Fri, 19 Feb 2016

Package xergm.common updated to version 1.7.1 with previous version 1.6 dated 2015-12-09

Title: Common Infrastructure for Extensions of Exponential Random Graph Models
Description: Datasets and definitions of generic functions used in dependencies of the xergm package.
Author: Philip Leifeld [aut, cre], Skyler J. Cranmer [ctb], Bruce A. Desmarais [ctb]
Maintainer: Philip Leifeld <philip.leifeld@eawag.ch>

Diff between xergm.common versions 1.6 dated 2015-12-09 and 1.7.1 dated 2016-02-19

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Package rjags updated to version 4-6 with previous version 4-5 dated 2016-01-06

Title: Bayesian Graphical Models using MCMC
Description: Interface to the JAGS MCMC library.
Author: Martyn Plummer [aut, cre], Alexey Stukalov [ctb], Matt Denwood [ctb]
Maintainer: Martyn Plummer <plummerm@iarc.fr>

Diff between rjags versions 4-5 dated 2016-01-06 and 4-6 dated 2016-02-19

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Package rem updated to version 1.1.2 with previous version 1.1.1 dated 2016-01-02

Title: Relational Event Models (REM)
Description: Calculate endogenous network effects in event sequences and fit relational event models (REM): Using network event sequences (where each tie between a sender and a target in a network is time-stamped), REMs can measure how networks form and evolve over time. Endogenous patterns such as popularity effects, inertia, similarities, cycles or triads can be calculated and analyzed over time.
Author: Laurence Brandenberger
Maintainer: Laurence Brandenberger <laurence.brandenberger@eawag.ch>

Diff between rem versions 1.1.1 dated 2016-01-02 and 1.1.2 dated 2016-02-19

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Package readstata13 updated to version 0.8.2 with previous version 0.8.1 dated 2015-11-14

Title: Import Stata Data Files
Description: Function to read and write the Stata file format.
Author: Jan Marvin Garbuszus [aut], Sebastian Jeworutzki [aut, cre], R Core Team [cph], Magnus Thor Torfason [ctb]
Maintainer: Sebastian Jeworutzki <Sebastian.Jeworutzki@ruhr-uni-bochum.de>

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Package rcbsubset updated to version 1.1.2 with previous version 1.1 dated 2016-02-17

Title: Optimal Subset Matching with Refined Covariate Balance
Description: Tools for optimal subset matching of treated units and control units in observational studies, with support for refined covariate balance constraints, (including fine and near-fine balance as special cases). A close relative is the 'rcbalance' package.
Author: Samuel D. Pimentel
Maintainer: Samuel D. Pimentel <spi@wharton.upenn.edu>

Diff between rcbsubset versions 1.1 dated 2016-02-17 and 1.1.2 dated 2016-02-19

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Package multiway updated to version 1.0-2 with previous version 1.0-1 dated 2015-08-26

Title: Component Models for Multi-Way Data
Description: Fits multi-way component models via alternating least squares algorithms with optional constraints (orthogonality, non-negativity, and structural). Fit models include Individual Differences Scaling, Parallel Factor Analysis (1 and 2), Simultaneous Component Analysis, and Tucker Factor Analysis.
Author: Nathaniel E. Helwig <helwig@umn.edu>
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>

Diff between multiway versions 1.0-1 dated 2015-08-26 and 1.0-2 dated 2016-02-19

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Package merTools updated to version 0.2.0 with previous version 0.1.0 dated 2015-08-12

Title: Tools for Analyzing Mixed Effect Regression Models
Description: Provides methods for extracting results from mixed-effect model objects fit with the lme4 package. Allows construction of prediction intervals efficiently from large scale linear and generalized linear mixed-effects models.
Author: Jared E. Knowles [aut, cre], Carl Frederick [aut]
Maintainer: Jared E. Knowles <jknowles@gmail.com>

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New package matchMulti with initial version 1.0
Package: matchMulti
Type: Package
Title: Optimal Multilevel Matching using a Network Algorithm
Version: 1.0
Date: 2016-02-12
Author: Luke Keele and Sam Pimentel
Maintainer: Sam Pimentel <spi@wharton.upenn.edu>
Description: Performs multilevel matches for data with cluster-level treatments and individual-level outcomes using a network optimization algorithm. Functions for checking balance at the cluster and individual levels are also provided, as are methods for permutation-inference-based outcome analysis.
Depends: R (>= 3.2.3)
Imports: rcbsubset, plyr, coin, weights, mvtnorm, MASS,Hmisc
Suggests: optmatch, testthat
License: MIT + file LICENSE
NeedsCompilation: no
Packaged: 2016-02-19 15:41:31 UTC; sdbpimentel
Repository: CRAN
Date/Publication: 2016-02-19 23:52:35

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Package lfactors updated to version 0.6.0 with previous version 0.5.3 dated 2015-09-03

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>

Diff between lfactors versions 0.5.3 dated 2015-09-03 and 0.6.0 dated 2016-02-19

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Package imguR updated to version 1.0.1 with previous version 1.0.0 dated 2014-07-24

Title: Imgur API Client Package for R
Description: A complete API client for the image hosting service Imgur.com, including the an imgur graphics device, enabling the easy upload and sharing of plots.
Author: Thomas J. Leeper [aut, cre], Aaron Statham [ctb], Yihui Xie [ctb]
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>

Diff between imguR versions 1.0.0 dated 2014-07-24 and 1.0.1 dated 2016-02-19

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Package GSE updated to version 3.3 with previous version 3.2.3 dated 2015-12-30

Title: Robust Estimation in the Presence of Cellwise and Casewise Contamination and Missing Data
Description: Robust Estimation of Multivariate Location and Scatter in the Presence of Cellwise and Casewise Contamination and Missing Data.
Author: Andy Leung, Mike Danilov, Victor Yohai, Ruben Zamar
Maintainer: Andy Leung <andy.leung@stat.ubc.ca>

Diff between GSE versions 3.2.3 dated 2015-12-30 and 3.3 dated 2016-02-19

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Package compareGroups updated to version 3.2 with previous version 3.1 dated 2015-09-07

Title: Descriptive Analysis by Groups
Description: Create data summaries for quality control, extensive reports for exploring data, as well as publication-ready univariate or bivariate tables in several formats (plain text, HTML,LaTeX, PDF, Word or Excel. Perform figures to quickly visualise the distribution of your data (boxplots, barplots, normality-plots, etc.). Display statistics (mean, median, frequencies, incidences, etc.). Perform the appropriate tests (t-test, Analysis of variance, Kruskal-Wallis, Fisher, log-rank, ...) depending on the nature of the described variable (normal, non-normal or qualitative). Summarize genetic data (Single Nucleotids Polymorphisms) data displaying Allele Frequencies and performing Hardy-Weinberg Equilibrium tests among other typical statistics and tests for these kind of data.
Author: Isaac Subirana, Joan Vila, Héctor Sanz, Gavin Lucas, judith Peñafiel and David Giménez
Maintainer: Isaac Subirana <isubirana@imim.es>

Diff between compareGroups versions 3.1 dated 2015-09-07 and 3.2 dated 2016-02-19

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Package BIGDAWG updated to version 1.2.6 with previous version 1.2.1 dated 2015-11-10

Title: Case-Control Analysis of Multi-Allelic Loci
Description: Data sets and functions for chi-squared Hardy-Weinberg and case-control association tests of highly polymorphic genetic data [e.g., human leukocyte antigen (HLA) data]. Performs association tests at multiple levels of polymorphism (haplotype, locus and HLA amino-acids) as described in Pappas DJ, Marin W, Hollenbach JA, Mack SJ. 2016. 'Bridging ImmunoGenomic Data Analysis Workflow Gaps (BIGDAWG): An integrated case-control analysis pipeline.' Human Immunology, article in press. Combines rare variants to a common class to account for sparse cells in tables as described by Hollenbach JA, Mack SJ, Thomson G, Gourraud PA. 'Analytical methods for disease association studies with immunogenetic data.' Methods Mol Biol. 2012; 882:245-66.
Author: Derek Pappas <dpappas@chori.org>, Steve Mack <sjmack@chori.org>, Jill Hollenbach <Jill.Hollenbach@ucsf.edu>
Maintainer: Steve Mack <sjmack@chori.org>

Diff between BIGDAWG versions 1.2.1 dated 2015-11-10 and 1.2.6 dated 2016-02-19

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New package backports with initial version 1.0.0
Package: backports
Type: Package
Title: Reimplementations of Functions Introduced Since R-3.0.0
Version: 1.0.0
Author: Michel Lang <michellang@gmail.com>
Maintainer: Michel Lang <michellang@gmail.com>
Description: Provides implementations of functions which have been introduced in R since version 3.0.0. The backports are conditionally exported which results in R resolving the function names to the version shipped with R (if available) and uses the implemented backports as fallback. This way package developers can make use of the new functions without without worrying about the minimum required R version.
License: GPL-2
NeedsCompilation: no
ByteCompile: yes
Depends: R (>= 3.0.0)
Imports: stringi
Suggests: testthat
RoxygenNote: 5.0.1
Packaged: 2016-02-19 15:24:38 UTC; lang
Repository: CRAN
Date/Publication: 2016-02-20 00:09:42

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Package babynames updated to version 0.2.0 with previous version 0.1 dated 2014-07-22

Title: US Baby Names 1880-2013
Description: US baby names provided by the SSA. This package contains all names used for at least 5 children of either sex.
Author: Hadley Wickham [aut, cre], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>

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Package ACEt updated to version 1.4 with previous version 1.3 dated 2016-02-14

Title: Estimating Age Modification Effect on Genetic and Environmental Variance Components in Twin Models
Description: Two novel twin models that are able to estimate the dynamic behaviour of the variance components in the classical twin models with respect to age.
Author: Liang He
Maintainer: Liang He <liang.he@duke.edu>

Diff between ACEt versions 1.3 dated 2016-02-14 and 1.4 dated 2016-02-19

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New package variables with initial version 0.0-30
Package: variables
Title: Variable Descriptions
Version: 0.0-30
Date: 2015-02-19
Authors@R: person("Torsten", "Hothorn", role = c("aut", "cre"), email = "Torsten.Hothorn@R-project.org")
Description: Abstract descriptions of (yet) unobserved variables.
Imports: stats
License: GPL-2
NeedsCompilation: no
Packaged: 2016-02-19 11:31:48 UTC; hothorn
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Repository: CRAN
Date/Publication: 2016-02-19 14:51:06

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Package texreg updated to version 1.36.4 with previous version 1.36 dated 2015-12-08

Title: Conversion of R Regression Output to LaTeX or HTML Tables
Description: Converts coefficients, standard errors, significance stars, and goodness-of-fit statistics of statistical models into LaTeX tables or HTML tables/MS Word documents or to nicely formatted screen output for the R console for easy model comparison. A list of several models can be combined in a single table. The output is highly customizable. New model types can be easily implemented.
Author: Philip Leifeld
Maintainer: Philip Leifeld <philip.leifeld@eawag.ch>

Diff between texreg versions 1.36 dated 2015-12-08 and 1.36.4 dated 2016-02-19

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New package ddpcr with initial version 1.0.1
Package: ddpcr
Title: Analysis and Visualization of Droplet Digital PCR in R and on the Web
Version: 1.0.1
Authors@R: c( person("Dean", "Attali", email = "daattali@gmail.com", role = c("aut", "cre")) )
Description: An interface to explore, analyze, and visualize droplet digital PCR (ddPCR) data in R. This is the first non-proprietary software for analyzing duplex ddPCR data. An interactive tool was also created and is available online to facilitate this analysis for anyone who is not comfortable with using R.
URL: https://github.com/daattali/ddpcr
BugReports: https://github.com/daattali/ddpcr/issues
Depends: R (>= 3.1.0)
Imports: DT (>= 0.1), dplyr (>= 0.4.0), ggplot2 (>= 1.0.1.9003), lazyeval (>= 0.1.10), magrittr (>= 1.5), mixtools (>= 1.0.2), plyr (>= 1.8.1), readr (>= 0.1.0), shiny (>= 0.11.0), shinyjs (>= 0.4.0)
Suggests: ggExtra (>= 0.3.0), graphics, grid (>= 3.2.2), gridExtra (>= 2.0.0), knitr (>= 1.7), rmarkdown, stats, testthat (>= 0.9.1), utils
License: MIT + file LICENSE
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-02-19 12:31:00 UTC; Dean
Author: Dean Attali [aut, cre]
Maintainer: Dean Attali <daattali@gmail.com>
Repository: CRAN
Date/Publication: 2016-02-19 14:51:02

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Package AF updated to version 0.1.2 with previous version 0.1.1 dated 2015-12-14

Title: Model-Based Estimation of Confounder-Adjusted Attributable Fractions
Description: Estimates the attributable fraction in different sampling designs adjusted for measured confounders using logistic regression (cross-sectional and case-control designs), conditional logistic regression (matched case-control design) and Cox proportional hazard regression (cohort design with time-to-event outcome). The variance of the estimator is obtained by combining the delta method with the the sandwich formula.
Author: Elisabeth Dahlqwist and Arvid Sjölander
Maintainer: Elisabeth Dahlqwist <elisabeth.dahlqwist@ki.se>

Diff between AF versions 0.1.1 dated 2015-12-14 and 0.1.2 dated 2016-02-19

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 12 files changed, 25 insertions(+), 31 deletions(-)

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New package basefun with initial version 0.0-30
Package: basefun
Title: Infrastructure for Computing with Basis Functions
Version: 0.0-30
Date: 2015-02-19
Authors@R: person("Torsten", "Hothorn", role = c("aut", "cre"), email = "Torsten.Hothorn@R-project.org")
Description: Some very simple infrastructure for basis functions.
Depends: variables (>= 0.0-30)
Imports: stats, polynom, Matrix, orthopolynom, methods
License: GPL-2
NeedsCompilation: yes
Packaged: 2016-02-19 11:31:51 UTC; hothorn
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Repository: CRAN
Date/Publication: 2016-02-19 14:51:00

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Package packdep (with last version 0.3.1) was removed from CRAN

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

2014-02-12 0.3.1
2009-07-26 0.2
2009-07-18 0.1

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Package rnrfa (with last version 0.3.0) was removed from CRAN

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

2015-11-20 0.3.0
2015-11-15 0.2.1
2015-07-02 0.2.0
2014-11-07 0.1.5
2014-08-15 0.1.0

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Package rfisheries updated to version 0.2 with previous version 0.1 dated 2014-02-18

Title: 'Programmatic Interface to the 'openfisheries.org' API'
Description: A programmatic interface to 'openfisheries.org'. This package is part of the 'rOpenSci' suite (http://ropensci.org).
Author: Karthik Ram [aut, cre], Carl Boettiger [aut], Andrew Dyck [aut]
Maintainer: Karthik Ram <karthik.ram@gmail.com>

Diff between rfisheries versions 0.1 dated 2014-02-18 and 0.2 dated 2016-02-19

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 tests/testthat/test-all.R       |    4 ++--
 22 files changed, 139 insertions(+), 123 deletions(-)

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Package inegiR updated to version 1.2.0 with previous version 1.0.2 dated 2015-10-23

Title: Integrate INEGI’s (Mexican Stats Office) API with R
Description: Provides functions to download and parse information from INEGI (Official Mexican statistics agency).
Author: Eduardo Flores
Maintainer: Eduardo Flores <eduardo@enelmargen.org>

Diff between inegiR versions 1.0.2 dated 2015-10-23 and 1.2.0 dated 2016-02-19

 DESCRIPTION                        |   12 
 MD5                                |   76 +--
 NAMESPACE                          |    6 
 R/CMDcheckVars.R                   |    3 
 R/Denue_Inegi.R                    |    6 
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 R/OtrosIndicadores.R               |  936 ++++++++++++++++++++++++++++---------
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 41 files changed, 981 insertions(+), 438 deletions(-)

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New package geoaxe with initial version 0.1.0
Package: geoaxe
Title: Split 'Geospatial' Objects into Pieces
Description: Split 'geospatial' objects into pieces. Includes support for some spatial object inputs, 'Well-Known Text', and 'GeoJSON'.
Version: 0.1.0
License: MIT + file LICENSE
Authors@R: person("Scott", "Chamberlain", role = c("aut", "cre"), email = "myrmecocystus@gmail.com")
URL: https://github.com/ropenscilabs/geoaxe
BugReports: https://github.com/ropenscilabs/geoaxe/issues
VignetteBuilder: knitr
Imports: methods, sp, rgeos, jsonlite
Suggests: testthat, knitr
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2016-02-19 00:25:56 UTC; sacmac
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Repository: CRAN
Date/Publication: 2016-02-19 08:49:59

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Package EditImputeCont updated to version 1.0.1 with previous version 1.0.0 dated 2015-06-11

Title: Simultaneous Edit-Imputation for Continuous Microdata
Description: An integrated editing and imputation method for continuous microdata under linear constraints is implemented. It relies on a Bayesian nonparametric hierarchical modeling approach in which the joint distribution of the data is estimated by a flexible joint probability model. The generated edit-imputed data are guaranteed to satisfy all imposed edit rules, whose types include ratio edits, balance edits and range restrictions.
Author: Quanli Wang, Hang J. Kim, Jerome P. Reiter, Lawrence H. Cox and Alan F. Karr
Maintainer: Quanli Wang <quanli@stat.duke.edu>

Diff between EditImputeCont versions 1.0.0 dated 2015-06-11 and 1.0.1 dated 2016-02-19

 DESCRIPTION |   10 +++++-----
 MD5         |    4 ++--
 NAMESPACE   |   15 +++++++++------
 3 files changed, 16 insertions(+), 13 deletions(-)

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Package clttools updated to version 1.3 with previous version 1.2 dated 2015-11-24

Title: Central Limit Theorem Experiments (Theoretical and Simulation)
Description: Central limit theorem experiments presented by data frames or plots. Functions include generating theoretical sample space, corresponding probability, and simulated results as well.
Author: Simiao Ye, Jingning Mei
Maintainer: Simiao Ye <simiao.ye@gmail.com>

Diff between clttools versions 1.2 dated 2015-11-24 and 1.3 dated 2016-02-19

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 clttools-1.3/clttools/NAMESPACE               |   24 ++--
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 27 files changed, 125 insertions(+), 62 deletions(-)

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