Title: Interface for the 'Wildbook' Wildlife Data Management Framework
Description: Provides an interface with the 'Wildbook' mark-recapture ecological database framework. It
helps users to pull data from the 'Wildbook' framework and format data for further analysis
with mark-recapture applications like 'Program MARK' (which can be accessed via the 'RMark' package in 'R').
Further information on the 'Wildbook' framework is available at: <http://www.wildbook.org/doku.php>.
Author: Simon Bonner [aut, cre],
Xinxin Huang [aut]
Maintainer: Simon Bonner <sbonner6@uwo.ca>
Diff between RWildbook versions 0.9.2 dated 2017-02-08 and 0.9.3 dated 2018-04-05
DESCRIPTION | 7 MD5 | 18 R/WBjdoql.R | 3 R/markedData.R | 366 ++++++++-------- R/searchWB.R | 3 build/vignette.rds |binary inst/doc/RWildbook_demo1_vignette.R | 52 +- inst/doc/RWildbook_demo1_vignette.html | 472 +++++++++++++++------ inst/doc/RWildbook_demo2_vignette.R | 92 ++-- inst/doc/RWildbook_demo2_vignette.html | 728 +++++++++++++++++++++------------ 10 files changed, 1077 insertions(+), 664 deletions(-)
Title: Fits Piecewise Constant Models with Data-Adaptive Knots
Description: Implements the fused lasso additive model as proposed in Petersen, A., Witten, D., and Simon, N. (2016). Fused Lasso Additive Model. Journal of Computational and Graphical Statistics, 25(4): 1005-1025.
Author: Ashley Petersen
Maintainer: Ashley Petersen <ashleyjpete@gmail.com>
Diff between flam versions 3.1 dated 2016-11-08 and 3.2 dated 2018-04-05
DESCRIPTION | 11 ++--- MD5 | 8 +-- R/RcppExports.R | 24 +++++----- src/RcppExports.cpp | 114 ++++++++++++++++++++++++++++++---------------------- src/fit.cpp | 4 - 5 files changed, 91 insertions(+), 70 deletions(-)
Title: Missing Value Imputation for Accelerometer Data
Description: Imputation for the missing count values in accelerometer data. The methodology includes both parametric and semi-parametric multiple imputations under the zero-inflated Poisson lognormal model. This package also provides multiple functions to pre-process the accelerometer data previous to the missing data imputation. These includes detecting wearing and non-wearing time, selecting valid days and subjects, and creating plots.
Author: Jung Ae Lee <julee@uark.edu>
Maintainer: Jung Ae Lee <jungaeleeb@gmail.com>
Diff between accelmissing versions 1.2 dated 2018-03-26 and 1.4 dated 2018-04-05
DESCRIPTION | 8 +- MD5 | 14 ++-- R/ACCELMISSING.R | 124 ++++++++++++++++++++++++---------------- man/accel.impute.Rd | 50 ++++++++-------- man/accelmissing-package.Rd | 4 - man/mice.impute.2l.zip.pmm.Rd | 5 + man/mice.impute.2l.zipln.Rd | 5 + man/mice.impute.2l.zipln.pmm.Rd | 5 + 8 files changed, 128 insertions(+), 87 deletions(-)
Title: R Commander Plug-in for the EZR (Easy R) Package
Description: EZR (Easy R) adds a variety of statistical functions, including survival analyses, ROC analyses, metaanalyses, sample size calculation, and so on, to the R commander. EZR enables point-and-click easy access to statistical functions, especially for medical statistics. EZR is platform-independent and runs on Windows, Mac OS X, and UNIX. Its complete manual is available only in Japanese (Chugai Igakusha, ISBN: 978-4-498-10901-8 or Nankodo, ISBN: 978-4-524-26158-1), but an report that introduced the investigation of EZR was published in Bone Marrow Transplantation (Nature Publishing Group) as an Open article. This report can be used as a simple manual. It can be freely downloaded from the journal website as shown below. This report has been cited in more than 1,000 scientific articles.
Author: Yoshinobu Kanda
Maintainer: Yoshinobu Kanda <ycanda-tky@umin.ac.jp>
Diff between RcmdrPlugin.EZR versions 1.36 dated 2017-08-30 and 1.37 dated 2018-04-05
DESCRIPTION | 10 ++--- MD5 | 20 +++++------ NEWS | 6 +++ R/EZR.R | 49 ++++++++++++++++++++++++---- inst/CHANGES | 6 +++ inst/doc/EZR.htm | 4 +- inst/doc/EZR.pdf |binary inst/po/ja/LC_MESSAGES/R-RcmdrPlugin.EZR.mo |binary man/EZR.Rd | 5 +- man/HistEZR.Rd | 4 +- po/R-RcmdrPlugin.EZR.po | 8 ++++ 11 files changed, 83 insertions(+), 29 deletions(-)
More information about RcmdrPlugin.EZR at CRAN
Permanent link
Title: Construct Complex Table with 'kable' and Pipe Syntax
Description: Build complex HTML or 'LaTeX' tables using 'kable()' from 'knitr'
and the piping syntax from 'magrittr'. Function 'kable()' is a light weight
table generator coming from 'knitr'. This package simplifies the way to
manipulate the HTML or 'LaTeX' codes generated by 'kable()' and allows
users to construct complex tables and customize styles using a readable
syntax.
Author: Hao Zhu [aut, cre] (<https://orcid.org/0000-0002-3386-6076>),
Thomas Travison [ctb],
Timothy Tsai [ctb],
Will Beasley [ctb],
Yihui Xie [ctb],
GuangChuang Yu [ctb],
Stéphane Laurent [ctb],
Rob Shepherd [ctb],
Yoni Sidi [ctb],
Brian Salzer [ctb],
George Gui [ctb]
Maintainer: Hao Zhu <haozhu233@gmail.com>
Diff between kableExtra versions 0.7.0 dated 2018-01-15 and 0.8.0 dated 2018-04-05
kableExtra-0.7.0/kableExtra/inst/doc/kableExtra_and_word.R |only kableExtra-0.7.0/kableExtra/inst/doc/kableExtra_and_word.Rmd |only kableExtra-0.7.0/kableExtra/inst/doc/kableExtra_and_word.html |only kableExtra-0.7.0/kableExtra/vignettes/kableExtra_and_word.Rmd |only kableExtra-0.7.0/kableExtra/vignettes/word.mp4 |only kableExtra-0.8.0/kableExtra/DESCRIPTION | 25 + kableExtra-0.8.0/kableExtra/MD5 | 91 +++---- kableExtra-0.8.0/kableExtra/NAMESPACE | 6 kableExtra-0.8.0/kableExtra/R/add_footnote.R | 1 kableExtra-0.8.0/kableExtra/R/add_header_above.R | 74 +++-- kableExtra-0.8.0/kableExtra/R/add_indent.R | 11 kableExtra-0.8.0/kableExtra/R/collapse_rows.R | 127 +++++++++- kableExtra-0.8.0/kableExtra/R/column_spec.R | 2 kableExtra-0.8.0/kableExtra/R/footnote.R | 61 +++- kableExtra-0.8.0/kableExtra/R/footnote_marker.R | 23 + kableExtra-0.8.0/kableExtra/R/from_knitr.R | 11 kableExtra-0.8.0/kableExtra/R/group_rows.R | 75 ++++- kableExtra-0.8.0/kableExtra/R/kableExtra-package.R | 8 kableExtra-0.8.0/kableExtra/R/kable_as_image.R | 13 - kableExtra-0.8.0/kableExtra/R/kable_styling.R | 44 +++ kableExtra-0.8.0/kableExtra/R/landscape.R | 2 kableExtra-0.8.0/kableExtra/R/linebreak.R |only kableExtra-0.8.0/kableExtra/R/print.R | 7 kableExtra-0.8.0/kableExtra/R/row_spec.R | 6 kableExtra-0.8.0/kableExtra/R/util.R | 13 - kableExtra-0.8.0/kableExtra/R/zzz.R | 2 kableExtra-0.8.0/kableExtra/README.md | 7 kableExtra-0.8.0/kableExtra/build/vignette.rds |binary kableExtra-0.8.0/kableExtra/inst/NEWS.md | 49 +++ kableExtra-0.8.0/kableExtra/inst/doc/awesome_table_in_html.R | 3 kableExtra-0.8.0/kableExtra/inst/doc/awesome_table_in_html.Rmd | 3 kableExtra-0.8.0/kableExtra/inst/doc/awesome_table_in_html.html | 57 ++-- kableExtra-0.8.0/kableExtra/inst/doc/awesome_table_in_pdf.R | 52 ++++ kableExtra-0.8.0/kableExtra/inst/doc/awesome_table_in_pdf.Rmd | 86 ++++++ kableExtra-0.8.0/kableExtra/inst/doc/awesome_table_in_pdf.pdf |binary kableExtra-0.8.0/kableExtra/inst/doc/best_practice_for_newline_in_latex_table.R |only kableExtra-0.8.0/kableExtra/inst/doc/best_practice_for_newline_in_latex_table.Rmd |only kableExtra-0.8.0/kableExtra/inst/doc/best_practice_for_newline_in_latex_table.pdf |only kableExtra-0.8.0/kableExtra/inst/doc/legacy_features.html | 8 kableExtra-0.8.0/kableExtra/inst/doc/use_kableExtra_with_formattable.html | 8 kableExtra-0.8.0/kableExtra/man/add_header_above.Rd | 9 kableExtra-0.8.0/kableExtra/man/collapse_rows.Rd | 19 + kableExtra-0.8.0/kableExtra/man/footnote_marker_number.Rd | 9 kableExtra-0.8.0/kableExtra/man/group_rows.Rd | 24 + kableExtra-0.8.0/kableExtra/man/kable_as_image.Rd | 8 kableExtra-0.8.0/kableExtra/man/kable_styling.Rd | 6 kableExtra-0.8.0/kableExtra/man/linebreak.Rd |only kableExtra-0.8.0/kableExtra/man/reexports.Rd | 4 kableExtra-0.8.0/kableExtra/man/spec_color.Rd | 2 kableExtra-0.8.0/kableExtra/vignettes/awesome_table_in_html.Rmd | 3 kableExtra-0.8.0/kableExtra/vignettes/awesome_table_in_pdf.Rmd | 86 ++++++ kableExtra-0.8.0/kableExtra/vignettes/best_practice_for_newline_in_latex_table.Rmd |only 52 files changed, 819 insertions(+), 226 deletions(-)
Title: Learning Algorithms for Dynamic Treatment Regimes
Description: Dynamic treatment regimens (DTRs) are sequential decision rules tailored at each stage by time-varying subject-specific features and intermediate outcomes observed in previous stages. This package implements three methods: O-learning (Zhao et. al. 2012,2014), Q-learning (Murphy et. al. 2007; Zhao et.al. 2009) and P-learning (Liu et. al. 2014, 2015) to estimate the optimal DTRs.
Author: Ying Liu, Yuanjia Wang, Donglin Zeng
Maintainer: Ying Liu <summeryingl@gmail.com>
Diff between DTRlearn versions 1.2 dated 2015-12-27 and 1.3 dated 2018-04-05
DESCRIPTION | 10 +++++----- MD5 | 2 +- 2 files changed, 6 insertions(+), 6 deletions(-)
Title: Causal Inference of QTL Networks
Description: Functions to Simultaneously Infer Causal Graphs and Genetic Architecture.
Includes acyclic and cyclic graphs for data from an experimental cross with a modest number (<10) of phenotypes driven by
a few genetic loci (QTL).
Chaibub Neto E, Keller MP, Attie AD, Yandell BS (2010)
Causal Graphical Models in Systems Genetics: a unified framework for joint inference of causal network and genetic architecture for correlated phenotypes.
Annals of Applied Statistics 4: 320-339.
<doi:10.1214/09-AOAS288>.
Author: Elias Chaibub Neto <echaibub@hotmail.com> and Brian S. yandell <brian.yandell@wisc.edu>
Maintainer: Brian S. Yandell <brian.yandell@wisc.edu>
Diff between qtlnet versions 1.3.6 dated 2014-03-13 and 1.4.4 dated 2018-04-05
DESCRIPTION | 23 MD5 | 48 - NAMESPACE | 18 R/average.R | 188 ++-- R/bic.R | 12 R/cov.matrix.R | 16 R/diag.R | 44 - R/generate.R | 1022 +++++++++++++------------- R/igraph.R | 280 +++---- R/loci.R | 414 +++++----- R/lod.score.R | 10 R/log.like.R | 51 - R/mcmc.R | 1940 +++++++++++++++++++++++++-------------------------- R/parallel.R | 8 R/qdg.R | 350 ++++----- R/scanone.R | 14 R/sem.R | 12 R/summary.R | 474 ++++++------ R/write.R | 100 +- build/vignette.rds |binary inst/doc/qtlnet.R | 34 inst/doc/qtlnet.Rnw | 1 inst/doc/qtlnet.pdf |binary man/parallel.Rd | 2 vignettes/qtlnet.Rnw | 1 25 files changed, 2544 insertions(+), 2518 deletions(-)
Title: Inference for QTL Hotspots
Description: Functions to infer co-mapping trait hotspots and causal models.
Chaibub Neto E, Keller MP, Broman AF, Attie AD, Jansen RC, Broman KW, Yandell BS (2012)
Quantile-based permutation thresholds for QTL hotspots. Genetics 191 : 1355-1365.
<doi:10.1534/genetics.112.139451>.
Chaibub Neto E, Broman AT, Keller MP, Attie AD, Zhang B, Zhu J, Yandell BS (2013)
Modeling causality for pairs of phenotypes in system genetics. Genetics 193 : 1003-1013.
<doi:10.1534/genetics.112.147124>.
Author: Elias Chaibub Neto <echaibub@hotmail.com> and Brian S Yandell <brian.yandell@wisc.edu>
Maintainer: Brian S. Yandell <brian.yandell@wisc.edu>
Diff between qtlhot versions 0.9.0 dated 2013-09-19 and 1.0.4 dated 2018-04-05
DESCRIPTION | 23 MD5 | 49 +- NAMESPACE | 22 R/add.phenos.R | 2 R/big.R | 9 R/cmst.R | 186 +++---- R/highlod.R | 18 R/hotperm.R | 54 +- R/hotsize.R | 20 R/multiple_testing_sim_functions.R | 758 ++++++++++++++++---------------- R/parallel.R | 28 - R/plotcmst.R | 40 - R/rug.R | 32 - R/simcmst.R | 216 ++++----- R/simhot.R | 30 - R/sliding.R | 36 - R/study.R | 392 ++++++++-------- R/utilcmst.R | 4 R/utilhot.R | 228 ++++----- build/vignette.rds |binary inst/doc/cmst.pdf |binary inst/doc/qtlhot.R | 2 inst/doc/qtlhot.Rnw | 876 ++++++++++++++++++------------------- inst/doc/qtlhot.pdf |binary src/register.c |only vignettes/qtlhot.Rnw | 876 ++++++++++++++++++------------------- 26 files changed, 1961 insertions(+), 1940 deletions(-)
Title: A Kernel Regression-Based Multidimensional Wind Turbine Power
Curve
Description: Provides wind energy practitioners with an effective machine learning-based
tool that estimates a multivariate power curve and predicts the wind power output
for a specific environmental condition.
Author: Yu Ding [aut],
Hoon Hwangbo [aut, cre]
Maintainer: Hoon Hwangbo <hhwangbo17@gmail.com>
Diff between kernplus versions 0.1.0 dated 2017-06-07 and 0.1.1 dated 2018-04-05
DESCRIPTION | 15 ++++----- MD5 | 14 ++++----- R/copyright.R | 4 +- R/data.R | 30 +++++++++---------- R/fit_kernels.R | 2 - R/pred_pwcurv.R | 85 +++++++++++++++++++++++++++++++++---------------------- man/kp.pwcurv.Rd | 78 +++++++++++++++++++++++++++----------------------- man/windpw.Rd | 30 +++++++++---------- 8 files changed, 139 insertions(+), 119 deletions(-)
Title: A 'Java' Platform Integration for 'R' with Programming Languages
'Groovy', 'JavaScript', 'JRuby' ('Ruby'), 'Jython' ('Python'),
and 'Kotlin'
Description: Provides a high-level integration for the 'Java' platform that makes 'Java' objects easy to use from within 'R'; provides a unified interface to integrate 'R' with several programming languages; and features extensive data exchange between 'R' and 'Java'. The 'jsr223'-supported programming languages include 'Groovy', 'JavaScript', 'JRuby' ('Ruby'), 'Jython' ('Python'), and 'Kotlin'. Any of these languages can use and extend 'Java' classes in natural syntax. Furthermore, solutions developed in any of the 'jsr223'-supported languages are also accessible to 'R' developers. The 'jsr223' package also features callbacks, script compiling, and string interpolation. In all, 'jsr223' significantly extends the computing capabilities of the 'R' software environment.
Author: Floid R. Gilbert [aut, cre],
David B. Dahl [aut]
Maintainer: Floid R. Gilbert <floid.r.gilbert@gmail.com>
Diff between jsr223 versions 0.3.0 dated 2018-03-13 and 0.3.1 dated 2018-04-05
jsr223-0.3.0/jsr223/vignettes/jsr223-concordance.tex |only jsr223-0.3.1/jsr223/DESCRIPTION | 6 jsr223-0.3.1/jsr223/MD5 | 23 +-- jsr223-0.3.1/jsr223/NAMESPACE | 6 jsr223-0.3.1/jsr223/NEWS | 13 + jsr223-0.3.1/jsr223/R/InitializePackage.R | 6 jsr223-0.3.1/jsr223/build/vignette.rds |binary jsr223-0.3.1/jsr223/inst/doc/jsr223.Rnw | 143 +++++++++---------- jsr223-0.3.1/jsr223/inst/doc/jsr223.pdf |binary jsr223-0.3.1/jsr223/tests/test-00-class-interfaces.R | 1 jsr223-0.3.1/jsr223/tests/test-01-data-exchange.R | 25 ++- jsr223-0.3.1/jsr223/vignettes/jsr223.Rnw | 143 +++++++++---------- jsr223-0.3.1/jsr223/vignettes/jsr223.bib | 22 +- 13 files changed, 217 insertions(+), 171 deletions(-)
Title: Isoscape Computation and Inference of Spatial Origins using
Mixed Models
Description: Building isoscapes using mixed models and inferring the geographic origin of
organisms based on their isotopic ratios. This package is essentially a
simplified interface to several other packages. It uses 'spaMM' for fitting
and predicting isoscapes, and assigning an organism's origin depending on its
isotopic ratio. 'IsoriX' also relies heavily on the package 'rasterVis' for
plotting the maps using lattice.
Author: Alexandre Courtiol [aut, cre],
François Rousset [aut],
Marie-Sophie Rohwaeder [aut],
Stephanie Kramer-Schadt [aut, cre]
Maintainer: Alexandre Courtiol <alexandre.courtiol@gmail.com>
Diff between IsoriX versions 0.7 dated 2017-08-14 and 0.7.1 dated 2018-04-05
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/isosim.R | 10 +++++----- R/plots.R | 13 +++++-------- build/vignette.rds |binary inst/NEWS.Rd | 13 +++++++++++++ man/isosim.Rd | 10 +++++----- 7 files changed, 39 insertions(+), 29 deletions(-)
Title: Item Response Theory Demo Collection
Description: Includes a collection of shiny applications to demonstrate
or to explore fundamental item response theory (IRT) concepts
such as estimation, scoring, and multidimensional IRT models.
Author: Metin Bulus [aut,cre]
Wes Bonifay [aut,cre]
Maintainer: Metin Bulus <bulusmetin@gmail.com>
Diff between irtDemo versions 0.1.3 dated 2018-02-05 and 0.1.4 dated 2018-04-05
DESCRIPTION | 11 - MD5 | 52 ++++---- NAMESPACE | 3 NEWS.md | 23 +-- README.md | 5 inst/DICH/global.R | 32 ++--- inst/DICH/server.R | 74 ++++++------ inst/DICH/ui.R | 25 ++-- inst/EAPMAP/global.R | 23 +-- inst/EAPMAP/server.R | 8 - inst/EAPMAP/ui.R | 51 ++++---- inst/EST2PL/server.R | 33 +++-- inst/EST2PL/ui.R | 31 ++--- inst/EST3PL/global.R | 32 ++--- inst/EST3PL/server.R | 306 ++++++++++++++++++++++++++------------------------- inst/EST3PL/ui.R | 30 ++--- inst/GPCM/server.R | 2 inst/GPCM/ui.R | 13 +- inst/GRM/server.R | 54 ++++----- inst/GRM/ui.R | 22 ++- inst/GRSM/server.R | 2 inst/GRSM/ui.R | 15 +- inst/MIRT/server.R | 60 ++++------ inst/MIRT/ui.R | 54 +++------ inst/NRM/server.R | 72 ++++++------ inst/NRM/ui.R | 23 ++- man/irtDemo.Rd | 4 27 files changed, 534 insertions(+), 526 deletions(-)
Title: Functions and R Code to Accompany Derivatives Markets
Description: A set of pricing and expository functions that should
be useful in teaching a course on financial derivatives.
Author: Robert McDonald [aut, cre, cph]
Maintainer: Robert McDonald <rmcd1024@gmail.com>
Diff between derivmkts versions 0.2.2 dated 2016-09-04 and 0.2.2.1 dated 2018-04-05
DESCRIPTION | 8 +-- MD5 | 48 +++++++++--------- NEWS.md | 14 +++++ R/greeks.R | 85 +++++++++++++++++++++------------ R/implied.R | 1 build/vignette.rds |binary inst/doc/Notes-on-vectorization.pdf |binary inst/doc/derivmkts-vignette.pdf |binary man/arithasianmc.Rd | 1 man/arithavgpricecv.Rd | 1 man/asiangeomavg.Rd | 1 man/barriers.Rd | 55 ++++++++++----------- man/binom.Rd | 3 - man/blksch.Rd | 5 - man/bondsimple.Rd | 5 - man/compound.Rd | 10 +-- man/geomasianmc.Rd | 1 man/greeks.Rd | 29 ++++++++--- man/implied.Rd | 7 +- man/jumps.Rd | 5 - man/perpetual.Rd | 3 - man/quincunx.Rd | 1 tests/testthat/greeks_tests.R | 58 +++++++++++++--------- tests/testthat/option_testvalues.Rdata |binary tests/testthat/perpetual_tests.R | 1 25 files changed, 200 insertions(+), 142 deletions(-)
Title: Relational Query Generator for Data Manipulation at Scale
Description: A 'SQL' query generator based on Edgar F. Codd's relational
algebra and experience using 'SQL' and 'dplyr' at big data
scale. The design represents an attempt to make 'SQL' more teachable by
denoting composition by a sequential pipeline notation instead of nested
queries or functions. The implementation delivers reliable high
performance data processing on large data systems such as `Spark`
and databases. Package features include: data processing trees
or pipelines as observable objects (able to report both columns
produced and columns used), optimized 'SQL' generation as an explicit
user visible modeling step, and convenience methods for applying query
trees to in-memory 'data.frame's.
Author: John Mount [aut, cre],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between rquery versions 0.4.1 dated 2018-03-18 and 0.4.2 dated 2018-04-05
rquery-0.4.1/rquery/vignettes/narrow.png |only rquery-0.4.2/rquery/DESCRIPTION | 8 rquery-0.4.2/rquery/MD5 | 77 +-- rquery-0.4.2/rquery/NAMESPACE | 7 rquery-0.4.2/rquery/NEWS.md | 7 rquery-0.4.2/rquery/R/dbi_ops.R | 397 +++++++++++++++-- rquery-0.4.2/rquery/R/ex_data_frame.R | 4 rquery-0.4.2/rquery/R/extend.R | 10 rquery-0.4.2/rquery/R/materialize.R | 90 +++ rquery-0.4.2/rquery/R/natural_join.R | 5 rquery-0.4.2/rquery/R/non_sql_node.R | 16 rquery-0.4.2/rquery/R/order_by.R | 31 - rquery-0.4.2/rquery/R/project.R | 5 rquery-0.4.2/rquery/R/relop.R | 2 rquery-0.4.2/rquery/R/rename.R | 6 rquery-0.4.2/rquery/R/select_columns.R | 10 rquery-0.4.2/rquery/R/select_rows.R | 5 rquery-0.4.2/rquery/R/sql_node.R | 10 rquery-0.4.2/rquery/R/table_source.R | 6 rquery-0.4.2/rquery/R/theta_join.R | 5 rquery-0.4.2/rquery/R/zzz.R |only rquery-0.4.2/rquery/README.md | 92 +++ rquery-0.4.2/rquery/inst/doc/AssigmentPartitioner.html | 4 rquery-0.4.2/rquery/inst/doc/QueryGeneration.R | 4 rquery-0.4.2/rquery/inst/doc/QueryGeneration.Rmd | 4 rquery-0.4.2/rquery/inst/doc/QueryGeneration.html | 4 rquery-0.4.2/rquery/inst/doc/rquery_intro.R | 4 rquery-0.4.2/rquery/inst/doc/rquery_intro.Rmd | 13 rquery-0.4.2/rquery/inst/doc/rquery_intro.html | 39 + rquery-0.4.2/rquery/man/dbi_colnames.Rd | 10 rquery-0.4.2/rquery/man/dbi_connection_name.Rd |only rquery-0.4.2/rquery/man/dbi_connection_preferences.Rd |only rquery-0.4.2/rquery/man/dbi_connection_tests.Rd |only rquery-0.4.2/rquery/man/dbi_copy_to.Rd | 10 rquery-0.4.2/rquery/man/dbi_execute.Rd |only rquery-0.4.2/rquery/man/dbi_table_exists.Rd |only rquery-0.4.2/rquery/man/execute.Rd | 4 rquery-0.4.2/rquery/man/getDBOption.Rd |only rquery-0.4.2/rquery/man/materialize.Rd | 5 rquery-0.4.2/rquery/man/materialize_sql_statement.Rd |only rquery-0.4.2/rquery/man/setDBOption.Rd |only rquery-0.4.2/rquery/man/to_sql.Rd | 4 rquery-0.4.2/rquery/vignettes/QueryGeneration.Rmd | 4 rquery-0.4.2/rquery/vignettes/present-2.png |only rquery-0.4.2/rquery/vignettes/rquery_intro.Rmd | 13 45 files changed, 771 insertions(+), 144 deletions(-)
Title: Adds Functionality to the R Markdown + Shiny Bootstrap Framework
Description: The Bootstrap framework lets you add some JavaScript functionality to your web site by
adding attributes to your HTML tags - Bootstrap takes care of the JavaScript
<https://getbootstrap.com/javascript>. If you are using R Markdown or Shiny, you can
use these functions to create collapsible sections, accordion panels, modals, tooltips,
popovers, and an accordion sidebar framework (not described at Bootstrap site).
Author: Ian Lyttle [aut, cre, cph] (<https://orcid.org/0000-0001-9962-4849>),
Schneider Electric [cph],
Alex Shum [ctb],
Emily Berry [ctb]
Maintainer: Ian Lyttle <ian.lyttle@schneider-electric.com>
Diff between bsplus versions 0.1.0 dated 2017-01-26 and 0.1.1 dated 2018-04-05
DESCRIPTION | 17 ++++---- MD5 | 71 ++++++++++++++++++---------------- NAMESPACE | 6 ++ NEWS.md | 10 ++++ R/accordion.R | 2 R/accordion_sidebar.R | 4 - R/button.R |only R/carousel.R | 2 R/collapse.R | 4 - R/embed_popover.R | 2 R/embed_tooltip.R | 2 R/modal.R | 28 +++++++------ R/panel.R |only R/set_attr.R | 40 +++++++++++++------ README.md | 11 ++++- inst/js/accordion_sidebar.js | 16 ++++++- man/bs_accordion.Rd | 3 - man/bs_accordion_sidebar.Rd | 7 +-- man/bs_append.Rd | 1 man/bs_attr.Rd | 10 +++- man/bs_button.Rd |only man/bs_carousel.Rd | 1 man/bs_carousel_caption.Rd | 1 man/bs_carousel_image.Rd | 3 - man/bs_collapse.Rd | 7 +-- man/bs_embed_popover.Rd | 3 - man/bs_embed_tooltip.Rd | 3 - man/bs_modal.Rd | 16 ++++--- man/bs_panel.Rd |only man/bs_set_data.Rd | 9 +--- man/bs_set_opts.Rd | 1 man/pipe.Rd | 1 man/render_html_fragment.Rd | 1 man/shinyInput_label_embed.Rd | 1 man/shiny_iconlink.Rd | 1 tests/testthat/test-button.R |only tests/testthat/test-collapse.R | 2 tests/testthat/test-modal.R | 4 - tests/testthat/test-tooltip_popover.R | 6 +- 39 files changed, 173 insertions(+), 123 deletions(-)
Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut],
Martin Studer [cre],
The Apache Software Foundation [ctb, cph] (Apache POI),
Graph Builder [ctb, cph] (Curvesapi Java library)
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>
Diff between XLConnect versions 0.2-14 dated 2018-01-23 and 0.2-15 dated 2018-04-05
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS | 4 ++++ R/onLoad.R | 7 ------- README.md | 2 +- build/vignette.rds |binary inst/doc/XLConnect.Rnw | 9 ++------- inst/doc/XLConnect.pdf |binary inst/doc/XLConnectImpatient.pdf |binary man/XLConnect-package.Rd | 6 +++--- vignettes/XLConnect.Rnw | 9 ++------- 11 files changed, 27 insertions(+), 40 deletions(-)
Title: Mixed-Effect Models, Particularly Spatial Models
Description: Inference in mixed-effect models, including generalized linear mixed models with spatial correlations and models with non-Gaussian random effects (e.g., Beta-Binomial). Variation in residual variance (heteroscedasticity) can itself be represented by a generalized linear mixed model. Various approximations of likelihood or restricted likelihood are implemented, in particular h-likelihood (Lee and Nelder 2001 <doi:10.1093/biomet/88.4.987>) and Laplace approximation.
Author: François Rousset [aut, cre, cph],
Jean-Baptiste Ferdy [aut, cph],
Alexandre Courtiol [aut],
GSL authors [ctb] (src/gsl_bessel.*)
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
Diff between spaMM versions 2.3.0 dated 2018-01-18 and 2.4.0 dated 2018-04-05
DESCRIPTION | 16 - MD5 | 166 +++++------ NAMESPACE | 32 +- R/CanonizeRanPars.R | 105 +++---- R/GLM.fit.R | 28 + R/HLCor.R | 4 R/HLCor_body.R | 113 ++----- R/HLFactorList.R | 24 - R/HLfit.R | 17 - R/HLfit_Internals.R | 433 ++++++++++++++++++----------- R/HLfit_b_internals.R | 9 R/HLfit_body.R | 303 ++++++++------------ R/HLframes.R | 55 +-- R/LR.R | 36 +- R/SEM.R |only R/bloc_lambda.R | 2 R/calc_LRT.R | 144 ++++----- R/calc_logdisp_cov.R | 20 - R/confint.R | 35 +- R/corMatern.R | 34 -- R/corrHLfit-internals.R | 403 ++++++++++---------------- R/corrHLfit.R | 6 R/corrHLfit_body.R | 151 +++------- R/corrMM.LRT.R | 57 ++- R/corrPars.R |only R/correlationFns.R | 55 ++- R/cov_new_fix.R | 168 ++++++----- R/determine_spprec.R | 38 +- R/extractors.R | 62 +--- R/fitme.R | 9 R/fitme_body.R | 318 +++++++++------------ R/fitmecorrHLfit_body_internals.R | 179 +++++++++-- R/generateName.R | 4 R/geo_info.R | 93 +++--- R/glm.reformat.R | 2 R/locoptim.R | 2 R/makeLowerUpper.R |only R/mapMM.R | 43 ++ R/merge_parlist.R | 7 R/newPLS.R | 5 R/plot.HLfit.R | 6 R/predict.R | 122 ++++---- R/predictor.R | 18 - R/preprocess.R | 415 +++++++++++++++++---------- R/preprocess_internals.R | 2 R/sXaug_EigenDense_QRP_Chol_scaled.R | 26 + R/sXaug_Matrix_QRP_CHM.R | 32 +- R/sXaug_sparsePrecisions.R | 24 - R/separator.R | 2 R/simulate.HL.R | 198 ++++++------- R/spaMM.data.R | 2 R/spaMM_boot.R |only R/summary.HL.R | 163 +++++----- R/update.HL.R | 4 R/utils.R | 2 inst/NEWS.Rd | 43 ++ man/COMPoisson.Rd | 16 - man/CauchyCorr.Rd |only man/GLM.fit.Rd | 2 man/HLfit.Rd | 10 man/Matern.corr.Rd | 4 man/anova.HLfit.Rd | 2 man/corrHLfit.Rd | 6 man/extractors.Rd | 20 - man/fitme.Rd | 17 - man/fixed.LRT.Rd | 8 man/fixed.Rd | 2 man/predict.Rd | 2 man/simulate.HLCor.Rd | 5 man/spaMM-internal.Rd | 16 - man/spaMM_boot.Rd |only man/summary.HL.Rd | 23 - tests/test-all.R | 4 tests/testthat/test-AR1.R | 17 - tests/testthat/test-LRT-boot.R | 6 tests/testthat/test-Nugget.R | 9 tests/testthat/test-Rasch.R | 2 tests/testthat/test-adjacency-corrMatrix.R | 6 tests/testthat/test-adjacency-long.R | 18 - tests/testthat/test-blackbox.R | 9 tests/testthat/test-cloglog.R | 25 + tests/testthat/test-corMatern.R | 33 ++ tests/testthat/test-dhglm.R | 5 tests/testthat/test-fixedLRT.R | 2 tests/testthat/test-random-slope.R | 13 tests/testthat/test-spaMM.R | 7 tests/testthat/test-truncated.R | 3 87 files changed, 2381 insertions(+), 2148 deletions(-)
Title: Programming with Big Data -- Scalable Linear Algebra Packages
Description: Utilizing scalable linear algebra packages mainly
including 'BLACS', 'PBLAS', and 'ScaLAPACK' in double precision via
'pbdMPI' based on 'ScaLAPACK' version 2.0.2.
Author: Wei-Chen Chen [aut, cre],
Drew Schmidt [aut],
George Ostrouchov [aut],
Pragneshkumar Patel [aut],
Brian Ripley [ctb] (Solaris & Mac)
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between pbdSLAP versions 0.2-3 dated 2018-01-05 and 0.2-4 dated 2018-04-05
ChangeLog | 8 ++++++++ DESCRIPTION | 26 +++++++++++++------------- MD5 | 24 ++++++++++++------------ README.md | 1 - inst/doc/pbdSLAP-guide.pdf |binary src/BLACS/BI_MringComb.c | 3 ++- src/BLACS/BI_TreeComb.c | 3 ++- src/PBLAS/PTOOLS/PB_Cpaxpby.c | 3 ++- src/PBLAS/pdswap_.c | 3 ++- src/REDIST/pdgemr.c | 12 ++++++++---- src/REDIST/pdtrmr.c | 12 ++++++++---- src/REDIST/pigemr.c | 12 ++++++++---- src/REDIST/pitrmr.c | 12 ++++++++---- 13 files changed, 73 insertions(+), 46 deletions(-)
Title: Loading NONMEM Output Files and Simulate with Parameter
Uncertainty
Description: Loading NONMEM (NONlinear Mixed-Effect Modeling, <http://www.iconplc.com/innovation/solutions/nonmem/> ) output files and simulate with parameter uncertainty.
Author: Magnus Astrand
Maintainer: Magnus Astrand <magnus.astrand@astrazeneca.com>
Diff between nonmem2R versions 0.1.8 dated 2018-02-09 and 0.1.9 dated 2018-04-05
DESCRIPTION | 8 +- MD5 | 50 ++++++++--------- NAMESPACE | 1 NEWS |only R/LoadNonmemOutput.R | 134 +++++++++++++++++++++++++++++++++++++++------- R/VPCs.R | 27 ++++++++- R/VPCs_ggplot.R | 60 +++++++++++++++++--- man/covload.Rd | 13 +++- man/covload.sub.table.Rd |only man/extFormat.Rd | 1 man/extToTable.Rd | 5 + man/extTransform.Rd | 1 man/extload.Rd | 1 man/extload.sub.table.Rd | 1 man/grid.sim.Rd | 1 man/grid.sim.internal1.Rd | 1 man/grid.sim.internal2.Rd | 1 man/grid.sim.internal3.Rd | 1 man/print.extToTable.Rd | 1 man/print.sumoR.Rd | 1 man/readVpc.Rd | 1 man/sumoR.Rd | 1 man/sumoRU.Rd | 1 man/systemPSN.Rd | 1 man/test.grid.sim.Rd | 1 man/vpcfig.Rd | 14 ++-- man/vpcfig2.Rd | 49 ++++++++++++---- 27 files changed, 277 insertions(+), 99 deletions(-)
Title: An Interface for Microclimate Time Series
Description: An R graphical user interface for microclimate time series, with an emphasis on underground environments. 'KarsTS' provides linear and nonlinear methods, including recurrence analysis (Marwan et al. (2007) <10.1016/j.physrep.2006.11.001>) and filling methods (Moffat et al. (2007) <doi:10.1016/j.agrformet.2007.08.011>), as well as tools to manipulate easily time series and gap sets.
Author: Marina Saez [aut, cre],
David Benavente [ths],
Soledad Cuezva [ths],
Concepcion Pla [ctb]
Maintainer: Marina Saez <marinasaez_andreu@hotmail.com>
Diff between KarsTS versions 2.0 dated 2018-01-31 and 2.1 dated 2018-04-05
DESCRIPTION | 16 MD5 | 330 +++---- NAMESPACE | 2 R/E1dAndE2d.R | 148 +-- R/KarsTS.R | 60 - R/RPKTS.R | 296 +++--- R/aboutKTS.R | 14 R/aggregateKTS.R | 312 +++--- R/anaSamPer.R | 174 +-- R/applyGap2TSer.R | 116 +- R/applyTheiler.R | 20 R/are2TsTimeCompatible.R | 16 R/areTsGapTimeCompatible.R | 22 R/areTsRmTimeCompatible.R | 14 R/arimaKalman.R | 530 +++++------ R/arimaXKalman.R | 640 ++++++------- R/assignMultiple.R | 22 R/buttons1.R | 106 +- R/buttons2.R | 94 +- R/buttons3.R | 118 +- R/buttons4.R | 110 +- R/buttons5.R | 88 - R/checkIfAny.R | 24 R/checkIfAnyGapOrTs.R | 26 R/checkIfAnyGapTs.R | 40 R/checkIfAnyRm.R | 22 R/checkIfAnyRmTs.R | 40 R/checkIfAnyTs.R | 22 R/cleanEnvir.R | 224 ++-- R/compareVecVec.R | 28 R/composeKTS.R | 890 +++++++++---------- R/createChb.R | 16 R/createChbChb.R | 32 R/createChbEntry.R | 34 R/createCrossRM.R | 382 ++++---- R/createCrossRMPlot.R | 1270 +++++++++++++-------------- R/createDistMatrix.R | 1125 ++++++++++++------------ R/createEachRb.R | 18 R/createEntry.R | 26 R/createGapChb.R | 32 R/createGapRb.R | 40 R/createJointRM.R | 380 ++++---- R/createNote.R | 16 R/createOK.R | 14 R/createRandGaps.R | 172 +-- R/createRandName.R | 8 R/createRb.R | 12 R/createRmChb.R | 32 R/createRmRb.R | 40 R/createSimpleRM.R | 238 ++--- R/createSimpleRMPlot.R | 1270 +++++++++++++-------------- R/createSpecGaps.R | 240 ++--- R/createSubPanR4C1.R | 40 R/createTitle.R | 16 R/createTsChb.R | 32 R/createTsRb.R | 42 R/createtitle_1.R | 18 R/cumuKTS.R | 130 +- R/destroyMainScreen.R | 8 R/destroyWelcome.R | 8 R/determinismKTS.R | 570 ++++++------ R/diffKTS.R | 162 +-- R/embedData.R | 22 R/endingLines.R | 24 R/exportall.R | 474 +++++----- R/fillWithTwins.R | 566 ++++++------ R/findDateFormat.R | 72 - R/findTwins.R | 148 +-- R/fnnKTS.R | 200 ++-- R/functToExport.R | 14 R/gamKTS.R | 698 +++++++-------- R/gapCheckedTF.R | 24 R/gapDetect.R | 60 - R/gapForSelMethod.R | 50 - R/genGapExample.R | 42 R/genRmExample.R | 128 +- R/genTSExample.R | 68 - R/getCRP.R | 70 - R/getClassEnvir.R | 24 R/getCoordsKTS.R | 276 ++--- R/getDelayCharTimes.R | 24 R/getGapsAfterFill.R | 26 R/getMaxNegSlope.R | 20 R/getMaxPosSlope.R | 20 R/getNAsGaps.R | 28 R/getNewGapsInd.R | 48 - R/getOtherErrEstim.R | 18 R/getProTaos.R | 68 - R/getRecurrencePoints.R | 100 +- R/getRollStatistics.R | 208 ++-- R/getSamPerTable.1Freq.R | 48 - R/getSamPerTable.R | 258 ++--- R/getScreenSize.R | 82 - R/getStatistics.R | 30 R/getUniqueSampPer.R | 32 R/goodnessFilling.R | 318 +++--- R/groupDates.R | 18 R/groupIndices.R | 24 R/histKTS.R | 148 +-- R/invariantsKTS.R | 420 ++++----- R/isTimeAlright.R | 62 - R/laminarityKTS.R | 374 ++++---- R/linCorrKTS.R | 238 ++--- R/linearityKTS.R | 326 +++---- R/littleTest.R | 238 ++--- R/loadAllTypes.R | 1370 ++++++++++++++--------------- R/loadKarsTSFonts.R | 54 - R/loessKTS.R | 282 +++--- R/mainScreen.R | 354 +++---- R/meanValue.R | 492 +++++----- R/mergeTsOrGap.R | 290 +++--- R/missForestKTS.R | 878 +++++++++--------- R/modeKTS.R | 12 R/mutInf.R | 734 +++++++-------- R/mutualKTS.R | 226 ++-- R/myApplyVector.R | 42 R/myLinModel.R | 230 ++-- R/myScale.R | 64 - R/naApproxKTS.R | 160 +-- R/naSplinesKTS.R | 178 +-- R/normalityKTS.R | 266 +++-- R/packagesToImport.R | 78 - R/pcaKTS.R | 224 ++-- R/plotTimeSeries.R | 1810 +++++++++++++++++++-------------------- R/readMultEntryvalues.R | 44 R/refreshDataSetsList.R | 228 ++-- R/removeAllTypes.R | 118 +- R/removeIfExists.R | 18 R/removePoints.R | 318 +++--- R/renameAllTypes.R | 180 +-- R/rmCheckedTF.R | 24 R/rmDetect.R | 64 - R/rmSlopeOutliers.R | 162 +-- R/rollStatisticsKTS.R | 176 +-- R/roundKTS.R | 164 +-- R/saveAllTypes.R | 180 +-- R/saveReport.R | 32 R/scaleKTS.R | 96 +- R/scattTimeSeries.R | 896 +++++++++---------- R/selectionGaps.R | 642 ++++++------- R/selectionTS.R | 248 ++--- R/separateEntry.R | 36 R/setCorrectDate.R | 82 - R/setwdKTS.R | 14 R/showHelp.R | 14 R/slopeOutliersBut.R | 340 +++---- R/stationarityKTS.R | 120 +- R/statisticsKTS.R | 94 +- R/stinemannKTS.R | 490 +++++----- R/stlplusKTS.R | 492 +++++----- R/theilerKTS.R | 120 +- R/tsCheckedTF.R | 24 R/tsDetect.R | 66 - R/verifyCharEntry.R | 24 R/verifyDateEntry.R | 58 - R/verifyIntEntry.R | 24 R/verifyRealEntry.R | 26 R/welcomeScreen.R | 122 +- R/windRoseKTS.R | 280 +++--- R/writeMethodSummary.R | 56 - R/writeMethodTitle.R | 12 build/partial.rdb |binary inst/extdata/KarsTS-manual.pdf |binary inst/extdata/KarsTSUserGuide.pdf |binary inst/extdata/aboutKTS.txt | 6 man/KarsTS-package.Rd | 4 166 files changed, 15502 insertions(+), 15459 deletions(-)
Title: JAR Dependencies for the XLConnect Package
Description: Provides external JAR dependencies for the XLConnect package.
Author: Mirai Solutions GmbH [aut],
Martin Studer [cre],
The Apache Software Foundation [ctb, cph] (Apache POI, Apache XMLBeans,
Apache Commons Codec, Apache Commons Collections),
Stephen Colebourne [ctb, cph] (Joda-Time Java library)
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>
Diff between XLConnectJars versions 0.2-14 dated 2018-01-23 and 0.2-15 dated 2018-04-05
DESCRIPTION | 8 ++-- MD5 | 8 ++-- NEWS | 3 + R/onLoad.R | 4 +- man/XLConnectJars-package.Rd | 70 +++++++++++++++++++++---------------------- 5 files changed, 48 insertions(+), 45 deletions(-)
Title: Tools for Remote Sensing Data Analysis
Description: Toolbox for remote sensing image processing and analysis such as
calculating spectral indices, principal component transformation, unsupervised
and supervised classification or fractional cover analyses.
Author: Benjamin Leutner [cre, aut],
Ned Horning [aut],
Jakob Schwalb-Willmann [aut]
Maintainer: Benjamin Leutner <benjamin.leutner@uni-wuerzburg.de>
Diff between RStoolbox versions 0.1.10 dated 2017-11-10 and 0.2.0 dated 2018-04-05
DESCRIPTION | 14 MD5 | 98 +++--- NAMESPACE | 2 NEWS | 10 R/RStoolbox.R | 4 R/RcppExports.R | 4 R/classifyQA.R | 94 +++--- R/cloudMask.R | 2 R/coregisterImages.R | 8 R/encodeQA.R | 2 R/estimateHaze.R | 10 R/fCover.R | 190 ++++++------ R/getMeta.R | 32 +- R/getValidation.R | 2 R/ggR.R | 6 R/ggRGB.R | 274 ++++++++--------- R/histMatch.R | 12 R/internalFunctions.R | 10 R/mesma.R |only R/mlc.R | 77 ++--- R/panSharpen.R | 10 R/pifMatch.R | 92 +++--- R/radCor.R | 420 +++++++++++++-------------- R/rasterPCA.R | 74 ++-- R/readEE.R | 40 +- R/readMeta.R | 114 +++---- R/readSLI.R | 2 R/rescaleImage.R | 4 R/sam.R | 2 R/saveRSTBX.R | 2 R/spectralIndices.R | 42 +- R/stackMeta.R | 34 +- R/superClass.R | 672 ++++++++++++++++++++++---------------------- R/tasseledCap.R | 4 R/topCor.R | 6 R/unsuperClass.R | 60 +-- R/validateMap.R | 6 man/RStoolbox.Rd | 2 man/fCover.Rd | 2 man/mesma.Rd |only man/panSharpen.Rd | 4 man/pifMatch.Rd | 2 man/predict.superClass.Rd | 2 man/radCor.Rd | 2 man/readEE.Rd | 4 man/sam.Rd | 2 man/superClass.Rd | 4 man/validateMap.Rd | 4 src/RcppExports.cpp | 14 src/init.c | 4 src/nnls_solver.cpp |only tests/testthat/test-mesma.R |only 52 files changed, 1263 insertions(+), 1218 deletions(-)
Title: Tools to Visualize, Manipulate, and Summarize MCMC Output
Description: Performs key functions for MCMC analysis using minimal code - visualizes, manipulates, and summarizes MCMC output. Functions support simple and straightforward subsetting of model parameters within the calls, and produce presentable and 'publication-ready' output. MCMC output may be derived from Bayesian model output fit with JAGS, Stan, or other MCMC samplers.
Author: Casey Youngflesh [aut, cre] (<https://orcid.org/0000-0001-6343-3311>)
Maintainer: Casey Youngflesh <caseyyoungflesh@gmail.com>
Diff between MCMCvis versions 0.9.4 dated 2018-01-27 and 0.10.0 dated 2018-04-05
MCMCvis-0.10.0/MCMCvis/DESCRIPTION | 11 - MCMCvis-0.10.0/MCMCvis/MD5 | 43 ++-- MCMCvis-0.10.0/MCMCvis/NEWS.md | 28 ++ MCMCvis-0.10.0/MCMCvis/R/MCMCchains.R | 13 - MCMCvis-0.10.0/MCMCvis/R/MCMCplot.R | 23 +- MCMCvis-0.10.0/MCMCvis/R/MCMCpstr.R | 5 MCMCvis-0.10.0/MCMCvis/R/MCMCsummary.R | 10 - MCMCvis-0.10.0/MCMCvis/R/MCMCtrace.R | 48 ++++ MCMCvis-0.10.0/MCMCvis/data/MCMC_data.rda |binary MCMCvis-0.10.0/MCMCvis/inst/doc/MCMCvis.R | 89 ++++++++- MCMCvis-0.10.0/MCMCvis/inst/doc/MCMCvis.Rmd | 131 +++++++++++-- MCMCvis-0.10.0/MCMCvis/inst/doc/MCMCvis.html | 262 +++++++++++++++------------ MCMCvis-0.10.0/MCMCvis/man/MCMCchains.Rd | 4 MCMCvis-0.10.0/MCMCvis/man/MCMCplot.Rd | 17 + MCMCvis-0.10.0/MCMCvis/man/MCMCsummary.Rd | 4 MCMCvis-0.10.0/MCMCvis/man/MCMCtrace.Rd | 8 MCMCvis-0.10.0/MCMCvis/tests |only MCMCvis-0.10.0/MCMCvis/vignettes/MCMCvis.Rmd | 131 +++++++++++-- MCMCvis-0.9.4/MCMCvis/data/datalist |only 19 files changed, 595 insertions(+), 232 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-03-01 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-04-08 0.8.1
2015-03-11 0.8.0
2014-06-18 0.6.0
2014-03-04 0.2.5
2014-02-11 0.2.2
2014-02-10 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-03-04 1.1.4
2018-02-04 1.1.3
2016-08-18 1.1.2
2016-08-11 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-28 1.9
2015-07-01 1.8
2015-03-02 1.7
2015-01-29 1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-15 0.2
2017-11-17 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-07-02 1.5-9
2013-11-27 1.5-8
2013-07-24 1.5-7
2013-07-15 1.5-6
2012-06-12 1.5-5
2011-06-04 1.5-4
2011-05-24 1.5-3
2011-04-05 1.5-2
2011-02-11 1.5-1
2011-01-04 1.5-0
2010-12-09 1.4-3
2010-08-08 1.4-2
2010-01-12 1.4-1
2009-10-09 1.4-0
2009-01-30 1.3-3
2009-01-18 1.3-2
2008-12-19 1.3-1
2008-12-13 1.3-0
2008-07-07 1.2-0
2008-06-19 1.1-2
2008-04-08 1.1-1
2007-12-05 1.0-11
2007-11-21 1.0-10
2007-11-20 1.0-8
2007-08-25 1.0-6
2007-08-07 1.0-5
2007-07-29 1.0-3
2007-05-31 1.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-13 0.1.1
2016-10-25 0.1.0
Title: Unconstrained Optimization using the Subplex Algorithm
Description: The subplex algorithm for unconstrained optimization, developed by Tom Rowan <http://www.netlib.org/opt/subplex.tgz>.
Author: Aaron A. King [aut, trl, cre],
Tom Rowan [aut]
Maintainer: Aaron A. King <kingaa@umich.edu>
Diff between subplex versions 1.5-2 dated 2018-02-11 and 1.5-4 dated 2018-04-05
DESCRIPTION | 8 +- MD5 | 6 +- src/call_subplex.c | 2 src/partx.f | 142 ++++++++++++++++++++++++++--------------------------- 4 files changed, 79 insertions(+), 79 deletions(-)
Title: Statistical Analysis of Chemistry, Histopathology, and
Reproduction Endpoints Including Repeated Measures and
Multi-Generation Studies
Description: A front end for the statistical analyses involved in the tier II endocrine
disruptor screening program. The analyses available to this package are:
Rao-Scott adjusted Cochran-Armitage test for trend By Slices (RSCABS),
a Standard Cochran-Armitage test for trend By Slices (SCABS),
mixed effects Cox proportional model, Jonckheere-Terpstra step down trend test
Dunn test, one way ANOVA, weighted ANOVA, mixed effects ANOVA, repeated
measures ANOVA, and Dunnett test.
Author: Joe Swintek [aut, cre],
Kevin Flynn [ctb],
Jon Haselman [ctb]
Maintainer: Joe Swintek <swintek.joe@epa.gov>
Diff between StatCharrms versions 0.90.8 dated 2018-03-29 and 0.90.9 dated 2018-04-05
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/Run.StatCharrms.R | 2 +- R/ShowChangeLog.R | 5 ++++- inst/doc/StatCharrms.Rnw | 8 ++++---- inst/doc/StatCharrms.pdf |binary vignettes/StatCharrms.Rnw | 8 ++++---- 7 files changed, 23 insertions(+), 20 deletions(-)
More information about SnakesAndLaddersAnalysis at CRAN
Permanent link
Title: Analysis of Ecological Data: Exploratory and Euclidean Methods
in Environmental Sciences
Description: Tools for multivariate data analysis. Several methods are provided for the analysis (i.e., ordination) of one-table (e.g., principal component analysis, correspondence analysis), two-table (e.g., coinertia analysis, redundancy analysis), three-table (e.g., RLQ analysis) and K-table (e.g., STATIS, multiple coinertia analysis). The philosophy of the package is described in Dray and Dufour (2007) <doi:10.18637/jss.v022.i04>.
Author: Stéphane Dray <stephane.dray@univ-lyon1.fr>, Anne-Béatrice Dufour <anne-beatrice.dufour@univ-lyon1.fr>, and Jean Thioulouse <jean.thioulouse@univ-lyon1.fr>, with contributions from Thibaut Jombart, Sandrine Pavoine, Jean R. Lobry, Sébastien Ollier, Daniel Borcard, Pierre Legendre and Aurélie Siberchicot. Based on earlier work by Daniel Chessel.
Maintainer: Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between ade4 versions 1.7-10 dated 2017-12-15 and 1.7-11 dated 2018-04-05
ChangeLog | 57 +++++++++++++++++++++++++++++++++++++++++++++++++++++ DESCRIPTION | 8 +++---- MD5 | 18 ++++++++-------- NAMESPACE | 1 R/coinertia.R | 4 +-- R/dudi.coa.R | 3 ++ R/dudi.mix.R | 4 +-- R/randtest.pcaiv.R | 2 - R/suprow.R | 15 +++++++++++++ man/suprow.Rd | 4 ++- 10 files changed, 97 insertions(+), 19 deletions(-)
Title: Relative Survival
Description: Various functions for relative survival analysis: regression and non-parametric estimators. See Pohar Perme et al (2016), <doi: 10.1186/s12885-016-2967-9> and Pohar et al (2006), <doi: 10.1016/j.cmpb.2006.01.004>.
Author: Maja Pohar Perme [aut, cre],
Klemen Pavlic [ctb]
Maintainer: Maja Pohar Perme <maja.pohar@mf.uni-lj.si>
Diff between relsurv versions 2.1-1 dated 2017-10-05 and 2.1-2 dated 2018-04-05
DESCRIPTION | 13 +++++++------ MD5 | 22 +++++++++++----------- data/colrec.rda |binary data/rdata.rda |binary man/cmprel.Rd | 2 +- man/plotcmprel.Rd | 2 +- man/rsadd.Rd | 2 +- man/rsdiff.Rd | 2 +- man/rsmul.Rd | 2 +- man/rssurv.Rd | 2 +- man/rstrans.Rd | 2 +- man/summary.cmp.rel.Rd | 2 +- 12 files changed, 26 insertions(+), 25 deletions(-)
Title: Descriptive mAchine Learning EXplanations
Description: Machine Learning (ML) models are widely used and have various applications in classification
or regression. Models created with boosting, bagging, stacking or similar techniques are often
used due to their high performance, but such black-box models usually lack of interpretability.
'DALEX' package contains various explainers that help to understand the link between input variables and model output.
The single_variable() explainer extracts conditional response of a model as a function of a single selected variable.
It is a wrapper over packages 'pdp' and 'ALEPlot'.
The single_prediction() explainer attributes arts of model prediction to articular variables used in the model.
It is a wrapper over 'breakDown' package.
The variable_dropout() explainer assess variable importance based on consecutive permutations.
All these explainers can be plotted with generic plot() function and compared across different models.
Author: Przemyslaw Biecek [aut, cre]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between DALEX versions 0.1.1 dated 2018-02-28 and 0.2.0 dated 2018-04-05
DALEX-0.1.1/DALEX/man/plot.single_prediction_explainer.Rd |only DALEX-0.1.1/DALEX/man/plot.single_variable_explainer.Rd |only DALEX-0.1.1/DALEX/man/plot.variable_dropout_explainer.Rd |only DALEX-0.1.1/DALEX/man/single_prediction.Rd |only DALEX-0.1.1/DALEX/man/single_variable.Rd |only DALEX-0.1.1/DALEX/man/variable_dropout.Rd |only DALEX-0.2.0/DALEX/DESCRIPTION | 8 - DALEX-0.2.0/DALEX/MD5 | 45 ++++-- DALEX-0.2.0/DALEX/NAMESPACE | 20 ++- DALEX-0.2.0/DALEX/NEWS.md | 13 + DALEX-0.2.0/DALEX/R/apartments.R |only DALEX-0.2.0/DALEX/R/explain.R | 19 ++ DALEX-0.2.0/DALEX/R/model_performance.R |only DALEX-0.2.0/DALEX/R/plot_model_performance.R |only DALEX-0.2.0/DALEX/R/plot_single_prediction.R | 14 +- DALEX-0.2.0/DALEX/R/plot_single_variable.R | 72 +++++++++-- DALEX-0.2.0/DALEX/R/plot_variable_dropout.R | 19 +- DALEX-0.2.0/DALEX/R/single_prediction.R | 25 ++- DALEX-0.2.0/DALEX/R/single_variable.R | 63 +++++++-- DALEX-0.2.0/DALEX/R/variable_dropout.R | 39 +++-- DALEX-0.2.0/DALEX/R/zzz.R | 5 DALEX-0.2.0/DALEX/data |only DALEX-0.2.0/DALEX/man/apartments.Rd |only DALEX-0.2.0/DALEX/man/explain.Rd | 12 + DALEX-0.2.0/DALEX/man/model_performance.Rd |only DALEX-0.2.0/DALEX/man/plot.model_performance_explainer.Rd |only DALEX-0.2.0/DALEX/man/plot.prediction_breakdown_explainer.Rd |only DALEX-0.2.0/DALEX/man/plot.variable_importance_explainer.Rd |only DALEX-0.2.0/DALEX/man/plot.variable_response_explainer.Rd |only DALEX-0.2.0/DALEX/man/prediction_breakdown.Rd |only DALEX-0.2.0/DALEX/man/print.model_performance_explainer.Rd |only DALEX-0.2.0/DALEX/man/variable_importance.Rd |only DALEX-0.2.0/DALEX/man/variable_response.Rd |only 33 files changed, 248 insertions(+), 106 deletions(-)
Title: An S4 Lattice-Based Package for the Representation of
Multivariate Data
Description: Graphical functionalities for the representation of multivariate data. It is a complete re-implementation of the functions available in the 'ade4' package.
Author: Stéphane Dray <stephane.dray@univ-lyon1.fr> and Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>, with contributions from Jean Thioulouse. Based on earlier work by Alice Julien-Laferrière.
Maintainer: Aurélie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between adegraphics versions 1.0-9 dated 2017-12-15 and 1.0-10 dated 2018-04-05
DESCRIPTION | 11 MD5 | 36 +- NAMESPACE | 4 R/ADEg.S1.R | 2 R/ADEg.S2.R | 6 R/C1.hist.R | 33 +- R/ade4-plot.R | 130 ++++++-- R/ade4-score.R | 96 ++++-- R/utils.R | 2 R/utilsADEgS.R | 37 +- build/vignette.rds |binary inst/CITATION |only inst/doc/adegraphics.Rmd | 2 inst/doc/adegraphics.html | 713 ++++++++++++++++++++++----------------------- man/S2.class-class.Rd | 2 man/adegraphics-package.Rd | 8 man/plot.inertia.Rd | 4 tests/s1d.hist.R |only vignettes/adegraphics.Rmd | 2 vignettes/adegraphics.bib | 41 +- 20 files changed, 655 insertions(+), 474 deletions(-)
More information about SurfaceTortoise at CRAN
Permanent link
Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods.
A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.
Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
Author: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>,
Rolf Turner <r.turner@auckland.ac.nz>
and Ege Rubak <rubak@math.aau.dk>,
with substantial contributions of code by
Kasper Klitgaard Berthelsen;
Ottmar Cronie;
Yongtao Guan;
Ute Hahn;
Abdollah Jalilian;
Marie-Colette van Lieshout;
Greg McSwiggan;
Tuomas Rajala;
Suman Rakshit;
Dominic Schuhmacher;
Rasmus Waagepetersen;
and Hangsheng Wang.
Additional contributions
by M. Adepeju;
C. Anderson;
Q.W. Ang;
J. Astrom;
M. Austenfeld;
S. Azaele;
M. Baddeley;
C. Beale;
M. Bell;
R. Bernhardt;
T. Bendtsen;
A. Bevan;
B. Biggerstaff;
A. Bilgrau;
L. Bischof;
C. Biscio;
R. Bivand;
J.M. Blanco Moreno;
F. Bonneu;
J. Burgos;
S. Byers;
Y.M. Chang;
J.B. Chen;
I. Chernayavsky;
Y.C. Chin;
B. Christensen;
J.-F. Coeurjolly;
K. Colyvas;
R. Constantine;
R. Corria Ainslie;
R. Cotton;
M. de la Cruz;
P. Dalgaard;
M. D'Antuono;
S. Das;
T. Davies;
P.J. Diggle;
P. Donnelly;
I. Dryden;
S. Eglen;
A. El-Gabbas;
B. Fandohan;
O. Flores;
E.D. Ford;
P. Forbes;
S. Frank;
J. Franklin;
N. Funwi-Gabga;
O. Garcia;
A. Gault;
J. Geldmann;
M. Genton;
S. Ghalandarayeshi;
J. Gilbey;
J. Goldstick;
P. Grabarnik;
C. Graf;
U. Hahn;
A. Hardegen;
M.B. Hansen;
M. Hazelton;
J. Heikkinen;
M. Hering;
M. Herrmann;
P. Hewson;
K. Hingee;
K. Hornik;
P. Hunziker;
J. Hywood;
R. Ihaka;
C. Icos;
A. Jammalamadaka;
R. John-Chandran;
D. Johnson;
M. Khanmohammadi;
R. Klaver;
P. Kovesi;
L. Kozmian-Ledward;
M. Kuhn;
J. Laake;
F. Lavancier;
T. Lawrence;
R.A. Lamb;
J. Lee;
G.P. Leser;
A. Li;
H.T. Li;
G. Limitsios;
A. Lister;
B. Madin;
M. Maechler;
J. Marcus;
K. Marchikanti;
R. Mark;
J. Mateu;
P. McCullagh;
U. Mehlig;
F. Mestre;
S. Meyer;
X.C. Mi;
L. De Middeleer;
R.K. Milne;
E. Miranda;
J. Moller;
I. Moncada;
M. Moradi;
V. Morera Pujol;
E. Mudrak;
G.M. Nair;
N. Najari;
N. Nava;
L.S. Nielsen;
F. Nunes;
J.R. Nyengaard;
J. Oehlschlaegel;
T. Onkelinx;
S. O'Riordan;
E. Parilov;
J. Picka;
N. Picard;
M. Porter;
S. Protsiv;
A. Raftery;
S. Rakshit;
B. Ramage;
P. Ramon;
X. Raynaud;
N. Read;
M. Reiter;
I. Renner;
T.O. Richardson;
B.D. Ripley;
E. Rosenbaum;
B. Rowlingson;
J. Rudokas;
J. Rudge;
C. Ryan;
F. Safavimanesh;
A. Sarkka;
C. Schank;
K. Schladitz;
S. Schutte;
B.T. Scott;
O. Semboli;
F. Semecurbe;
V. Shcherbakov;
G.C. Shen;
P. Shi;
H.-J. Ship;
T.L. Silva;
I.-M. Sintorn;
Y. Song;
M. Spiess;
M. Stevenson;
K. Stucki;
M. Sumner;
P. Surovy;
B. Taylor;
T. Thorarinsdottir;
L. Torres;
B. Turlach;
T. Tvedebrink;
K. Ummer;
M. Uppala;
A. van Burgel;
T. Verbeke;
M. Vihtakari;
A. Villers;
F. Vinatier;
S. Voss;
S. Wagner;
H. Wang;
H. Wendrock;
J. Wild;
C. Witthoft;
S. Wong;
M. Woringer;
M.E. Zamboni
and
A. Zeileis.
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat versions 1.55-0 dated 2018-01-29 and 1.55-1 dated 2018-04-05
DESCRIPTION | 17 +- MD5 | 257 +++++++++++++++---------------- NAMESPACE | 16 + NEWS | 148 +++++++++++++++++ R/Gcom.R | 4 R/Kcom.R | 4 R/anova.ppm.R | 2 R/areainter.R | 5 R/badgey.R | 3 R/cdftest.R | 127 ++++++++------- R/closepairs.R | 63 ++++++- R/concom.R | 3 R/dg.R | 77 ++++++--- R/dgs.R | 11 - R/distfun.R | 2 R/evalcovar.R | 12 - R/fii.R | 6 R/fiksel.R | 24 ++ R/fitted.ppm.R | 36 +++- R/funxy.R | 9 - R/geyer.R | 151 +++++++++++++----- R/hardcore.R | 19 +- R/hierhard.R | 5 R/hierpair.family.R | 80 ++++++++- R/hierstrauss.R | 3 R/hierstrhard.R | 5 R/hybrid.R | 8 R/hybrid.family.R | 6 R/indices.R | 12 - R/kppm.R | 2 R/lennard.R | 3 R/leverage.R | 274 ++++++++++++++++++++++++--------- R/lineardisc.R | 8 R/linim.R | 8 R/linnet.R | 14 + R/lppm.R | 15 + R/measures.R | 63 ++++++- R/mpl.R | 379 +++++++++++++++++++++++++++++++++++----------- R/multihard.R | 3 R/multistrauss.R | 1 R/multistrhard.R | 3 R/nearestsegment.R | 6 R/nndistlpp.R | 40 ++-- R/nnmap.R | 6 R/nnmark.R | 3 R/ord.R | 3 R/ordthresh.R | 3 R/pairpiece.R | 3 R/pairwise.R | 3 R/pairwise.family.R | 159 ++++++++++++++----- R/penttinen.R | 3 R/plot.im.R | 5 R/plot.ppp.R | 4 R/ppm.R | 4 R/ppmclass.R | 36 +++- R/predict.ppm.R | 26 ++- R/predictmppm.R | 24 ++ R/psst.R | 4 R/psstA.R | 6 R/psstG.R | 6 R/quadclass.R | 4 R/residppm.R | 2 R/rho2hat.R | 2 R/rhohat.R | 4 R/satpiece.R | 3 R/saturated.R | 3 R/softcore.R | 3 R/solist.R | 11 + R/sparse3Darray.R | 14 - R/sparsecommon.R | 5 R/ssf.R | 28 ++- R/strauss.R | 40 +++- R/strausshard.R | 112 ++++++++----- R/symbolmap.R | 11 + R/sysdata.rda |binary R/tess.R | 165 ++++++++++++++------ R/triplets.R | 3 R/units.R | 10 - R/unstack.R | 25 +-- R/vcov.kppm.R | 7 R/window.R | 26 ++- build/vignette.rds |binary inst/doc/Nickname.txt | 2 inst/doc/datasets.pdf |binary inst/doc/getstart.pdf |binary inst/doc/packagesizes.txt | 1 inst/doc/replicated.pdf |binary inst/doc/shapefiles.pdf |binary inst/doc/updates.R | 24 ++ inst/doc/updates.Rnw | 207 ++++++++++++++++++++----- inst/doc/updates.pdf |binary man/Softcore.Rd | 70 +++++--- man/as.im.Rd | 8 man/as.owin.Rd | 34 ++-- man/cdf.test.mppm.Rd | 5 man/closepairs.Rd | 8 man/dfbetas.ppm.Rd | 4 man/distfun.Rd | 8 man/fitted.ppm.Rd | 13 + man/funxy.Rd | 3 man/has.close.Rd | 1 man/influence.ppm.Rd | 3 man/integral.linim.Rd | 13 + man/integral.msr.Rd | 10 + man/leverage.ppm.Rd | 5 man/lineardisc.Rd | 6 man/macros/defns.Rd | 2 man/methods.funxy.Rd | 12 - man/methods.ssf.Rd | 40 +++- man/plot.solist.Rd | 3 man/plot.tess.Rd | 56 +++++- man/predict.ppm.Rd | 8 man/pseudoR2.Rd | 31 ++- man/spatstat-internal.Rd | 44 +++-- man/spatstat-package.Rd | 3 man/suffstat.Rd | 9 - man/summary.distfun.Rd |only man/unstack.ppp.Rd | 13 + man/unstack.solist.Rd |only man/vcov.kppm.Rd | 2 src/Ediggra.c | 79 +++++++++ src/closefuns.h | 2 src/init.c | 2 src/periodic.c |only src/proto.h | 4 tests/testsAtoF.R | 95 ++++++++++- tests/testsGtoK.R | 42 ++++- tests/testsLtoM.R | 9 - tests/testsNtoP.R | 10 + tests/testsStoZ.R | 62 ++++++- vignettes/updates.Rnw | 207 ++++++++++++++++++++----- 131 files changed, 2857 insertions(+), 1013 deletions(-)
Title: Variable Selection for Missing Data
Description: Use a regularization likelihood method to achieve variable selection purpose. Likelihood can be worked with penalty lasso, smoothly clipped absolute deviations (SCAD), and minimax concave penalty (MCP).
Tuning parameter selection techniques include cross validation (CV), Bayesian information criterion (BIC) (low and high), stability of variable selection (sVS), stability of BIC (sBIC), and stability of estimation (sEST).
More details see Jiwei Zhao, Yang Yang, and Yang Ning (2018) <arXiv:1703.06379> "Penalized pairwise pseudo likelihood for variable selection with nonignorable missing data." Statistica Sinica.
Author: Jiwei Zhao, Yang Yang, and Ning Yang
Maintainer: Yang Yang <yyang39@buffalo.edu>
Diff between TVsMiss versions 0.1.0 dated 2018-03-13 and 0.1.1 dated 2018-04-05
DESCRIPTION | 16 +++++++++------- MD5 | 6 +++--- NEWS.md | 3 +++ src/binomial.c | 2 +- 4 files changed, 16 insertions(+), 11 deletions(-)
Title: Visualization Methods for Raster Data
Description: Methods for enhanced visualization and interaction with raster data. It implements visualization methods for quantitative data and categorical data, both for univariate and multivariate rasters. It also provides methods to display spatiotemporal rasters, and vector fields. See the website for examples.
Author: Oscar Perpinan Lamigueiro [cre, aut]
(<https://orcid.org/0000-0002-4134-7196>),
Robert Hijmans [aut]
Maintainer: Oscar Perpinan Lamigueiro <oscar.perpinan@gmail.com>
Diff between rasterVis versions 0.43 dated 2018-01-10 and 0.44 dated 2018-04-05
DESCRIPTION | 11 ++++++----- MD5 | 6 +++--- R/xyplot.R | 34 ++++++++++++++++++++-------------- man/xyplot-methods.Rd | 17 ++++++++--------- 4 files changed, 37 insertions(+), 31 deletions(-)
Title: Programming with Big Data -- Interface to MPI
Description: An efficient interface to MPI by utilizing S4
classes and methods with a focus on Single Program/Multiple Data
('SPMD')
parallel programming style, which is intended for batch parallel
execution.
Author: Wei-Chen Chen [aut, cre],
George Ostrouchov [aut],
Drew Schmidt [aut],
Pragneshkumar Patel [aut],
Hao Yu [aut],
Christian Heckendorf [ctb] (FreeBSD),
Brian Ripley [ctb] (Windows HPC Pack 2012),
R Core team [ctb] (some functions are modified from the base packages)
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between pbdMPI versions 0.3-4 dated 2018-01-04 and 0.3-5 dated 2018-04-05
ChangeLog | 10 ++++ DESCRIPTION | 10 ++-- MD5 | 90 +++++++++++++++++++------------------- NAMESPACE | 3 + R/util_execmpi.r |only README.md | 2 configure | 21 ++++++-- configure.ac | 7 +- man/00_pbdMPI-package.Rd | 19 +++++--- man/aa_allgather-method.Rd | 9 ++- man/aa_allreduce-method.Rd | 15 ++++-- man/aa_bcast-method.Rd | 7 ++ man/aa_gather-method.Rd | 7 ++ man/aa_reduce-method.Rd | 16 ++++-- man/aa_scatter-method.Rd | 7 ++ man/ab_recv-method.Rd | 7 ++ man/ab_send-method.Rd | 7 ++ man/ac_irecv-method.Rd | 3 + man/ac_isend-method.Rd | 3 + man/ad_sendrecv-method.Rd | 3 + man/ad_sendrecv.replace-method.Rd | 3 + man/ae_alltoall.Rd | 7 ++ man/cc_comm.Rd | 3 + man/dd_info.Rd | 6 ++ man/dd_is.comm.null.Rd | 3 + man/dd_sourcetag.Rd | 5 +- man/dd_wait.Rd | 3 + man/uu_execmpi.Rd |only man/vv_get_jid.Rd | 23 +++++---- man/vv_print_cat.Rd | 3 + man/vv_seed.Rd | 3 + man/ww_comm_as_gbd.Rd | 7 ++ man/ww_comm_balance.Rd | 7 ++ man/ww_comm_read.Rd | 15 +++--- man/ww_comm_write.Rd | 7 ++ man/xx_comm_allpairs.Rd | 3 + man/xx_comm_any_all.Rd | 3 + man/xx_comm_base.Rd | 5 +- man/xx_comm_dist.Rd | 9 ++- man/xx_comm_pairwise.Rd | 7 ++ man/xx_comm_range.Rd | 5 +- man/xx_comm_sort.Rd | 3 + man/xx_comm_stop_warning.Rd | 9 ++- man/xx_comm_which.Rd | 5 +- man/yy_api_apply.Rd | 31 +++++++------ man/yy_api_task_pull.Rd | 4 + man/zz_spmd_internal.Rd | 9 +++ 47 files changed, 294 insertions(+), 140 deletions(-)
Title: Ridgeline Plots in 'ggplot2'
Description: Ridgeline plots provide a convenient way of visualizing changes in distributions over time or space. This package enables the creation of such plots in 'ggplot2'.
Author: Claus O. Wilke [cre, aut],
RStudio [cph] (Copyright for ggplot2 code copied to ggridges)
Maintainer: Claus O. Wilke <wilke@austin.utexas.edu>
Diff between ggridges versions 0.4.1 dated 2017-09-15 and 0.5.0 dated 2018-04-05
ggridges-0.4.1/ggridges/tests/figs |only ggridges-0.5.0/ggridges/DESCRIPTION | 20 ggridges-0.5.0/ggridges/MD5 | 108 - ggridges-0.5.0/ggridges/NAMESPACE | 28 ggridges-0.5.0/ggridges/NEWS | 16 ggridges-0.5.0/ggridges/R/geom-density-line.R |only ggridges-0.5.0/ggridges/R/geoms-gradient.R | 276 +++- ggridges-0.5.0/ggridges/R/geoms.R | 315 +++- ggridges-0.5.0/ggridges/R/geomsv.R | 2 ggridges-0.5.0/ggridges/R/ggridges.R | 5 ggridges-0.5.0/ggridges/R/position.R |only ggridges-0.5.0/ggridges/R/scale-.R |only ggridges-0.5.0/ggridges/R/scale-cyclical.R | 2 ggridges-0.5.0/ggridges/R/scale-point.R |only ggridges-0.5.0/ggridges/R/scale-vline.R |only ggridges-0.5.0/ggridges/R/stats.R | 145 +- ggridges-0.5.0/ggridges/R/theme.R | 12 ggridges-0.5.0/ggridges/R/utils_ggplot2.R | 12 ggridges-0.5.0/ggridges/README.md | 2 ggridges-0.5.0/ggridges/TODO |only ggridges-0.5.0/ggridges/build/vignette.rds |binary ggridges-0.5.0/ggridges/inst/doc/gallery.R | 44 ggridges-0.5.0/ggridges/inst/doc/gallery.Rmd | 55 ggridges-0.5.0/ggridges/inst/doc/gallery.html | 457 +++++- ggridges-0.5.0/ggridges/inst/doc/introduction.R | 136 +- ggridges-0.5.0/ggridges/inst/doc/introduction.Rmd | 229 ++- ggridges-0.5.0/ggridges/inst/doc/introduction.html | 668 +++++++--- ggridges-0.5.0/ggridges/man/geom_density_line.Rd |only ggridges-0.5.0/ggridges/man/geom_density_ridges.Rd | 14 ggridges-0.5.0/ggridges/man/geom_ridgeline.Rd | 9 ggridges-0.5.0/ggridges/man/geom_ridgeline_gradient.Rd | 7 ggridges-0.5.0/ggridges/man/geom_vridgeline.Rd | 2 ggridges-0.5.0/ggridges/man/ggridges.Rd | 5 ggridges-0.5.0/ggridges/man/position_points_jitter.Rd |only ggridges-0.5.0/ggridges/man/position_points_sina.Rd |only ggridges-0.5.0/ggridges/man/position_raincloud.Rd |only ggridges-0.5.0/ggridges/man/scale_cyclical.Rd | 2 ggridges-0.5.0/ggridges/man/scale_discrete_manual.Rd |only ggridges-0.5.0/ggridges/man/scale_point.Rd |only ggridges-0.5.0/ggridges/man/scale_vline.Rd |only ggridges-0.5.0/ggridges/man/stat_binline.Rd | 50 ggridges-0.5.0/ggridges/man/stat_density_ridges.Rd | 25 ggridges-0.5.0/ggridges/man/theme_ridges.Rd | 2 ggridges-0.5.0/ggridges/tests/testthat/Rplots.pdf |binary ggridges-0.5.0/ggridges/tests/testthat/test_geom_density_ridges.R | 1 ggridges-0.5.0/ggridges/tests/testthat/test_geom_gradient.R | 12 ggridges-0.5.0/ggridges/tests/testthat/test_geom_vridgeline.R | 3 ggridges-0.5.0/ggridges/tests/testthat/test_scale_cyclical.R | 3 ggridges-0.5.0/ggridges/tests/testthat/test_stat_density_ridges.R | 75 + ggridges-0.5.0/ggridges/tests/testthat/test_theme_ridges.R | 1 ggridges-0.5.0/ggridges/vignettes/gallery.Rmd | 55 ggridges-0.5.0/ggridges/vignettes/introduction.Rmd | 229 ++- 52 files changed, 2313 insertions(+), 714 deletions(-)