase.'
Author: Carl Boettiger [cre, aut], Scott Chamberlain [aut], Duncan Temple Lang [aut], Peter Wainwright [aut]
Maintainer: Carl Boettiger <cboettig@ropensci.org>

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Package rcbalance updated to version 1.7.1 with previous version 1.7 dated 2015-08-01

Title: Large, Sparse Optimal Matching with Refined Covariate Balance
Description: Tools for large, sparse optimal matching of treated units and control units in observational studies. Provisions are made for refined covariate balance constraints, which include fine and near-fine balance as special cases. Matches are optimal in the sense that they are computed as solutions to network optimization problems rather than greedy algorithms.
Author: Samuel D. Pimentel
Maintainer: Samuel D. Pimentel <spi@wharton.upenn.edu>

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Package nhanesA updated to version 0.5 with previous version 0.4 dated 2015-08-27

Title: NHANES Data Retrieval
Description: Utility to retrieve data from the National Health and Nutrition Examination Survey (NHANES).
Author: Christopher Endres
Maintainer: Christopher Endres <cjendres1@gmail.com>

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Package MGSDA updated to version 1.2 with previous version 1.1 dated 2014-08-28

Title: Multi-Group Sparse Discriminant Analysis
Description: Implements Multi-Group Sparse Discriminant Analysis proposal of 'I.Gaynanova, J.Booth and M.Wells (2015), Simultaneous sparse estimation of canonical vectors in the p>>N setting'.
Author: Irina Gaynanova
Maintainer: Irina Gaynanova <irinag@stat.tamu.edu>

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Package mdsdt updated to version 1.1 with previous version 1.0 dated 2014-09-30

Title: Functions for Analysis of Data with General Recognition Theory
Description: Tools associated with General Recognition Theory (Townsend & Ashby, 1986), including Gaussian model fitting of 4x4 and more general confusion matrices, associated plotting and model comparison tools, and tests of marginal response invariance and report independence.
Author: Robert X.D. Hawkins <rxdh@stanford.edu>, Joe Houpt <joseph.houpt@wright.edu>, Noah Silbert <noahpoah@gmail.com>, Leslie Blaha <Leslie.Blaha@wpafb.af.mil>, Thomas D. Wickens <twickens@socrates.berkeley.edu>
Maintainer: Robert X.D. Hawkins <rxdh@stanford.edu>

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Package EasyABC updated to version 1.5 with previous version 1.4 dated 2014-12-17

Title: Efficient Approximate Bayesian Computation Sampling Schemes
Description: Enables launching a series of simulations of a computer code from the R session, and to retrieve the simulation outputs in an appropriate format for post-processing treatments. Five sequential sampling schemes and three coupled-to-MCMC schemes are implemented.
Author: Franck Jabot, Thierry Faure, Nicolas Dumoulin, Carlo Albert.
Maintainer: Nicolas Dumoulin <nicolas.dumoulin@irstea.fr>

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Package xml2 updated to version 0.1.2 with previous version 0.1.1 dated 2015-06-02

Title: Parse XML
Description: Work with XML files using a simple, consistent interface. Built on top of the 'libxml2' C library.
Author: Hadley Wickham [aut, cre], Jeroen Ooms [ctb], RStudio [cph], R Foundation [ctb] (Copy of R-project homepage cached as example)
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package tripack updated to version 1.3-7 with previous version 1.3-6 dated 2013-09-16

Title: Triangulation of Irregularly Spaced Data
Description: A constrained two-dimensional Delaunay triangulation package providing both triangulation and generation of voronoi mosaics of irregular spaced data.
Author: Fortran code by R. J. Renka. R functions by Albrecht Gebhardt <albrecht.gebhardt@aau.at>. With contributions from Stephen Eglen <stephen@anc.ed.ac.uk>, Sergei Zuyev <sergei@stams.strath.ac.uk> and Denis White <white.denis@epamail.epa.gov>
Maintainer: Albrecht Gebhardt <albrecht.gebhardt@aau.at>

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Package lpSolve updated to version 5.6.12 with previous version 5.6.11 dated 2015-04-06

Title: Interface to 'Lp_solve' v. 5.5 to Solve Linear/Integer Programs
Description: Lp_solve is freely available (under LGPL 2) software for solving linear, integer and mixed integer programs. In this implementation we supply a "wrapper" function in C and some R functions that solve general linear/integer problems, assignment problems, and transportation problems. This version calls lp_solve version 5.5.
Author: Michel Berkelaar and others
Maintainer: Samuel E. Buttrey <buttrey@nps.edu>

Diff between lpSolve versions 5.6.11 dated 2015-04-06 and 5.6.12 dated 2015-09-01

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Package fpCompare updated to version 0.2.1 with previous version 0.2.0 dated 2015-05-16

Title: Reliable Comparison of Floating Point Numbers
Description: Comparisons of floating point numbers are problematic due to errors associated with the binary representation of decimal numbers. Despite being aware of these problems, people still use numerical methods that fail to account for these and other rounding errors (this pitfall is the first to be highlighted in Circle 1 of Burns (2012) [The R Inferno](http://www.burns-stat.com/pages/Tutor/R_inferno.pdf)). This package provides new relational operators useful for performing floating point number comparisons with a set tolerance.
Author: Alex M Chubaty [aut, cre], Her Majesty the Queen in Right of Canada, as represented by the Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alexander.chubaty@canada.ca>

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Package commonmark updated to version 0.5 with previous version 0.4 dated 2015-05-30

Title: Bindings to the 'CommonMark' Reference Implementation
Description: The 'CommonMark' spec is a rationalized version of markdown syntax. This package converts markdown text to various formats including html, latex and 'groff' man. In addition it exposes the markdown parse tree in xml format.
Author: Jeroen Ooms [aut, cre], John MacFarlane [cph] (Author of cmark)
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>

Diff between commonmark versions 0.4 dated 2015-05-30 and 0.5 dated 2015-09-01

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 commonmark-0.5/commonmark/R/markdown.R               |   12 
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 commonmark-0.5/commonmark/src/cmark/bench.h          |   16 
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 commonmark-0.5/commonmark/src/cmark/chunk.h          |  204 
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 commonmark-0.5/commonmark/src/cmark/cmark.h          |  292 
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 commonmark-0.5/commonmark/src/cmark/cmark_version.h  |    4 
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 commonmark-0.5/commonmark/src/cmark/houdini.h        |   43 
 commonmark-0.5/commonmark/src/cmark/houdini_href_e.c |  121 
 commonmark-0.5/commonmark/src/cmark/houdini_html_e.c |   95 
 commonmark-0.5/commonmark/src/cmark/houdini_html_u.c |  247 
 commonmark-0.5/commonmark/src/cmark/html.c           |  587 
 commonmark-0.5/commonmark/src/cmark/inlines.c        | 1973 
 commonmark-0.5/commonmark/src/cmark/inlines.h        |    6 
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 commonmark-0.5/commonmark/src/cmark/iterator.h       |   10 
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 commonmark-0.5/commonmark/src/cmark/main.c           |  327 
 commonmark-0.5/commonmark/src/cmark/man.c            |  486 
 commonmark-0.5/commonmark/src/cmark/node.c           | 1591 
 commonmark-0.5/commonmark/src/cmark/node.h           |   94 
 commonmark-0.5/commonmark/src/cmark/parser.h         |   22 
 commonmark-0.5/commonmark/src/cmark/references.c     |  202 
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 commonmark-0.5/commonmark/src/cmark/scanners.c       |42924 ++++++++++++-------
 commonmark-0.5/commonmark/src/cmark/scanners.h       |   47 
 commonmark-0.5/commonmark/src/cmark/utf8.c           |  682 
 commonmark-0.5/commonmark/src/cmark/utf8.h           |   12 
 commonmark-0.5/commonmark/src/cmark/xml.c            |  274 
 commonmark-0.5/commonmark/src/config.h               |   14 
 commonmark-0.5/commonmark/src/wrapper.c              |   13 
 47 files changed, 33105 insertions(+), 21034 deletions(-)

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Package spBayesSurv updated to version 1.0.3 with previous version 1.0.2 dated 2014-12-19

Title: Bayesian Modeling and Analysis of Spatially Correlated Survival Data
Description: Provides several Bayesian survival models for spatial/non-spatial survival data: marginal Bayesian Nonparametric models, marginal Bayesian proportional hazards models, generalized accelerated failure time frailty models, and standard semiparametric frailty models within the context of proportional hazards, proportional odds and accelerated failure time.
Author: Haiming Zhou <zhouh@niu.edu> and Tim Hanson <hansont@stat.sc.edu>
Maintainer: Haiming Zhou <zhouh@niu.edu>

Diff between spBayesSurv versions 1.0.2 dated 2014-12-19 and 1.0.3 dated 2015-09-01

 DESCRIPTION                    |   16 
 MD5                            |   63 +-
 NAMESPACE                      |   19 
 R/GetCurves.R                  |   31 -
 R/anovaDDP.R                   |   24 -
 R/frailtyGAFT.R                |  899 +++++++++++++++++++++++------------------
 R/indeptCoxph.R                |  319 +++++++-------
 R/spCopulaCoxph.R              |  392 ++++++++---------
 R/spCopulaDDP.R                |   33 -
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 man/anovaDDP.Rd                |  591 +++++++++++++-------------
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 man/frailtyGAFT.Rd             |  462 +++++++++------------
 man/indeptCoxph.Rd             |  514 +++++++++++------------
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 man/spCopulaCoxph.Rd           |  527 +++++++++++-------------
 man/spCopulaDDP.Rd             |   29 -
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 src/spSurv_AFT.cpp             |only
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 src/spSurv_Coxph_tools.cpp     |    8 
 src/spSurv_DDP_tools.cpp       |    4 
 src/spSurv_LDTFP_tools.cpp     |  190 ++------
 src/spSurv_LDTFP_tools.h       |    6 
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 src/spSurv_PH.cpp              |only
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 src/spSurv_anovaDDP.cpp        |    6 
 src/spSurv_common.h            |    1 
 src/spSurv_frailtyLDTFP.cpp    |    6 
 src/spSurv_indeptCoxph.cpp     |    4 
 src/spSurv_nonfrailtyLDTFP.cpp |    8 
 src/spSurv_spCopulaCoxph.cpp   |    4 
 src/spSurv_spCopulaDDP.cpp     |    4 
 37 files changed, 2137 insertions(+), 2198 deletions(-)

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Package sgeostat updated to version 1.0-26 with previous version 1.0-25 dated 2013-03-01

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 1.0-25 dated 2013-03-01 and 1.0-26 dated 2015-09-01

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 sgeostat-1.0-26/sgeostat/DESCRIPTION          |   21 ++++++------
 sgeostat-1.0-26/sgeostat/MD5                  |   44 +-------------------------
 sgeostat-1.0-26/sgeostat/README               |   42 ++++++++++++++++++++++++
 sgeostat-1.0-26/sgeostat/man/fit.variogram.Rd |    5 +-
 13 files changed, 59 insertions(+), 53 deletions(-)

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Package SemiCompRisks updated to version 2.2 with previous version 2.0 dated 2015-02-07

Title: Hierarchical Models for Parametric and Semi-Parametric Analyses of Semi-Competing Risks Data
Description: Parametric and semi-parametric analyses of semi-competing risks/univariate survival data.
Author: Kyu Ha Lee and Sebastien Haneuse
Maintainer: Kyu Ha Lee <klee@hsph.harvard.edu>

Diff between SemiCompRisks versions 2.0 dated 2015-02-07 and 2.2 dated 2015-09-01

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 SemiCompRisks-2.2/SemiCompRisks/src/BpeMvnCorScr.c             |   23 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeMvnCorScrSM.c           |   25 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeMvnCorScrSM_Updates.c   |   20 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeMvnCorScr_Updates.c     |   20 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeMvnCorSurv.c            |   10 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeMvnCorSurv_Updates.c    |    6 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeScr.c                   |    5 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeScrSM.c                 |    5 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeScrSM_Updates.c         |    6 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeScr_Updates.c           |    6 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeSurv.c                  |    8 
 SemiCompRisks-2.2/SemiCompRisks/src/BpeSurv_Updates.c          |    4 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibCorSurv.c             |    9 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibCorSurv_Updates.c     |    2 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibDpCorScr.c            |   34 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibDpCorScrSM.c          |   34 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibDpCorScrSM_Updates.c  |  244 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibDpCorScr_Updates.c    |  249 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibDpCorSurv.c           |   25 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibDpCorSurv_Updates.c   |    6 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibMvnCorScr.c           |   29 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibMvnCorScrSM.c         |   28 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibMvnCorScrSM_Updates.c |   20 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibMvnCorScr_Updates.c   |   20 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibScr.c                 |    6 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibScrSM.c               |    5 
 SemiCompRisks-2.2/SemiCompRisks/src/BweibSurv.c                |   49 
 SemiCompRisks-2.2/SemiCompRisks/src/Utilities.c                |  132 
 68 files changed, 8812 insertions(+), 4929 deletions(-)

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Package Rtts updated to version 0.3.2 with previous version 0.3.1 dated 2015-06-03

Title: Convert Text into Speech
Description: Convert text into speech (voice file in 'mp3' or 'wav' format) with APIs offered by Google Translate and ITRI TTS (Text-To-Speech service, Industrial Technology Research Institute, Taiwan. http://tts.itri.org.tw/). Two main functions are given corresponding these two APIs, tts_google() and tts_ITRI(). For tts_google(), only English is supported. For tts_ITRI(), English and Chinese (both traditional and simplified) are supported, and user can specify the speaker accent, speed and volume. Both functions require internet connection.
Author: Xiaodong Deng
Maintainer: Xiaodong Deng <xd_deng@hotmail.com>

Diff between Rtts versions 0.3.1 dated 2015-06-03 and 0.3.2 dated 2015-09-01

 DESCRIPTION            |    8 ++--
 MD5                    |   11 +++--
 NEWS                   |only
 R/tts_ITRI.R           |   25 +++++++++++--
 R/tts_ITRI_getID.R     |   90 ++++++++++++++++++++++++++++---------------------
 R/tts_ITRI_getStatus.R |    7 +++
 R/tts_ITRI_getURL.R    |    7 +++
 7 files changed, 97 insertions(+), 51 deletions(-)

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Package Rhpc updated to version 0.15-244 with previous version 0.15-176 dated 2015-06-25

Title: Permits *apply() Style Dispatch for 'HPC'
Description: Function of apply style using 'MPI' provides better 'HPC' environment on R. and this package supports long vector, can deal with slightly big data.
Author: Junji NAKANO <nakanoj@ism.ac.jp> and Ei-ji Nakama<nakama@com-one.com>
Maintainer: Ei-ji Nakama <nakama@com-one.com>

Diff between Rhpc versions 0.15-176 dated 2015-06-25 and 0.15-244 dated 2015-09-01

 ChangeLog                          |   15 ++
 DESCRIPTION                        |    8 -
 MD5                                |   32 +++---
 R/RhpcExt.R                        |  113 ++++++++++++++++++++++
 R/RhpcOp.R                         |   16 ---
 man/Rhpc-package.Rd                |   35 ++++++
 src/Makevars.win                   |    2 
 src/RhpcMPI.c                      |   43 --------
 src/RhpcMPIWorkerCall.h            |   56 ++--------
 src/RhpcMPIlapplyLB.h              |  111 +++++----------------
 src/RhpcMPIlapplyseq.h             |  112 ++++++---------------
 src/common/Rhpc.h                  |    2 
 src/worker/Rhpc.cmd.in             |   14 +-
 src/worker/RhpcWorker.c            |   10 -
 src/worker/RhpcWorker_LapplyLB.h   |  107 ++++----------------
 src/worker/RhpcWorker_Lapplyseq.h  |  189 ++++++++++++++-----------------------
 src/worker/RhpcWorker_WorkerCall.h |   52 ++--------
 17 files changed, 380 insertions(+), 537 deletions(-)

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Package rgeos updated to version 0.3-12 with previous version 0.3-11 dated 2015-05-29

Title: Interface to Geometry Engine - Open Source (GEOS)
Description: Interface to Geometry Engine - Open Source (GEOS) using the C API for topology operations on geometries. The GEOS library is external to the package, and, when installing the package from source, must be correctly installed first. Windows and Mac Intel OS X binaries are provided on CRAN.
Author: Roger Bivand [cre, aut], Colin Rundel [aut], Edzer Pebesma [ctb], Karl Ove Hufthammer [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>

Diff between rgeos versions 0.3-11 dated 2015-05-29 and 0.3-12 dated 2015-09-01

 ChangeLog                      |   86 +++++++++++++++++++++++++++++++++++++++++
 DESCRIPTION                    |   10 ++--
 MD5                            |   35 ++++++++--------
 NAMESPACE                      |    6 ++
 R/AAA.R                        |    8 +++
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 configure                      |   22 +++++-----
 configure.ac                   |    2 
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 man/pred-binary-gIntersects.Rd |    2 
 man/pred-binary-gRelate.Rd     |    2 
 man/pred-binary-gTouches.Rd    |    2 
 src/rgeos_R2geos.c             |   16 +++----
 src/rgeos_predicate_binary.c   |   16 ++++---
 19 files changed, 294 insertions(+), 71 deletions(-)

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Package multiplex updated to version 1.7 with previous version 1.6 dated 2015-05-19

Title: Analysis of Multiple Social Networks with Algebra
Description: Algebraic procedures for the analysis of multiple social networks are delivered with this package. Among other things, it is possible to create and manipulate multivariate network data with different formats, and there are effective ways available to treat multiple networks with routines that combine algebraic systems like the partially ordered semigroup or the semiring structure together with the relational bundles occurring in different types of multivariate network data sets. As well an algebraic approach for two-mode networks is made through Galois derivations between families of the pair of subsets.
Author: J. Antonio Rivero Ostoic
Maintainer: Antonio Rivero Ostoic <multiplex@post.com>

Diff between multiplex versions 1.6 dated 2015-05-19 and 1.7 dated 2015-09-01

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 69 files changed, 1353 insertions(+), 986 deletions(-)

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Package mp updated to version 0.3.1 with previous version 0.3 dated 2015-08-16

Title: Multidimensional Projection Techniques
Description: Multidimensional projection techniques are used to create two dimensional representations of multidimensional data sets.
Author: Francisco M. Fatore, Samuel G. Fadel
Maintainer: Francisco M. Fatore <fmfatore@gmail.com>

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Package morse updated to version 2.0.0 with previous version 1.0.2 dated 2014-07-03

Title: MOdelling Tools for Reproduction and Survival Data in Ecotoxicology
Description: Tools for ecotoxicologists and regulators dedicated to the mathematical and statistical modelling of bioassay data. They use advanced and innovative methods for a valuable quantitative environmental risk assessment.
Author: Marie Laure Delignette-Muller [aut, cre], Philippe Ruiz [aut, cre], Sandrine Charles [aut], Wandrille Duchemin [ctb], Christelle Lopes [ctb], Guillaume Kon-Kam-king [ctb], Philippe Veber [ctb]
Maintainer: Philippe Ruiz <philippe.ruiz@univ-lyon1.fr>

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Package MonoPoly updated to version 0.2-10 with previous version 0.2-8 dated 2013-11-03

Title: Functions to Fit Monotone Polynomials
Description: Functions for fitting monotone polynomials to data.
Author: Berwin A. Turlach [aut, cre], Kevin Murray [ctb]
Maintainer: Berwin A. Turlach <Berwin.Turlach@gmail.com>

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Package frailtypack updated to version 2.7.6.1 with previous version 2.7.5 dated 2015-03-06

Title: General Frailty Models: Shared, Joint and Nested Frailty Models with Prediction
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package: 1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied. 2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope). 3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects. 4) Joint frailty models in the context of joint modelling for recurrent events with terminal event for clustered data or not. 5) Joint General frailty models in the context of a joint modelling for recurrent events with terminal event data with two independent frailty terms. Prediction values are available. Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have a gamma distribution, but you can switch to a log-normal in shared and joint models. Now, you can also consider time-varying covariates effects in Cox, shared and joint models. The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey Mauguen, Agnieszka Krol-Listwon, Amadou Diakite and Alexandre Laurent
Maintainer: Virginie Rondeau <Virginie.Rondeau@isped.u-bordeaux2.fr>

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Package epifit updated to version 0.0.2 with previous version 0.0.1 dated 2015-08-21

Title: Flexible Modelling Functions for Epidemiological Data Analysis
Description: Provides flexible model fitting used in epidemiological data analysis by a unified model specification, along with some data manipulation functions. This package covers fitting of variety models including Cox regression models, linear regression models, Poisson regression models, logistic models and others whose likelihood is expressed in negative binomial, gamma and Weibull distributions.
Author: Kazutaka Doi [aut,cre], Kei Sakabe [ctb], Masataka Taruri [ctb]
Maintainer: Kazutaka Doi <kztkdi@gmail.com>

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Package eel updated to version 1.1 with previous version 1.0 dated 2015-08-19

Title: Extended Empirical Likelihood
Description: Compute the extended empirical log likelihood ratio (Tsao & Wu, 2014) for the mean and parameters defined by estimating equations.
Author: Fan Wu and Yu Zhang
Maintainer: Yu Zhang <yuz@uvic.ca>

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Package dtw updated to version 1.18-1 with previous version 1.17-1 dated 2013-12-11

Title: Dynamic Time Warping Algorithms
Description: A comprehensive implementation of dynamic time warping (DTW) algorithms in R. DTW computes the optimal (least cumulative distance) alignment between points of two time series. Common DTW variants covered include local (slope) and global (window) constraints, subsequence matches, arbitrary distance definitions, normalizations, minimum variance matching, and so on. Provides cumulative distances, alignments, specialized plot styles, etc.
Author: Toni Giorgino <toni.giorgino@gmail.com>,
Maintainer: Toni Giorgino <toni.giorgino@gmail.com>

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Package dplyr updated to version 0.4.3 with previous version 0.4.2 dated 2015-06-16

Title: A Grammar of Data Manipulation
Description: A fast, consistent tool for working with data frame like objects, both in memory and out of memory.
Author: Hadley Wickham [aut, cre], Romain Francois [aut], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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 dplyr-0.4.3/dplyr/man/tally.Rd                                         |    2 
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 dplyr-0.4.3/dplyr/src/distinct.cpp                                     |    4 
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 dplyr-0.4.3/dplyr/tests/testthat/test-cbind.R                          |   23 
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 dplyr-0.4.3/dplyr/tests/testthat/test-tbl-df.r                         |    9 
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Permanent link

Package CryptRndTest updated to version 1.1.5 with previous version 1.0.5 dated 2015-06-16

Title: Statistical Tests for Cryptographic Randomness
Description: Performs cryptographic randomness tests on a sequence of random integers or bits. Most of the included tests are not covered by standard test suites. In addition to the chi-square goodness-of-fit test, results of Anderson-Darling, Kolmogorov-Smirnov, and Jarque-Bera tests are also generated by some of the cryptographic randomness tests. Additionally, it includes functions for the calculation of greatest common divisor, the Stirling numbers of the second kind, critical value of the topological binary test, and base conversions from base 2 to 10 and vice versa.
Author: Haydar Demirhan
Maintainer: Haydar Demirhan <haydarde@hacettepe.edu.tr>

Diff between CryptRndTest versions 1.0.5 dated 2015-06-16 and 1.1.5 dated 2015-09-01

 DESCRIPTION                  |   14 -
 MD5                          |   62 +++++---
 NAMESPACE                    |   24 ++-
 R/GCD.R                      |   38 +----
 R/GCD.big.R                  |only
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 R/GCD.test.R                 |  111 ++++++++-------
 R/KSADCHRY.R                 |   32 +---
 R/KSADdga.R                  |   40 ++---
 R/Random.walk.D.R            |   27 +--
 R/Random.walk.G.R            |   27 +--
 R/Random.walk.Y.R            |   17 --
 R/Strlng2.R                  |    5 
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 R/adaptive.chi.square.R      |   77 ++++------
 R/birthday.spacings.R        |    5 
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 R/random.walk.tests.R        |   10 -
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 37 files changed, 805 insertions(+), 840 deletions(-)

More information about CryptRndTest at CRAN
Permanent link

Package cobs updated to version 1.3-1 with previous version 1.3-0 dated 2015-01-06

Title: COnstrained B-Splines (Sparse Matrix Based)
Description: Qualitatively Constrained (Regression) Smoothing Splines via Linear Programming and Sparse Matrices.
Author: Pin T. Ng <Pin.Ng@nau.edu> and Martin Maechler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>

Diff between cobs versions 1.3-0 dated 2015-01-06 and 1.3-1 dated 2015-09-01

 ChangeLog       |    5 +++++
 DESCRIPTION     |   16 ++++++++--------
 MD5             |   18 +++++++++---------
 NAMESPACE       |   17 +++++++++++------
 R/concaveRegr.R |    4 ++--
 R/l1Design.R    |    2 +-
 R/looDesign.R   |    6 +++---
 R/qbsks.R       |    2 +-
 R/scobs.R       |    2 +-
 man/exHe.Rd     |    5 +++--
 10 files changed, 44 insertions(+), 33 deletions(-)

More information about cobs at CRAN
Permanent link

Package classGraph updated to version 0.7-5 with previous version 0.7-4 dated 2010-08-11

Title: Construct Graphs of S4 Class Hierarchies
Description: Construct directed graphs of S4 class hierarchies and visualize them. In general, these graphs typically are DAGs (directed acyclic graphs), often simple trees in practice.
Author: Martin Maechler partly based on code from Robert Gentleman
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>

Diff between classGraph versions 0.7-4 dated 2010-08-11 and 0.7-5 dated 2015-09-01

 ChangeLog          |    5 +++++
 DESCRIPTION        |   17 +++++++++--------
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 NAMESPACE          |   27 ++++++++++++++++++++++-----
 R/S4classes-MM.R   |    4 ++--
 man/bGraph.Rd      |    2 ++
 man/classTree.Rd   |    3 +--
 man/mRagraph.Rd    |    2 +-
 man/numOutEdges.Rd |    2 +-
 man/plotRag.Rd     |    3 ++-
 tests/Matrix-ex.R  |    3 ++-
 11 files changed, 47 insertions(+), 21 deletions(-)

More information about classGraph at CRAN
Permanent link

Package CAMAN updated to version 0.73 with previous version 0.72 dated 2014-10-23

Title: Finite Mixture Models and Meta-Analysis Tools - Based on C.A.MAN
Description: Tools for the analysis of finite semiparametric mixtures. These are useful when data is heterogeneous, e.g. in pharmacokinetics or meta-analysis. The NPMLE and VEM algorithms (flexible support size) and EM algorithms (fixed support size) are provided for univariate and bivariate data.
Author: Peter Schlattmann <peter.schlattmann@mti.uni-jena.de>, Johannes Hoehne, Maryna Verba
Maintainer: Philipp Doebler <philipp.doebler@googlemail.com>

Diff between CAMAN versions 0.72 dated 2014-10-23 and 0.73 dated 2015-09-01

 DESCRIPTION         |   17 +++++++----------
 MD5                 |   12 ++++++------
 NAMESPACE           |   10 +++++++++-
 R/CAMAN.R           |    2 +-
 R/covariate_CAMAN.r |    1 +
 man/mixcov.Rd       |    6 +++---
 src/vemema_vem.cpp  |   12 ++++++------
 7 files changed, 33 insertions(+), 27 deletions(-)

More information about CAMAN at CRAN
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Package ash updated to version 1.0-15 with previous version 1.0-14 dated 2013-02-11

Title: David Scott's ASH Routines
Description: David Scott's ASH routines ported from S-PLUS to R.
Author: S original by David W. Scott R port by Albrecht Gebhardt <albrecht.gebhardt@aau.at> adopted to recent S-PLUS by Stephen Kaluzny <spk@insightful.com>
Maintainer: Albrecht Gebhardt <albrecht.gebhardt@aau.at>

Diff between ash versions 1.0-14 dated 2013-02-11 and 1.0-15 dated 2015-09-01

 ash-1.0-14/ash/ChangeLog   |only
 ash-1.0-15/ash/DESCRIPTION |   22 +++++++++++-----------
 ash-1.0-15/ash/MD5         |    3 +--
 3 files changed, 12 insertions(+), 13 deletions(-)

More information about ash at CRAN
Permanent link

Mon, 31 Aug 2015

Package quantreg updated to version 5.19 with previous version 5.18 dated 2015-08-16

Title: Quantile Regression
Description: Estimation and inference methods for models of conditional quantiles: Linear and nonlinear parametric and non-parametric (total variation penalized) models for conditional quantiles of a univariate response and several methods for handling censored survival data. Portfolio selection methods based on expected shortfall risk are also included.
Author: Roger Koenker [cre, aut], Stephen Portnoy [ctb] (Contributions to Censored QR code), Pin Tian Ng [ctb] (Contributions to Sparse QR code), Achim Zeileis [ctb] (Contributions to dynrq code essentially identical to his dynlm code), Philip Grosjean [ctb] (Contributions to nlrq code), Brian D Ripley [trl, ctb] (Initial (2001) R port from S (to my everlasting shame -- how could I have been so slow to adopt R!) and for numerous other suggestions and useful advice)
Maintainer: Roger Koenker <rkoenker@illinois.edu>

Diff between quantreg versions 5.18 dated 2015-08-16 and 5.19 dated 2015-08-31

 DESCRIPTION    |    6 +-
 MD5            |   12 ++---
 R/crq.R        |  120 +++++++++++++++++++++++++++++++++++++++++++++++++--------
 R/quantreg.R   |    2 
 inst/ChangeLog |   18 ++++++++
 man/crq.Rd     |    7 +++
 tests/rq.R     |    7 +--
 7 files changed, 143 insertions(+), 29 deletions(-)

More information about quantreg at CRAN
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Package markophylo updated to version 1.0.2 with previous version 1.0.1 dated 2015-07-07

Title: Markov Chain Models for Phylogenetic Trees
Description: Allows for fitting of maximum likelihood models using Markov chains on phylogenetic trees for analysis of discrete character data. Examples of such discrete character data include restriction sites, gene family presence/absence, intron presence/absence, and gene family size data. Hypothesis-driven user-specified substitution rate matrices can be estimated. Allows for biologically realistic models combining constrained substitution rate matrices, site rate variation, site partitioning, branch-specific rates, allowing for non-stationary prior root probabilities, correcting for sampling bias, etc.
Author: Utkarsh J. Dang and G. Brian Golding
Maintainer: Utkarsh J. Dang <udang@mcmaster.ca>

Diff between markophylo versions 1.0.1 dated 2015-07-07 and 1.0.2 dated 2015-08-31

 DESCRIPTION                 |   14 -
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 inst/doc/estimaterates.R    |   67 +++++++
 inst/doc/estimaterates.Rmd  |  117 +++++++++++--
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 man/estimaterates.Rd        |   72 ++++++--
 man/markophylo-package.Rd   |    4 
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 vignettes/estimaterates.Rmd |  117 +++++++++++--
 13 files changed, 825 insertions(+), 170 deletions(-)

More information about markophylo at CRAN
Permanent link

Package strvalidator updated to version 1.5.2 with previous version 1.5.0 dated 2015-06-09

Title: Process Control and Internal Validation of Forensic STR Kits
Description: An open source platform for validation and process control. Tools to analyse data from internal validation of forensic short tandem repeat (STR) kits are provided. The tools are developed to provide the necessary data to conform with guidelines for internal validation issued by the European Network of Forensic Science Institutes (ENFSI) DNA Working Group, and the Scientific Working Group on DNA Analysis Methods (SWGDAM). A front-end graphical user interface is provided. More information about each function can be found in the respective help documentation.
Author: Oskar Hansson
Maintainer: Oskar Hansson <oskar.hansson@fhi.no>

Diff between strvalidator versions 1.5.0 dated 2015-06-09 and 1.5.2 dated 2015-08-31

 DESCRIPTION                      |   10 
 MD5                              |  392 +++++++++++++++++++--------------------
 NAMESPACE                        |   46 ++++
 NEWS                             |   34 +++
 R/addColor.r                     |    3 
 R/addData_gui.r                  |    7 
 R/addDye_gui.r                   |    5 
 R/addMarker.r                    |    4 
 R/addMarker_gui.r                |    5 
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 R/blockAT.r                      |   11 -
 R/calculateAT.r                  |  146 ++++++++++----
 R/calculateAT6.r                 |   49 +++-
 R/calculateAT6_gui.r             |  110 ++--------
 R/calculateAT_gui.r              |    9 
 R/calculateBalance.r             |    6 
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 R/plotDropout_gui.r              |   11 -
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 README.md                        |    9 
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 man/export.Rd                    |    2 
 man/export_gui.Rd                |    2 
 man/filterProfile.Rd             |    2 
 man/filterProfile_gui.Rd         |    2 
 man/generateEPG.Rd               |    2 
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 man/import.Rd                    |    2 
 man/import_gui.Rd                |    2 
 man/listObjects.Rd               |   10 
 man/makeKit_gui.Rd               |    2 
 man/modelDropout_gui.Rd          |   87 ++++++--
 man/plotAT_gui.Rd                |    2 
 man/plotBalance_gui.Rd           |    2 
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 man/plotDistribution_gui.Rd      |    2 
 man/plotDropout_gui.Rd           |    2 
 man/plotKit_gui.Rd               |    2 
 man/plotPeaks_gui.Rd             |    2 
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 man/plotResultType_gui.Rd        |    2 
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 man/readBinsFile.Rd              |    2 
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 man/sortMarker.Rd                |    2 
 man/strValidator-package.Rd      |    2 
 man/strvalidator.Rd              |    4 
 man/tableBalance.Rd              |    2 
 man/tableBalance_gui.Rd          |    2 
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 197 files changed, 1300 insertions(+), 807 deletions(-)

More information about strvalidator at CRAN
Permanent link

Package ridigbio updated to version 0.3.1 with previous version 0.3 dated 2015-07-14

Title: Interface to the iDigBio Data API
Description: An interface to iDigBio's search API that allows downloading specimen records. Searches are returned as a data.frame. Other functions such as the metadata end points return lists of information. iDigBio is a US project focused on digitizing and serving museum specimen collections on the web. See <https://www.idigbio.org> for information on iDigBio.
Author: Francois Michonneau [aut, cph], Matthew Collins [aut, cre], Scott Chamberlain [ctb]
Maintainer: Matthew Collins <mcollins@acis.ufl.edu>

Diff between ridigbio versions 0.3 dated 2015-07-14 and 0.3.1 dated 2015-08-31

 DESCRIPTION                             |    8 +++---
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More information about ridigbio at CRAN
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Package MixAll updated to version 1.1.1 with previous version 1.0.2 dated 2015-04-04

Title: Clustering using Mixture Models
Description: Algorithms and methods for estimating parametric mixture models with missing data.
Author: Serge Iovleff [aut, cre]
Maintainer: Serge Iovleff <Serge.Iovleff@stkpp.org>

Diff between MixAll versions 1.0.2 dated 2015-04-04 and 1.1.1 dated 2015-08-31

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 NAMESPACE                                 |   11 
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More information about MixAll at CRAN
Permanent link

Package copBasic updated to version 2.0.1 with previous version 1.7.1 dated 2015-01-30

Title: General Bivariate Copula Theory and Many Utility Functions
Description: Extensive functions for bivariate copula (bicopula) computations and related mathematical operations oriented around the oft cited and fundamental bicopula theory described by Nelsen (2006), Joe (2014), and other selected works. The lower, upper, product, and a few select other bicopula are implemented. Individual copula support is deliberately limited to keep the package focused on an educational API to major bicopula theory. Expressions for an arbitrary bicopula include the diagonal, survival copula, the dual of a copula, co-copula, and numerical bicopula density. Level curves (sets) as well as horizontal and vertical sections and derivatives of such sections also are supported. The numerical derivatives of a bicopula are provided as well as inverses; simulation by the conditional distribution method thus are supported. Composition, convex combination, and products of bicopula are provided. Copula properties include Kendall Function and L-moments thereof, Kendall Tau, Spearman Rho and Footrule, Gini Gamma, Blomqvist Beta, Hoeffding Phi, Schweizer-Wolff Sigma, tail dependency and order, and skewness. Evaluators of positively/negatively quadrant dependency, left-tail decreasing, and right-tail increasing are available. Kullback-Leibler divergence, Vuong's procedure, and L-comoments for copula inference are available. Quantile and median regressions for V with respect to U and U with respect to V are available. Empirical copulas (EC) are supported.
Author: William Asquith
Maintainer: William Asquith <william.asquith@ttu.edu>

Diff between copBasic versions 1.7.1 dated 2015-01-30 and 2.0.1 dated 2015-08-31

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More information about copBasic at CRAN
Permanent link

Package BDgraph updated to version 2.22 with previous version 2.21 dated 2015-08-23

Title: Bayesian Graph Selection Based on Birth-Death MCMC Approach
Description: Bayesian inference for structure learning in undirected graphical models. The main target is to uncover complicated patterns in multivariate data wherein either continuous or discrete variables.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi <a.mohammadi@rug.nl>

Diff between BDgraph versions 2.21 dated 2015-08-23 and 2.22 dated 2015-08-31

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More information about BDgraph at CRAN
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Package apt updated to version 2.4 with previous version 2.3 dated 2014-11-27

Title: Asymmetric Price Transmission
Description: Asymmetric price transmission between two time series is assessed. Several functions are available for linear and nonlinear threshold cointegration, and furthermore, symmetric and asymmetric error correction model. A graphical user interface is also included for major functions included in the package, so users can also use these functions in a more intuitive way.
Author: Changyou Sun <cs258@msstate.edu>
Maintainer: Changyou Sun <cs258@msstate.edu>

Diff between apt versions 2.3 dated 2014-11-27 and 2.4 dated 2015-08-31

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Package RGA updated to version 0.2.4 with previous version 0.2.3 dated 2015-07-27

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>

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More information about RGA at CRAN
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Package PrevMap updated to version 1.2.2 with previous version 1.2.1 dated 2015-08-13

Title: Geostatistical Modelling of Spatially Referenced Prevalence Data
Description: It provides functions for both likelihood-based and Bayesian analysis of spatially referenced prevalence data, and is also an extension of the 'geoR' package.
Author: Emanuele Giorgi, Peter J. Diggle
Maintainer: Emanuele Giorgi <e.giorgi@lancaster.ac.uk>

Diff between PrevMap versions 1.2.1 dated 2015-08-13 and 1.2.2 dated 2015-08-31

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Package hglm updated to version 2.1-1 with previous version 2.1-0 dated 2015-05-19

Title: Hierarchical Generalized Linear Models
Description: Procedures for fitting hierarchical generalized linear models (HGLM). It can be used for linear mixed models and generalized linear mixed models with random effects for a variety of links and a variety of distributions for both the outcomes and the random effects. Fixed effects can also be fitted in the dispersion part of the mean model.
Author: Moudud Alam, Lars Ronnegard, Xia Shen
Maintainer: Xia Shen <xia.shen@ki.se>

Diff between hglm versions 2.1-0 dated 2015-05-19 and 2.1-1 dated 2015-08-31

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Package ChainLadder updated to version 0.2.2 with previous version 0.2.1 dated 2015-07-11

Title: Statistical Methods and Models for Claims Reserving in General Insurance
Description: Various statistical methods and models which are typically used for the estimation of outstanding claims reserves in general insurance, including those to estimate the claims development result as required under Solvency II.
Author: Markus Gesmann [aut, cre], Daniel Murphy [aut], Yanwei (Wayne) Zhang [aut], Alessandro Carrato [aut], Giuseppe Crupi [aut], Christophe Dutang [ctb], Arnaud Lacoume [ctb], Arthur Charpentier [ctb], Mario Wuthrich [aut], Fabio Concina [aut]
Maintainer: Markus Gesmann <markus.gesmann@googlemail.com>

Diff between ChainLadder versions 0.2.1 dated 2015-07-11 and 0.2.2 dated 2015-08-31

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Package ZRA updated to version 0.2 with previous version 0.1 dated 2015-08-23

Title: Dynamic Plots for Time Series Forecasting
Description: Combines a forecast of a time series, using the function forecast(), with the dynamic plots from dygraphs.
Author: David Beiner
Maintainer: David Beiner <zra.r.package@gmail.com>

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Package urltools updated to version 1.2.1 with previous version 1.2.0 dated 2015-06-19

Title: Vectorised Tools for URL Handling and Parsing
Description: A toolkit for handling URLs that so far includes functions for URL encoding and decoding, parsing, and parameter extraction. All functions are designed to be both fast and entirely vectorised. It is intended to be useful for people dealing with web-related datasets, such as server-side logs, although may be useful for other situations involving large sets of URLs.
Author: Oliver Keyes [aut, cre], Jay Jacobs [aut, cre], Mark Greenaway [ctb], Bob Rudis [ctb]
Maintainer: Oliver Keyes <ironholds@gmail.com>

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Package soc.ca updated to version 0.7.2 with previous version 0.7.1 dated 2014-02-08

Title: Specific Correspondence Analysis for the Social Sciences
Description: Specific and class specific multiple correspondence analysis on survey-like data. Soc.ca is optimized to the needs of the social scientist and presents easily interpretable results in near publication ready quality.
Author: Anton Grau Larsen, with contributions from Christoph Ellersgaard and Stefan Andrade
Maintainer: Anton Grau Larsen <alar@soc.ku.dk>

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Package simPop updated to version 0.2.12 with previous version 0.2.9 dated 2015-01-26

Title: Simulation of Synthetic Populations for Survey Data Considering Auxiliary Information
Description: Tools and methods to simulate populations for surveys based on auxiliary data. The tools include model-based methods, calibration and combinatorial optimization algorithms. The package was developed with support of the International Household Survey Network, DFID Trust Fund TF011722.
Author: Bernhard Meindl, Matthias Templ, Andreas Alfons, Alexander Kowarik, and with contributions from Mathieu Ribatet
Maintainer: Matthias Templ<matthias.templ@gmail.com>

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Package ms.sev updated to version 1.0.1 with previous version 1.0 dated 2015-08-26

Title: Package for Calculation of ARMSS, Local MSSS and Global MSSS
Description: Calculates ARMSS, age related multiple sclerosis severity score, and both local and global msss.
Author: Helga Westerlind, Ali Manouchehrinia
Maintainer: Helga Westerlind <Helga.Westerlind@ki.se>

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Package gMCP updated to version 0.8-10 with previous version 0.8-9 dated 2015-08-10

Title: Graph Based Multiple Comparison Procedures
Description: Functions and a graphical user interface for graphical described multiple test procedures.
Author: Kornelius Rohmeyer [aut, cre], Florian Klinglmueller [aut]
Maintainer: Kornelius Rohmeyer <rohmeyer@small-projects.de>

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Package erer updated to version 2.4 with previous version 2.3 dated 2014-11-27

Title: Empirical Research in Economics with R
Description: Functions, datasets, and sample codes related to the book of 'Empirical Research in Economics: Growing up with R' by Dr. Changyou Sun are included. Marginal effects for binary or ordered choice models can be calculated. Static and dynamic Almost Ideal Demand System (AIDS) models can be estimated. A typical event analysis in finance can be conducted with several functions included.
Author: Changyou Sun <cs258@msstate.edu>
Maintainer: Changyou Sun <cs258@msstate.edu>

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Package dawai updated to version 1.2.1 with previous version 1.2 dated 2015-08-13

Title: Discriminant Analysis with Additional Information
Description: In applications it is usual that some additional information is available. This package dawai (an acronym for Discriminant Analysis With Additional Information) performs linear and quadratic discriminant analysis with additional information expressed as inequality restrictions among the populations means. It also computes several estimations of the true error rate.
Author: David Conde, Miguel A. Fernandez, Bonifacio Salvador
Maintainer: David Conde <dconde@eio.uva.es>

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Package clusterCrit updated to version 1.2.6 with previous version 1.2.5 dated 2015-06-04

Title: Clustering Indices
Description: Compute clustering validation indices.
Author: Bernard Desgraupes (University of Paris Ouest - Lab Modal'X)
Maintainer: Bernard Desgraupes <bernard.desgraupes@u-paris10.fr>

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 clusterCrit-1.2.6/clusterCrit/inst/unitTests/intCriteria/runit_log_ss_ratio.R      |    9 
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 clusterCrit-1.2.6/clusterCrit/inst/unitTests/intCriteria/runit_xie_beni.R          |    9 
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More information about clusterCrit at CRAN
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Sun, 30 Aug 2015

Package rmarkdown updated to version 0.8 with previous version 0.7 dated 2015-06-13

Title: Dynamic Documents for R
Description: Convert R Markdown documents into a variety of formats.
Author: JJ Allaire [aut, cre], Joe Cheng [aut], Yihui Xie [aut], Jonathan McPherson [aut], Winston Chang [aut], Jeff Allen [aut], Hadley Wickham [aut], Aron Atkins [aut], Rob Hyndman [aut], RStudio, Inc. [cph], jQuery Foundation [cph] (jQuery library), jQuery contributors [ctb, cph] (jQuery library; authors listed in inst/rmd/h/jquery-AUTHORS.txt), Mark Otto [ctb] (Bootstrap library), Jacob Thornton [ctb] (Bootstrap library), Bootstrap contributors [ctb] (Bootstrap library), Twitter, Inc [cph] (Bootstrap library), Alexander Farkas [ctb, cph] (html5shiv library), Scott Jehl [ctb, cph] (Respond.js library), Ivan Sagalaev [ctb, cph] (highlight.js library), John MacFarlane [ctb, cph] (Pandoc templates), Google, Inc. [ctb, cph] (ioslides library), Dave Raggett [ctb] (slidy library), W3C [cph] (slidy library)
Maintainer: JJ Allaire <jj@rstudio.com>

Diff between rmarkdown versions 0.7 dated 2015-06-13 and 0.8 dated 2015-08-30

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 NAMESPACE                                                          |    1 
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 R/pandoc.R                                                         |    4 
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 R/relative_to.R                                                    |    2 
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 R/util.R                                                           |    2 
 R/word_document.R                                                  |    4 
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Package npmv updated to version 2.3.0 with previous version 2.2 dated 2015-02-25

Title: Nonparametric Comparison of Multivariate Samples
Description: Performs analysis of one-way multivariate data, for small samples using Nonparametric techniques. Using approximations for ANOVA Type, Wilks' Lambda, Lawley Hotelling, and Bartlett Nanda Pillai Test statics, the package compares the multivariate distributions for a single explanatory variable. The comparison is also performed using a permutation test for each of the four test statistics. The package also performs an all-subsets algorithm regarding variables and regarding factor levels.
Author: Woodrow Burchett and Amanda Ellis
Maintainer: Amanda Ellis <arelli4@uky.edu>

Diff between npmv versions 2.2 dated 2015-02-25 and 2.3.0 dated 2015-08-30

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 man/npmv-package.Rd |    4 ++--
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Package RcppGSL updated to version 0.3.0 with previous version 0.2.5 dated 2015-07-07

Title: 'Rcpp' Integration for 'GNU GSL' Vectors and Matrices
Description: 'Rcpp' integration for 'GNU GSL' vectors and matrices The 'GNU Scientific Library' (or '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: Dirk Eddelbuettel and Romain Francois
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RcppGSL versions 0.2.5 dated 2015-07-07 and 0.3.0 dated 2015-08-30

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