Thu, 07 May 2015

Package QFRM (with last version 1.0) was removed from CRAN

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

2015-05-07 1.0

Permanent link
Package rmarkdown updated to version 0.6.1 with previous version 0.5.1 dated 2015-01-26

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], 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 0.5.1 dated 2015-01-26 and 0.6.1 dated 2015-05-07

 rmarkdown-0.5.1/rmarkdown/tests/test-all.R                                                   |only
 rmarkdown-0.6.1/rmarkdown/DESCRIPTION                                                        |   13 
 rmarkdown-0.6.1/rmarkdown/MD5                                                                |  139 +++++-----
 rmarkdown-0.6.1/rmarkdown/NAMESPACE                                                          |    4 
 rmarkdown-0.6.1/rmarkdown/NEWS                                                               |   25 +
 rmarkdown-0.6.1/rmarkdown/R/base64.R                                                         |    7 
 rmarkdown-0.6.1/rmarkdown/R/beamer_presentation.R                                            |   13 
 rmarkdown-0.6.1/rmarkdown/R/draft.R                                                          |    2 
 rmarkdown-0.6.1/rmarkdown/R/html_document.R                                                  |   16 -
 rmarkdown-0.6.1/rmarkdown/R/html_document_base.R                                             |   98 ++++++-
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 rmarkdown-0.6.1/rmarkdown/R/output_format.R                                                  |   53 ++-
 rmarkdown-0.6.1/rmarkdown/R/pandoc.R                                                         |   35 +-
 rmarkdown-0.6.1/rmarkdown/R/pdf_document.R                                                   |   17 -
 rmarkdown-0.6.1/rmarkdown/R/render.R                                                         |   48 +++
 rmarkdown-0.6.1/rmarkdown/R/shiny.R                                                          |   15 -
 rmarkdown-0.6.1/rmarkdown/R/slidy_presentation.R                                             |   10 
 rmarkdown-0.6.1/rmarkdown/R/tufte_handout.R                                                  |    4 
 rmarkdown-0.6.1/rmarkdown/R/util.R                                                           |   47 +++
 rmarkdown-0.6.1/rmarkdown/R/word_document.R                                                  |   13 
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 rmarkdown-0.6.1/rmarkdown/man/includes.Rd                                                    |    2 
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 rmarkdown-0.6.1/rmarkdown/man/knitr_options.Rd                                               |    2 
 rmarkdown-0.6.1/rmarkdown/man/knitr_options_html.Rd                                          |    2 
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 rmarkdown-0.6.1/rmarkdown/man/md_document.Rd                                                 |   21 +
 rmarkdown-0.6.1/rmarkdown/man/metadata.Rd                                                    |    2 
 rmarkdown-0.6.1/rmarkdown/man/output_format.Rd                                               |    2 
 rmarkdown-0.6.1/rmarkdown/man/pandoc_args.Rd                                                 |    2 
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 rmarkdown-0.6.1/rmarkdown/man/pandoc_convert.Rd                                              |    2 
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 rmarkdown-0.6.1/rmarkdown/man/relative_to.Rd                                                 |    2 
 rmarkdown-0.6.1/rmarkdown/man/render.Rd                                                      |    8 
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 rmarkdown-0.6.1/rmarkdown/man/render_supporting_files.Rd                                     |    2 
 rmarkdown-0.6.1/rmarkdown/man/rmarkdown_format.Rd                                            |    2 
 rmarkdown-0.6.1/rmarkdown/man/run.Rd                                                         |    2 
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More information about rmarkdown at CRAN
Permanent link

Package oro.nifti updated to version 0.5.2 with previous version 0.4.3 dated 2015-01-18

Title: Rigorous - NIfTI + ANALYZE + AFNI : Input / Output
Description: Functions for the input/output and visualization of medical imaging data that follow either the ANALYZE, NIfTI or AFNI formats. This package is part of the Rigorous Analytics bundle.
Author: Brandon Whitcher [aut, cre], Volker Schmid [aut], Andrew Thornton [aut], Karsten Tabelow [ctb], Jon Clayden [ctb], John Muschelli [ctb]
Maintainer: Brandon Whitcher <bwhitcher@gmail.com>

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More information about oro.nifti at CRAN
Permanent link

Package metafor updated to version 1.9-6 with previous version 1.9-5 dated 2014-11-24

Title: Meta-Analysis Package for R
Description: A comprehensive collection of functions for conducting meta-analyses in R. The package includes functions to calculate various effect sizes or outcome measures, fit fixed-, random-, and mixed-effects models to such data, carry out moderator and meta-regression analyses, and create various types of meta-analytical plots (e.g., forest, funnel, radial, L'Abbe, Baujat plots). For meta-analyses of binomial and person-time data, the package also provides functions that implement specialized methods, including the Mantel-Haenszel method, Peto's method, and a variety of suitable generalized linear (mixed-effects) models (i.e., mixed-effects (conditional) logistic and Poisson regression models). Finally, the package provides functionality for fitting meta-analytic multivariate/multilevel models that account for non-independent sampling errors and/or true effects (e.g., due to the inclusion of multiple treatment studies, multiple endpoints, or other forms of clustering). Network meta-analyses and meta-analyses accounting for known correlation structures (e.g., due to phylogenetic relatedness) can also be conducted.
Author: Wolfgang Viechtbauer [aut, cre]
Maintainer: Wolfgang Viechtbauer <wvb@metafor-project.org>

Diff between metafor versions 1.9-5 dated 2014-11-24 and 1.9-6 dated 2015-05-07

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More information about metafor at CRAN
Permanent link

Package ltmle updated to version 0.9-5 with previous version 0.9.3-1 dated 2014-04-22

Title: Longitudinal Targeted Maximum Likelihood Estimation
Description: Targeted Maximum Likelihood Estimation (TMLE) of treatment/censoring specific mean outcome or marginal structural model for point-treatment and longitudinal data.
Author: Joshua Schwab [aut, cre], Samuel Lendle [aut], Maya Petersen [aut], Mark van der Laan [aut], Susan Gruber [ctb]
Maintainer: Joshua Schwab <joshuaschwab@yahoo.com>

Diff between ltmle versions 0.9.3-1 dated 2014-04-22 and 0.9-5 dated 2015-05-07

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 ltmle-0.9-5/ltmle/NAMESPACE                                    |    5 
 ltmle-0.9-5/ltmle/NEWS                                         |   38 
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 ltmle-0.9-5/ltmle/R/zzz.R                                      |   13 
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More information about ltmle at CRAN
Permanent link

Package groc updated to version 1.0.5 with previous version 1.0.4 dated 2014-06-30

Title: Generalized Regression on Orthogonal Components
Description: Robust multiple or multivariate linear regression, nonparametric regression on orthogonal components, classical or robust partial least squares models.
Author: M. Bilodeau and P. Lafaye de Micheaux
Maintainer: P. Lafaye de Micheaux <lafaye@dms.umontreal.ca>

Diff between groc versions 1.0.4 dated 2014-06-30 and 1.0.5 dated 2015-05-07

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 MD5                    |   22 +++++++++++-----------
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 man/summary.groc.Rd    |    5 +++++
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More information about groc at CRAN
Permanent link

Package git2r updated to version 0.10.1 with previous version 0.7 dated 2015-02-23

Title: Provides Access to Git Repositories
Description: Interface to the 'libgit2' library, which is a pure C implementation of the 'Git' core methods. Provides access to 'Git' repositories to extract data and running some basic 'Git' commands.
Author: See AUTHORS file.
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>

Diff between git2r versions 0.7 dated 2015-02-23 and 0.10.1 dated 2015-05-07

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Permanent link

Package exCon updated to version 0.1.5 with previous version 0.1-3 dated 2015-01-14

Title: Interactive Exploration of Contour Data
Description: An interactive tool to explore topographic-like data sets. Such data sets take the form of a matrix in which the rows and columns provide location/frequency information, and the matrix elements contain altitude/response information. Such data is found in cartography, 2D spectroscopy and chemometrics. exCon creates an interactive web page showing the contoured data set along with slices from the original matrix parallel to each dimension. The page is written in d3/javascript.
Author: Bryan Hanson [aut, cre], Kristina Mulry [ctb]
Maintainer: Bryan Hanson <hanson@depauw.edu>

Diff between exCon versions 0.1-3 dated 2015-01-14 and 0.1.5 dated 2015-05-07

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More information about exCon at CRAN
Permanent link

New package cranlogs with initial version 2.0.0
Package: cranlogs
Title: Download Logs from the RStudio CRAN Mirror
Version: 2.0.0
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Author: Gabor Csardi [aut, cre]
Description: API to the database of CRAN package downloads from the RStudio CRAN mirror. The database itself is at http://cranlogs.r-pkg.org, see https://github.com/metacran/cranlogs.app for the raw API.
License: MIT + file LICENSE
URL: https://github.com/metacran/cranlogs
BugReports: https://github.com/metacran/cranlogs/issues
Imports: httr, jsonlite
NeedsCompilation: no
Packaged: 2015-05-07 18:08:40 UTC; gaborcsardi
Repository: CRAN
Date/Publication: 2015-05-07 22:30:29

More information about cranlogs at CRAN
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Package RImpala updated to version 0.1.6 with previous version 0.1.5 dated 2014-10-13

Title: Using Cloudera 'Impala' Through 'R'
Description: Cloudera 'Impala', which is a massively parallel processing (MPP) SQL query engine runs natively in Apache Hadoop. 'RImpala' facilitates the connection and execution of distributed queries through 'R'. 'Impala' supports JDBC integration which 'RImpala' utilizes to establish the connection between 'R' and 'Impala'. Thanks to Mu Sigma for their continued support throughout the development of the package.
Author: Vijay Raajaa, Austin Chungath Vincent, Sachin Sudarshana, Vikas Raguttahalli
Maintainer: Vijay Raajaa <vijay.raajaa@mu-sigma.com>

Diff between RImpala versions 0.1.5 dated 2014-10-13 and 0.1.6 dated 2015-05-07

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More information about RImpala at CRAN
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Package RImageJROI updated to version 0.1.1 with previous version 0.1 dated 2014-03-31

Title: Read 'ImageJ' Region of Interest (ROI) Files
Description: Provides functions to read 'ImageJ' (http://imagej.nih.gov/ij/) Region of Interest (ROI) files, to plot the ROIs and to convert them to 'spatstat' (http://spatstat.org/) spatial patterns.
Author: David C Sterratt [aut, cph, cre], Mikko Vihtakari [aut, cph]
Maintainer: David C Sterratt <david.c.sterratt@ed.ac.uk>

Diff between RImageJROI versions 0.1 dated 2014-03-31 and 0.1.1 dated 2015-05-07

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More information about RImageJROI at CRAN
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Package plsgenomics updated to version 1.3 with previous version 1.2-6 dated 2011-04-08

Title: PLS Analyses for Genomics
Description: Routines for PLS-based genomic analyses. They implements PLS methods for classification with microarray data and prediction of transcription factor activities from combined ChIP-chip analysis. The >=1.2-1 versions include two new classification methods for microarray data: GSIM and Ridge PLS. The >=1.3 versions includes an other new classification method combining variable selection and compression in logistic regression context: RIRLS-SPLS; and an adaptive version of the sparse PLS.
Author: Anne-Laure Boulesteix <boulesteix@ibe.med.uni-muenchen.de>, Ghislain Durif <ghislain.durif@univ-lyon1.fr>, Sophie Lambert-Lacroix <Sophie.Lambert@imag.fr>, Julie Peyre <Julie.Peyre@imag.fr>, and Korbinian Strimmer <strimmer@uni-leipzig.de>.
Maintainer: Ghislain Durif <ghislain.durif@univ-lyon1.fr>

Diff between plsgenomics versions 1.2-6 dated 2011-04-08 and 1.3 dated 2015-05-07

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Permanent link

Package fishmove updated to version 0.3-3 with previous version 0.3-2 dated 2015-05-04

Title: Prediction of Fish Movement Parameters
Description: Functions to predict fish movement parameters plotting leptokurtic fish dispersal kernels (see Radinger and Wolter, 2014: Patterns and predictors of fish dispersal in rivers. Fish and Fisheries. 15:456-473.)
Author: Johannes Radinger
Maintainer: Johannes Radinger <jradinger@igb-berlin.de>

Diff between fishmove versions 0.3-2 dated 2015-05-04 and 0.3-3 dated 2015-05-07

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More information about fishmove at CRAN
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Package dummy updated to version 0.1.3 with previous version 0.1.2 dated 2015-04-14

Title: Automatic Creation of Dummies with Support for Predictive Modeling
Description: Efficiently create dummies of all factors and character vectors in a data frame. Support is included for learning the categories on one data set (e.g., a training set) and deploying them on another (e.g., a test set).
Author: Michel Ballings and Dirk Van den Poel
Maintainer: Michel Ballings <michel.ballings@GMail.com>

Diff between dummy versions 0.1.2 dated 2015-04-14 and 0.1.3 dated 2015-05-07

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 8 files changed, 32 insertions(+), 23 deletions(-)

More information about dummy at CRAN
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New package alphaOutlier with initial version 1.0.0
Package: alphaOutlier
Type: Package
Title: Obtain Alpha-Outlier Regions for Well-Known Probability Distributions
Version: 1.0.0
Date: 2015-05-07
Author: Andre Rehage, Sonja Kuhnt
Maintainer: Andre Rehage <rehage@statistik.tu-dortmund.de>
Description: Given the parameters of a distribution, the package uses the concept of alpha-outliers by Davies and Gather (1993) to flag outliers in a data set. See Davies, L.; Gather, U. (1993): The identification of multiple outliers, JASA, 88 423, 782-792, doi: 10.1080/01621459.1993.10476339 for details.
License: GPL-3
Depends: Rsolnp, nleqslv, quantreg
NeedsCompilation: no
Packaged: 2015-05-07 11:04:08 UTC; rehage
Repository: CRAN
Date/Publication: 2015-05-07 18:01:58

More information about alphaOutlier at CRAN
Permanent link

Package rio updated to version 0.2 with previous version 0.1.2 dated 2013-09-04

Title: A Swiss-Army Knife for Data I/O
Description: Streamlined data import and export by making assumptions that the user is probably willing to make: 'import()' and 'export()' determine the data structure from the file extension, reasonable defaults are used for data import and export (e.g., 'stringsAsFactors=FALSE'), web-based import is natively supported (including from SSL/HTTPS), compressed files can be read directly without explicit decompression, and fast import packages are used where appropriate.
Author: Chung-hong Chan [aut], Geoffrey CH Chan [aut], Thomas J. Leeper [aut, cre], Christopher Gandrud [aut]
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>

Diff between rio versions 0.1.2 dated 2013-09-04 and 0.2 dated 2015-05-07

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New package QFRM with initial version 1.0
Package: QFRM
Type: Package
Title: Pricing of Vanilla and Exotic Option Contracts
Version: 1.0
Date: 2015-05-03
Maintainer: Oleg Melnikov <XisReal@gmail.com>
Authors@R: c( person("Oleg", "Melnikov", role = c("aut", "cre"), email = "XisReal@gmail.com"), person("Max", "Lee", role = "ctb", email = "max.lee@rice.edu"), person("Robert", "Abramov", role = "ctb", email = "rha1@rice.edu"), person("Richard", "Huang", role = "ctb", email = "richard.b.huang@rice.edu"), person("Liu", "Tong", role = "ctb", email = "tong.liu@rice.edu"), person("Jake", "Kornblau", role = "ctb", email = "jake.a.kornblau@rice.edu"), person("Xinnan", "Lu", role = "ctb", email = "xinnan.lu@rice.edu"), person("Kiryl", "Novikau", role = "ctb", email = "kiryl.novikau@rice.edu"), person("Tongyue", "Luo", role = "ctb", email = "tongyue.luo@rice.edu"), person("Le", "You", role = "ctb", email = "le.you@rice.edu"), person("Jin", "Chen", role = "ctb", email = "jin.chen@rice.edu"), person("Chengwei", "Ge", role = "ctb", email = "chengwei.ge@rice.edu"), person("Jiayao", "Huang", role = "ctb", email = "jiayao.huang@rice.edu") )
Description: Option pricing (financial derivatives) techniques mainly following textbook 'Options, Futures and Other Derivatives', 9ed by John C.Hull, 2014. Prentice Hall. Implementations are via binomial tree option model (BOPM), Black-Scholes model, Monte Carlo simulations, etc. This package is a result of Quantitative Financial Risk Management course (STAT 449 and STAT 649) at Rice University, Houston, TX, USA, taught by Oleg Melnikov, statistics PhD student, as of Spring 2015.
Repository: CRAN
License: GPL (>= 2)
URL: http://Oleg.Rice.edu
NeedsCompilation: no
Depends: R (>= 2.14.0)
LazyLoad: yes
LazyData: yes
Packaged: 2015-05-07 04:28:57 UTC; Oleggio
Author: Oleg Melnikov [aut, cre], Max Lee [ctb], Robert Abramov [ctb], Richard Huang [ctb], Liu Tong [ctb], Jake Kornblau [ctb], Xinnan Lu [ctb], Kiryl Novikau [ctb], Tongyue Luo [ctb], Le You [ctb], Jin Chen [ctb], Chengwei Ge [ctb], Jiayao Huang [ctb]
Date/Publication: 2015-05-07 07:48:37

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Package plotmo updated to version 3.1.0 with previous version 3.0.0 dated 2015-04-29

Title: Plot a Model's Response and Residuals
Description: Plot a model's response when varying one or two predictors while holding the other predictors constant. A poor man's partial dependence plot. Also plot model residuals.
Author: Stephen Milborrow
Maintainer: Stephen Milborrow <milbo@sonic.net>

Diff between plotmo versions 3.0.0 dated 2015-04-29 and 3.1.0 dated 2015-05-07

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 MD5                                     |   64 ++++++-------
 NEWS                                    |   18 +++
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 R/plotres.R                             |    2 
 R/plotresids.R                          |    6 +
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 R/quantreg.R                            |    6 -
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 R/singles.R                             |    2 
 R/w1.R                                  |    5 -
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 inst/slowtests/test.plotmo3.R           |    2 
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 man/plotmo.Rd                           |    7 -
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 man/plotres.Rd                          |    8 +
 33 files changed, 363 insertions(+), 282 deletions(-)

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New package loopr with initial version 1.0.0
Package: loopr
Type: Package
Title: Uses an Archive to Amend Previous Stages of a Pipe using Current Output
Version: 1.0.0
Date: 2015-05-07
Author: Brandon Taylor
Maintainer: Brandon Taylor <Brandon.Taylor221@gmail.com>
Description: Remedies a common problem in piping: not having access to intermediate outputs of the pipe. Within a "loop", a piping intermediate is stored in a stack archive, data is processed, and then both the stored intermediate and the current output are reintegrated using an "ending" function. Two special ending functions are provided: amend and insert. However, any ending function can be specified, including merge functions, join functions, setNames(), etc. This framework allows the following workflow: focus on a particular aspect or section of a dataset, conduct specific operations, and then reintegrate changes into the whole.
Depends: R (>= 3.1.3)
Imports: plyr (>= 1.8.1), dplyr (>= 0.4.1), magrittr (>= 1.5), lazyeval (>= 0.1.10), R6 (>= 2.0.1)
License: MIT + file LICENSE
LazyData: true
Suggests: knitr (>= 1.9)
VignetteBuilder: knitr
Packaged: 2015-05-07 04:40:30 UTC; haldane
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2015-05-07 07:48:38

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Package tm updated to version 0.6-1 with previous version 0.6 dated 2014-06-11

Title: Text Mining Package
Description: A framework for text mining applications within R.
Author: Ingo Feinerer [aut, cre], Kurt Hornik [aut], Artifex Software, Inc. [ctb, cph] (pdf_info.ps taken from GPL Ghostscript)
Maintainer: Ingo Feinerer <feinerer@logic.at>

Diff between tm versions 0.6 dated 2014-06-11 and 0.6-1 dated 2015-05-07

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 R/plot.R                 |   11 ++---
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 inst/doc/extensions.pdf  |binary
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 vignettes/extensions.Rnw |   13 +++---
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 38 files changed, 426 insertions(+), 208 deletions(-)

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