Sat, 24 Oct 2015

Package maxLik updated to version 1.3-0 with previous version 1.2-4 dated 2014-12-31

Title: Maximum Likelihood Estimation and Related Tools
Description: Functions for Maximum Likelihood (ML) estimation and non-linear optimization, and related tools. It includes a unified way to call different optimizers, and classes and methods to handle the results from the ML viewpoint. It also includes a number of convenience tools for testing and developing your own models.
Author: Ott Toomet <otoomet@gmail.com>, Arne Henningsen <arne.henningsen@gmail.com>, with contributions from Spencer Graves and Yves Croissant
Maintainer: Ott Toomet <otoomet@gmail.com>

Diff between maxLik versions 1.2-4 dated 2014-12-31 and 1.3-0 dated 2015-10-24

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Package afex updated to version 0.15-2 with previous version 0.14-2 dated 2015-08-17

Title: Analysis of Factorial Experiments
Description: Provides convenience functions for analyzing factorial experiments using ANOVA or mixed models. aov_ez(), aov_car(), and aov_4() allow specification of between, within (i.e., repeated-measures), or mixed between-within (i.e., split-plot) ANOVAs for data in long format (i.e., one observation per row), potentially aggregating multiple observations per individual and cell of the design. mixed() fits mixed models using lme4::lmer() and computes p-values for all fixed effects using either Kenward-Roger approximation for degrees of freedom (LMM only), parametric bootstrap (LMMs and GLMMs), or likelihood ratio tests (LMMs and GLMMs). afex uses type 3 sums of squares as default (imitating commercial statistical software).
Author: Henrik Singmann [aut, cre], Ben Bolker [aut], Jake Westfall [aut], Søren Højsgaard [ctb], John Fox [ctb], Michael A. Lawrence [ctb], Ulf Mertens [ctb], Frederik Aust [ctb]
Maintainer: Henrik Singmann <singmann+afex@gmail.com>

Diff between afex versions 0.14-2 dated 2015-08-17 and 0.15-2 dated 2015-10-24

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More information about afex at CRAN
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Package rfoaas updated to version 0.1.8 with previous version 0.1.6 dated 2015-05-31

Title: R Interface to FOAAS
Description: R access to the FOAAS (F... Off As A Service) web service is provided.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between rfoaas versions 0.1.6 dated 2015-05-31 and 0.1.8 dated 2015-10-24

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More information about rfoaas at CRAN
Permanent link

Package ergm updated to version 3.5.1 with previous version 3.4.0 dated 2015-06-16

Title: Fit, Simulate and Diagnose Exponential-Family Models for Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis.
Author: Mark S. Handcock [aut], David R. Hunter [aut], Carter T. Butts [aut], Steven M. Goodreau [aut], Pavel N. Krivitsky [aut, cre], Martina Morris [aut], Li Wang [ctb], Kirk Li [ctb], Skye Bender-deMoll [ctb]
Maintainer: Pavel N. Krivitsky <pavel@uow.edu.au>

Diff between ergm versions 3.4.0 dated 2015-06-16 and 3.5.1 dated 2015-10-24

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New package enRich with initial version 3.0
Package: enRich
Type: Package
Title: An R Package for the Analysis of Multiple ChIP-Seq Data
Version: 3.0
Date: 2015-10-19
Author: Yanchun Bao, Veronica Vinciotti
Maintainer: Yanchun Bao <ybaoa@essex.ac.uk>
Description: An R package for joint statistical modelling of ChIP-seq data, accounting for technical/biological replicates, multiple conditions and different ChIP efficiencies of the individual experiments.
Depends: R(>= 3.2.2), parallel
License: GPL-2
LazyLoad: yes
NeedsCompilation: yes
Packaged: 2015-10-24 12:05:11 UTC; hongsheng
Repository: CRAN
Date/Publication: 2015-10-24 18:19:26

More information about enRich at CRAN
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Package statnet.common updated to version 3.3.0 with previous version 3.2.3 dated 2015-08-05

Title: Common R Scripts and Utilities Used by the Statnet Project Software
Description: Non-statistical utilities used by the software developed by the Statnet Project. They may also be of use to others.
Author: Pavel N. Krivitsky [aut, cre], Skye Bender-deMoll [ctb]
Maintainer: Pavel N. Krivitsky <pavel@uow.edu.au>

Diff between statnet.common versions 3.2.3 dated 2015-08-05 and 3.3.0 dated 2015-10-24

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Package PanelCount updated to version 1.0.9 with previous version 1.0.1 dated 2015-08-31

Title: Random Effects and/or Sample Selection Models for Panel Count Data
Description: A high performance package implementing random effects and/or sample selection models for panel count data.
Author: Jing Peng
Maintainer: Jing Peng <pengjing@live.com>

Diff between PanelCount versions 1.0.1 dated 2015-08-31 and 1.0.9 dated 2015-10-24

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Package qicharts updated to version 0.4.2 with previous version 0.4.1 dated 2015-10-17

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 0.4.1 dated 2015-10-17 and 0.4.2 dated 2015-10-24

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Package mgcv updated to version 1.8-8 with previous version 1.8-7 dated 2015-07-23

Title: Mixed GAM Computation Vehicle with GCV/AIC/REML Smoothness Estimation
Description: GAMs, GAMMs and other generalized ridge regression with multiple smoothing parameter estimation by GCV, REML or UBRE/AIC. Includes a gam() function, a wide variety of smoothers, JAGS support and distributions beyond the exponential family.
Author: Simon Wood <simon.wood@r-project.org>
Maintainer: Simon Wood <simon.wood@r-project.org>

Diff between mgcv versions 1.8-7 dated 2015-07-23 and 1.8-8 dated 2015-10-24

 ChangeLog                               |   55 +++
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New package ddR with initial version 0.1
Package: ddR
Title: Distributed Data Structures in R
Version: 0.1
Author: Edward Ma, Indrajit Roy, Michael Lawrence
Maintainer: Edward Ma <ema@hpe.com>
Description: Provides distributed data structures and simplifies distributed computing in R.
Depends: methods, R (>= 3.0.0)
Imports: parallel, Rcpp
Suggests: testthat, Matrix
License: GPL (>= 2) | file LICENSE
LazyData: true
LinkingTo: Rcpp
Collate: 'RcppExports.R' 'ddR.R' 'dobject.R' 'ops.R' 'pdriver.R' 'pobject.R' 'zzz.R'
Packaged: 2015-10-24 06:24:12 UTC; edward
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2015-10-24 09:32:45

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Package data.tree updated to version 0.2.4 with previous version 0.2.1 dated 2015-09-09

Title: General Purpose Hierarchical Data Structure
Description: Create tree structures from hierarchical data, and use the utility methods to traverse the tree in various orders. Aggregate, cumulate, print, convert to and from data.frame, and apply functions to your tree data. Useful for decision trees, machine learning, finance, conversion from and to JSON, and many other applications.
Author: Christoph Glur
Maintainer: Christoph Glur <christoph.glur@ipub.com>

Diff between data.tree versions 0.2.1 dated 2015-09-09 and 0.2.4 dated 2015-10-24

 DESCRIPTION                       |    8 
 MD5                               |   34 -
 NAMESPACE                         |    2 
 NEWS                              |   12 
 R/node.R                          |   10 
 R/node_actives.R                  |    3 
 R/node_methods.R                  |   23 -
 R/node_methods_traversal.R        |    6 
 data/acme.rda                     |binary
 inst/doc/applications.R           |   70 ---
 inst/doc/applications.Rmd         |   84 ----
 inst/doc/applications.html        |  161 +-------
 inst/doc/data.tree.html           |   35 -
 inst/extdata/flare.json           |  758 +++++++++++++++++++-------------------
 man/NODE_RESERVED_NAMES_CONST.Rd  |    2 
 man/Node.Rd                       |    1 
 tests/testthat/test-treeMethods.R |   31 +
 vignettes/applications.Rmd        |   84 ----
 18 files changed, 528 insertions(+), 796 deletions(-)

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Package CoxPlus updated to version 1.1.1 with previous version 1.1.0 dated 2015-09-06

Title: Cox Regression (Proportional Hazards Model) with Multiple Causes and Mixed Effects
Description: A high performance package estimating Cox Model when an even has more than one causes. It also supports random and fixed effects, tied events, and time-varying variables.
Author: Jing Peng
Maintainer: Jing Peng <pengjing@live.com>

Diff between CoxPlus versions 1.1.0 dated 2015-09-06 and 1.1.1 dated 2015-10-24

 DESCRIPTION    |   10 +++++-----
 MD5            |    6 +++---
 R/fastCox.R    |    2 ++
 man/CoxPlus.Rd |    5 +++++
 4 files changed, 15 insertions(+), 8 deletions(-)

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New package AdapEnetClass with initial version 1.2
Package: AdapEnetClass
Type: Package
Title: A Class of Adaptive Elastic Net Methods for Censored Data
Version: 1.2
Date: 2015-10-24
Author: Hasinur Rahaman Khan and Ewart Shaw
Maintainer: Hasinur Rahaman Khan <hasinurkhan@gmail.com>
Depends: imputeYn, glmnet, lars, quadprog, R (>= 3.0.2)
Description: Provides new approaches to variable selection for AFT model.
License: GPL-2
Packaged: 2015-10-23 20:17:28 UTC; hasinur
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-10-24 10:57:30

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New package SchemaOnRead with initial version 1.0.0
Package: SchemaOnRead
Type: Package
Title: Automated Schema on Read
Version: 1.0.0
Date: 2015-10-23
Authors@R: person("Michael", "North", email = "north@anl.gov", role = c("aut", "cre"))
Description: Provides schema-on-read tools including a single function call (e.g., schemaOnRead("filename")) that reads text ('TXT'), comma separated value ('CSV'), raster image ('BMP', 'PNG', 'GIF', 'TIFF', and 'JPG'), R data ('RDS'), HDF5, NetCDF, spreadsheet ('XLS', 'XLSX', 'ODS', and 'DIF'), Weka Attribute-Relation File Format ('ARFF'), Epi Info ('REC'), SPSS ('SAV'), Systat ('SYS'), and Stata ('DTA') files. It also recursively reads folders (e.g., schemaOnRead("folder")), returning a nested list of the contained elements.
Copyright: Argonne National Laboratory
License: GPL-3
Depends: R (>= 3.2.1)
Imports: caTools (>= 1.17.1), foreign (>= 0.8-66), ncdf.tools (>= 0.7.1.295), network (>= 1.12.0), readbitmap (>= 0.1-4), readODS (>= 1.4), readstata13 (>= 0.7.1), tiff (>= 0.1-5), tools, XLConnect (>= 0.2-11), XLConnectJars (>= 0.2-9), XML (>= 3.98-1.3)
URL: https://github.com/drmichaelnorth/SchemaOnRead
LazyData: TRUE
Suggests: knitr (>= 1.11), rmarkdown (>= 0.8.1), testthat (>= 0.10.0)
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2015-10-23 22:54:51 UTC; north
Author: Michael North [aut, cre]
Maintainer: Michael North <north@anl.gov>
Repository: CRAN
Date/Publication: 2015-10-24 08:21:21

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Package LDAvis updated to version 0.3.2 with previous version 0.2 dated 2015-01-23

Title: Interactive Visualization of Topic Models
Description: Tools to create an interactive web-based visualization of a topic model that has been fit to a corpus of text data using Latent Dirichlet Allocation (LDA). Given the estimated parameters of the topic model, it computes various summary statistics as input to an interactive visualization built with D3.js that is accessed via a browser. The goal is to help users interpret the topics in their LDA topic model.
Author: Carson Sievert [aut, cre], Kenny Shirley [aut]
Maintainer: Carson Sievert <cpsievert1@gmail.com>

Diff between LDAvis versions 0.2 dated 2015-01-23 and 0.3.2 dated 2015-10-24

 LDAvis-0.2/LDAvis/inst/examples             |only
 LDAvis-0.3.2/LDAvis/DESCRIPTION             |   10 +-
 LDAvis-0.3.2/LDAvis/MD5                     |   47 +++++-----
 LDAvis-0.3.2/LDAvis/NAMESPACE               |    4 
 LDAvis-0.3.2/LDAvis/NEWS                    |   20 ++++
 LDAvis-0.3.2/LDAvis/R/createJSON.R          |   65 +++++++++-----
 LDAvis-0.3.2/LDAvis/R/imports.R             |only
 LDAvis-0.3.2/LDAvis/R/runShiny.R            |    2 
 LDAvis-0.3.2/LDAvis/R/serVis.R              |    6 -
 LDAvis-0.3.2/LDAvis/R/shiny.R               |only
 LDAvis-0.3.2/LDAvis/README.md               |   25 ++++-
 LDAvis-0.3.2/LDAvis/build/vignette.rds      |binary
 LDAvis-0.3.2/LDAvis/inst/doc/details.Rnw    |    9 +-
 LDAvis-0.3.2/LDAvis/inst/doc/details.pdf    |binary
 LDAvis-0.3.2/LDAvis/inst/htmljs/index.html  |    7 -
 LDAvis-0.3.2/LDAvis/inst/htmljs/lda.css     |   77 +----------------
 LDAvis-0.3.2/LDAvis/inst/htmljs/ldavis.js   |   46 ++++------
 LDAvis-0.3.2/LDAvis/inst/shiny              |only
 LDAvis-0.3.2/LDAvis/man/TwentyNewsgroups.Rd |    3 
 LDAvis-0.3.2/LDAvis/man/createJSON.Rd       |  126 +++++++++++++---------------
 LDAvis-0.3.2/LDAvis/man/jsPCA.Rd            |   13 +-
 LDAvis-0.3.2/LDAvis/man/renderVis.Rd        |only
 LDAvis-0.3.2/LDAvis/man/runShiny.Rd         |   25 ++---
 LDAvis-0.3.2/LDAvis/man/serVis.Rd           |   44 ++++-----
 LDAvis-0.3.2/LDAvis/man/visOutput.Rd        |only
 LDAvis-0.3.2/LDAvis/vignettes/details.Rnw   |    9 +-
 26 files changed, 259 insertions(+), 279 deletions(-)

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New package jackknifeKME with initial version 1.2
Package: jackknifeKME
Type: Package
Title: Jackknife Estimates of Kaplan-Meier Estimators or Integrals
Version: 1.2
Date: 2015-10-23
Author: Hasinur Rahaman Khan and Ewart Shaw
Maintainer: Hasinur Rahaman Khan <hasinurkhan@gmail.com>
Description: Computing the original and modified jackknife estimates of Kaplan-Meier estimators.
Depends: imputeYn
License: GPL-2
Packaged: 2015-10-23 19:12:26 UTC; hasinur
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-10-24 08:21:22

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