Fri, 10 Apr 2015

Package msSurv updated to version 1.2-2 with previous version 1.2-1 dated 2015-03-02

Title: Nonparametric Estimation for Multistate Models
Description: Nonparametric estimation for right censored, left truncated time to event data in multistate models.
Author: Nicole Ferguson , Somnath Datta , Guy Brock
Maintainer: Guy Brock

Diff between msSurv versions 1.2-1 dated 2015-03-02 and 1.2-2 dated 2015-04-10

 ChangeLog           |    9 +++++++++
 DESCRIPTION         |    8 ++++----
 MD5                 |    8 ++++----
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 5 files changed, 34 insertions(+), 21 deletions(-)

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New package mvmesh with initial version 1.0
Package: mvmesh
Type: Package
Title: Multivariate Meshes and Histograms in Arbitrary Dimensions
Version: 1.0
Date: 2015-04-10
Author: John P. Nolan
Maintainer: John P. Nolan
Depends: R (>= 3.0), rcdd, rgl
Description: Define, manipulate and plot meshes on simplices, spheres, balls, and rectangles for use in multivariate statistics. Directional and other multivariate histograms are provided.
License: GPL (>= 3)
Packaged: 2015-04-10 18:22:55 UTC; jpnolan
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-04-11 01:19:14

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Package mma updated to version 1.0-1 with previous version 1.0-0 dated 2015-02-26

Title: Multiple Mediation Analysis
Description: Used for general multiple mediation analysis. The analysis method is described in Yu et al. 2014, "General Multiple Mediation Analysis With an Application to Explore Racial Disparity in Breast Cancer Survival", published on Journal of Biometrics & Biostatistics, 5(2):189.
Author: Qingzhao Yu
Maintainer: Qingzhao Yu

Diff between mma versions 1.0-0 dated 2015-02-26 and 1.0-1 dated 2015-04-10

 DESCRIPTION |   10 +++++-----
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New package VIFCP with initial version 1.0
Package: VIFCP
Version: 1.0
Title: Detecting Change-Points via VIFCP Method
Author: Xiaoping shi, Xiangsheng Wang, Dongwei Wei, Yuehua Wu
Maintainer: Dongwei Wei
Depends: R (>= 3.1.3)
License: LGPL-3
Description: Contains a function to support the paper 'A sequential multiple change-point detection procedure via VIF regression' (in print).
NeedsCompilation: yes
Repository: CRAN
Packaged: 2015-04-10 18:09:09 UTC; Dongwei
Date/Publication: 2015-04-11 00:17:23

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Package soilphysics updated to version 2.2 with previous version 2.1 dated 2015-03-11

Title: Soil Physical Analysis
Description: Basic and model-based soil physical analyses.
Author: Anderson Rodrigo da Silva, Renato Paiva de Lima
Maintainer: Anderson Rodrigo da Silva

Diff between soilphysics versions 2.1 dated 2015-03-11 and 2.2 dated 2015-04-10

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Package rivervis updated to version 0.45.0 with previous version 0.39.4 dated 2014-06-18

Title: River Visualisation Tool
Description: This R package is a flexible and efficient tool to visualise both quantitative and qualitative data from river surveys. It can be used to produce diagrams with the topological structure of the river network.
Author: Feng Mao , Yichuan Shi , and Keith Richards
Maintainer: Feng Mao

Diff between rivervis versions 0.39.4 dated 2014-06-18 and 0.45.0 dated 2015-04-10

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New package MIIVsem with initial version 0.1
Package: MIIVsem
Title: Two Stage Least Squares with Model Implied Instremental Search
Version: 0.1
Author: Zachary Fisher and Ken Bollen.
Maintainer: Zachary Fisher
Description: Functions for estimating structural equation models using a model-implied instrumental variable (MIIV) search and two stage least squares (2SLS) estimator (MIIV-2SLS).
Depends: R (>= 3.1.2), lavaan
License: GPL-2
LazyData: true
Packaged: 2015-04-10 15:27:49 UTC; macuser
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-04-11 00:51:17

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Package lvm4net updated to version 0.2 with previous version 0.1 dated 2014-07-04

Title: Latent Variable Models for Networks
Description: Latent variable models for network data using fast inferential procedures.
Author: Isabella Gollini [aut, cre]
Maintainer: Isabella Gollini

Diff between lvm4net versions 0.1 dated 2014-07-04 and 0.2 dated 2015-04-10

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Package jsonlite updated to version 0.9.16 with previous version 0.9.15 dated 2015-03-25

Title: A Robust, High Performance JSON Parser and Generator for R
Description: A fast JSON parser and generator optimized for statistical data and the web. Started out as a fork of RJSONIO, but has been completely rewritten in recent versions. The package offers flexible, robust, high performance tools for working with JSON in R and is particularly powerful for building pipelines and interacting with web APIs. The implementation is based on the mapping described in the vignette of the package (Ooms, 2014). In addition to drop-in replacements for toJSON and fromJSON, jsonlite contains functions to stream, validate, and prettify JSON data. The unit tests included with the package verify that all edge cases are encoded and decoded consistently for use with dynamic data in systems and applications.
Author: Jeroen Ooms, Duncan Temple Lang, Lloyd Hilaiel
Maintainer: Jeroen Ooms

Diff between jsonlite versions 0.9.15 dated 2015-03-25 and 0.9.16 dated 2015-04-10

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Package discreteRV updated to version 1.2 with previous version 1.1.4 dated 2015-02-03

Title: Create and Manipulate Discrete Random Variables
Description: Create, manipulate, transform, and simulate from discrete random variables. The syntax is modeled after that which is used in mathematical statistics and probability courses, but with powerful support more advanced probability calculations. This includes the creation of joint random variables, and the derivation and manipulation of their conditional and marginal distributions.
Author: Andreas Buja [aut], Eric Hare [aut, cre], Heike Hofmann [aut]
Maintainer: Eric Hare

Diff between discreteRV versions 1.1.4 dated 2015-02-03 and 1.2 dated 2015-04-10

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Package bayesPop updated to version 5.3-4 with previous version 5.2-2 dated 2015-02-05

Title: Probabilistic Population Projection
Description: Generating population projections for all countries of the world using several probabilistic components, such as total fertility rate (TFR) and life expectancy.
Author: Hana Sevcikova, Adrian Raftery
Maintainer: Hana Sevcikova

Diff between bayesPop versions 5.2-2 dated 2015-02-05 and 5.3-4 dated 2015-04-10

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Package sdcTable updated to version 0.18.0 with previous version 0.17.1 dated 2014-06-23

Title: Methods for Statistical Disclosure Control in Tabular Data
Description: Methods for statistical disclosure control in tabular data such as primary and secondary cell suppression are covered in this package.
Author: Bernhard Meindl
Maintainer: Bernhard Meindl

Diff between sdcTable versions 0.17.1 dated 2014-06-23 and 0.18.0 dated 2015-04-10

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Package gtools updated to version 3.4.2 with previous version 3.4.1 dated 2014-05-28

Title: Various R Programming Tools
Description: Functions to assist in R programming, including: - assist in developing, updating, and maintaining R and R packages ('ask', 'checkRVersion', 'getDependencies', 'keywords', 'scat'), - calculate the logit and inverse logit transformations ('logit', 'inv.logit'), - test if a value is missing, empty or contains only NA and NULL values ('invalid'), - manipulate R's .Last function ('addLast'), - define macros ('defmacro'), - detect odd and even integers ('odd', 'even'), - convert strings containing non-ASCII characters (like single quotes) to plain ASCII ('ASCIIfy'), - perform a binary search ('binseach'), - sort strings containing both numeric and character components ('mixedsort'), - create a factor variable from the quantiles of a continuous variable ('quantcut'), - enumerate permutations and combinations ('combinations', 'permutation'), - calculate and convert between fold-change and log-ratio ('foldchange', 'logratio2foldchange', 'foldchange2logratio'), - calculate probabilities and generate random numbers from Dirichlet distributions ('rdirichlet', 'ddirichlet'), - apply a function over adjacent subsets of a vector ('running'), - Modify the TCP\_NODELAY ('de-Nagle') flag for socket objects, - Efficient 'rbind' of data frames, even if the column names don't match ('smartbind'), - Generate significance stars from p-values ('stars.pval').
Author: Gregory R. Warnes, Ben Bolker, and Thomas Lumley
Maintainer: Gregory R. Warnes

Diff between gtools versions 3.4.1 dated 2014-05-28 and 3.4.2 dated 2015-04-10

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Package cocor updated to version 1.1-1 with previous version 1.1-0 dated 2015-01-07

Title: Comparing Correlations
Description: Statistical tests for the comparison between two correlations based on either independent or dependent groups. Dependent correlations can either be overlapping or nonoverlapping. A web interface is available at http://comparingcorrelations.org. A plugin for 'RKWard' is included. 'RKWard' can be obtained freely from https://rkward.kde.org.
Author: Birk Diedenhofen [aut, cre]
Maintainer: Birk Diedenhofen

Diff between cocor versions 1.1-0 dated 2015-01-07 and 1.1-1 dated 2015-04-10

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 R/cocor-package.R                  |    6 +++---
 R/cocor.dep.groups.nonoverlap.r    |    4 +++-
 R/cocor.dep.groups.overlap.r       |    4 +++-
 R/cocor.indep.groups.r             |    4 +++-
 R/cocor.r                          |   14 ++++++++++++++
 inst/CITATION                      |   22 ++++++++++------------
 inst/rkward/cocor.pluginmap        |    4 ++--
 inst/tests/test.r                  |    5 +++++
 man/cocor-package.Rd               |    6 +++---
 man/cocor.dep.groups.nonoverlap.Rd |    2 +-
 man/cocor.dep.groups.overlap.Rd    |    2 +-
 man/cocor.indep.groups.Rd          |    2 +-
 16 files changed, 85 insertions(+), 47 deletions(-)

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New package data.tree with initial version 0.1.6
Package: data.tree
Type: Package
Title: Hierarchical Data Structures
Version: 0.1.6
Date: 2015-04-10
Author: Christoph Glur
Maintainer: Christoph Glur
VignetteBuilder: knitr
Imports: R6
Suggests: testthat, magrittr, knitr
Description: Create tree structures from hierarchical data, and use the utility methods to traverse the tree in various orders. Aggregate, print, convert to and from data.frame, and apply functions to your tree data. Useful for decision trees, machine learning, finance, and many other applications.
License: GPL (>= 2)
URL: http://github.com/gluc/data.tree
BugReports: http://github.com/gluc/data.tree/issues
Depends: R (>= 3.0)
Packaged: 2015-04-10 11:41:56 UTC; gluc
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-04-10 15:06:00

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New package BayesLCA with initial version 1.7
Package: BayesLCA
Type: Package
Title: Bayesian Latent Class Analysis
Version: 1.7
Date: 2015-04-10
Depends: e1071, coda
Authors@R: c( person( "Arthur", "White", email = "arwhite@tcd.ie", role = c( "aut", "cre" ), comment = "Previous email address: arthur.white@ucdconnect.ie" ), person( "Thomas Brendan", "Murphy", email = "brendan.murphy@ucd.ie", role = c( "aut", "ths" ) ) )
Description: Bayesian Latent Class Analysis using several different methods.
License: GPL (>= 2)
Imports: fields, nlme, MCMCpack
Packaged: 2015-04-10 12:35:07 UTC; arthur
Author: Arthur White [aut, cre] (Previous email address: arthur.white@ucdconnect.ie), Thomas Brendan Murphy [aut, ths]
Maintainer: Arthur White
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-04-10 14:41:32

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New package seroincidence with initial version 1.0.3
Package: seroincidence
Type: Package
Title: Estimating Infection Rates from Serological Data
Version: 1.0.3
Date: 2015-04-10
Authors@R: c(person(given = "Peter", family = "Teunis", email = "peter.teunis@rivm.nl", role = c("aut"), comment = "Author of the method and original code"), person(given = "Daniel", family = "Lewandowski", email = "daniel@nextpagesoft.net", role = c("com", "ctb"), comment = "Creator of the R package"), person(given = "Chantal", family = "Quinten", email = "seroincidence@ecdc.europa.eu", role = c("ctb", "cre"), comment = "Project manager and the package maintainer"))
Maintainer: Chantal Quinten
Description: Translates antibody levels measured in a (cross-sectional) population sample into an estimate of the frequency with which seroconversions (infections) occur in the sampled population.
License: GPL-3
Suggests: testthat, knitr
VignetteBuilder: knitr
LazyData: true
Encoding: UTF-8
URL: http://www.ecdc.europa.eu/en/data-tools/seroincidence-calculator-tool/Pages/default.aspx
NeedsCompilation: no
Packaged: 2015-04-10 07:45:41 UTC; daniel
Author: Peter Teunis [aut] (Author of the method and original code), Daniel Lewandowski [com, ctb] (Creator of the R package), Chantal Quinten [ctb, cre] (Project manager and the package maintainer)
Repository: CRAN
Date/Publication: 2015-04-10 12:16:55

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New package rkafkajars with initial version 1.0
Package: rkafkajars
Type: Package
Title: External Jars Required for Package 'rkafka'
Version: 1.0
Date: 2015-04-10
Author: Shruti Gupta [aut,cre], Coda Hale and Yammer Inc.[ctb,cph],Sun Microsystems Inc.[ctb,cph],Marc Prud'hommeaux[ctb,cph],Paul Holser[ctb],Junit[ctb,cph],The Apache Software Foundation [ctb,cph],Stefan Groschupf[ctb,cph],Taro L.Saito[ctb],EPFL Typesafe Inc.[ctb,cph],QOS.ch[ctb,cph]
Maintainer: Shruti Gupta
Description: The 'rkafkajars' package collects all the external jars required for the 'rkafka' package.
Depends: rJava
Imports: RUnit
SystemRequirements: Oracle Java 7
Copyright: See file COPYRIGHTS
License: Apache License 2.0 | file LICENSE
Packaged: 2015-04-10 09:17:20 UTC; shrutigupta34
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-04-10 12:16:52

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New package bentcableAR with initial version 0.3.0
Package: bentcableAR
Type: Package
Title: Bent-Cable Regression for Independent Data or Autoregressive Time Series
Version: 0.3.0
Date: 2015-04-10
Author: Grace Chiu , CSIRO, CSIT Bldg, ANU Campus, Acton, ACT 2601, Australia
Maintainer: Grace Chiu
Description: Included are two main interfaces for fitting and diagnosing bent-cable regressions for autoregressive time-series data or independent data (time series or otherwise): 'bentcable.ar()' and 'bentcable.dev.plot()'. Some components in the package can also be used as stand-alone functions. The bent cable (linear-quadratic-linear) generalizes the broken stick (linear-linear), which is also handled by this package. Version 0.2 corrects a glitch in the computation of confidence intervals for the CTP. References that were updated from Versions 0.2.1 and 0.2.2 appear in Version 0.2.3 and up. Version 0.3.0 improves robustness of the error-message producing mechanism. It is the author's intention to distribute any future updates via GitHub.
License: GPL (>= 3)
Packaged: 2015-04-10 07:32:33 UTC; gchiu
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-04-10 12:16:48

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Package SemiMarkov updated to version 1.4.1 with previous version 1.4 dated 2014-10-05

Title: Multi-States Semi-Markov Models
Description: Functions for fitting multi-state semi-Markov models to longitudinal data. A parametric maximum likelihood estimation method adapted to deal with Exponential, Weibull and Exponentiated Weibull distributions is considered. Right-censoring can be taken into account and both constant and time-varying covariates can be included using a Cox proportional model.
Author: Agnieszka Listwon-Krol, Philippe Saint-Pierre
Maintainer: Agnieszka Listwon-Krol

Diff between SemiMarkov versions 1.4 dated 2014-10-05 and 1.4.1 dated 2015-04-10

 DESCRIPTION        |   11 -
 MD5                |   10 -
 R/SemiMarkov.r     |  325 +++++++++++------------------------------------------
 man/hazard.Rd      |   45 +++----
 man/plot.hazard.Rd |   31 ++---
 man/semiMarkov.Rd  |   57 ++++-----
 6 files changed, 141 insertions(+), 338 deletions(-)

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New package qrng with initial version 0.0-1
Package: qrng
Version: 0.0-1
Encoding: UTF-8
Title: (Randomized) Quasi-Random Number Generators
Description: Functionality for generating (randomized) quasi-random numbers in high dimensions.
Authors@R: c(person(given = "Marius", family = "Hofert", role = c("aut", "cre"), email = "marius.hofert@uwaterloo.ca"), person(given = "Christiane", family = "Lemieux", role = "aut", email = "clemieux@uwaterloo.ca"))
Author: Marius Hofert [aut, cre], Christiane Lemieux [aut]
Maintainer: Marius Hofert
Depends: R (>= 3.0.0)
Imports:
Suggests:
Enhances:
License: GPL-2 | GPL-3
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-04-10 10:51:22
Packaged: 2015-04-10 04:47:58 UTC; mhofert

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Package nnlasso updated to version 0.2 with previous version 0.1 dated 2015-03-16

Title: Non-Negative Lasso and Elastic Net Penalized Generalized Linear Models
Description: Estimates of coefficients of lasso penalized linear regression and generalized linear models subject to non-negativity constraints on the parameters using multiplicative iterative algorithm. Entire regularization path for a sequence of lambda values can be obtained. Functions are available for creating plots of regularization path, cross validation and estimating coefficients at a given lambda value. There is also provision for obtaining standard error of coefficient estimates.
Author: B N Mandal and Jun Ma
Maintainer: B N Mandal

Diff between nnlasso versions 0.1 dated 2015-03-16 and 0.2 dated 2015-04-10

 DESCRIPTION                |    8 ++++----
 MD5                        |   24 ++++++++++++------------
 man/coef.nnlasso.Rd        |    1 -
 man/cv.nnlasso.Rd          |    1 -
 man/cv.nnlasso.binomial.Rd |    1 -
 man/cv.nnlasso.normal.Rd   |    1 -
 man/cv.nnlasso.poisson.Rd  |    1 -
 man/nnlasso.Rd             |    2 --
 man/nnlasso.binomial.Rd    |    2 --
 man/nnlasso.normal.Rd      |    1 -
 man/nnlasso.poisson.Rd     |    2 --
 man/plot.nnlasso.Rd        |    3 ---
 man/predict.nnlasso.Rd     |    3 ---
 13 files changed, 16 insertions(+), 34 deletions(-)

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Package drat updated to version 0.0.3 with previous version 0.0.2 dated 2015-03-01

Title: Drat R Archive Template
Description: Creation and Use of R Repositories via two helper functions to insert packages into a repository, and to add repository information to the current R session. Two primary types of repositories are support: gh-pages at GitHub, as well as local repositories on either the same machine or a local network. Drat is a recursive acronym: Drat R Archive Template.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel

Diff between drat versions 0.0.2 dated 2015-03-01 and 0.0.3 dated 2015-04-10

 ChangeLog            |   61 +++++++++++++++++++++++++++++++++++++++++++++++++++
 DESCRIPTION          |   11 +++++----
 MD5                  |   31 ++++++++++++++++++++-----
 R/addRepo.R          |    8 ++++++
 R/insertPackage.R    |   51 +++++++++++++++++++++++++++++-------------
 README.md            |   12 +++++++++-
 build                |only
 inst/doc             |only
 inst/scripts         |only
 man/addRepo.Rd       |    9 +++++++
 man/insertPackage.Rd |   12 ++++++++--
 vignettes            |only
 12 files changed, 164 insertions(+), 31 deletions(-)

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Package AID updated to version 1.5 with previous version 1.4 dated 2014-01-21

Title: Estimation of Box-Cox Power Transformation Parameter
Description: Power transformation parameter is estimated for different purposes.
Author: Osman Dag, Ozgur Asar, Ozlem Ilk
Maintainer: Osman Dag

Diff between AID versions 1.4 dated 2014-01-21 and 1.5 dated 2015-04-10

 DESCRIPTION     |   17 +++++++++--------
 MD5             |   14 +++++++++-----
 NAMESPACE       |   12 ++++++++++--
 R/boxcoxfr.R    |only
 R/boxcoxnc.R    |    9 ---------
 data/AADT.rda   |only
 man/AADT.Rd     |only
 man/AID.Rd      |   14 +++++++-------
 man/boxcoxfr.Rd |only
 man/boxcoxnc.Rd |   13 ++++++++-----
 10 files changed, 43 insertions(+), 36 deletions(-)

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