Title: An Interface to the NOAA Operational Model Archive and
Distribution System
Description: An interface to the National Oceanic and Atmospheric Administration's Operational Model Archive and Distribution System (NOMADS, see <http://nomads.ncep.noaa.gov/> for more information) that allows R users to quickly and efficiently download global and regional weather model data for processing. rNOMADS currently supports a variety of models ranging from global weather data to an altitude of over 40 km, to high resolution regional weather models, to wave and sea ice models. It can also retrieve archived NOMADS models. rNOMADS can retrieve binary data in grib format as well as import ascii data directly into R by interfacing with the GrADS-DODS system.
Author: Daniel C. Bowman [aut, cre]
Maintainer: Daniel C. Bowman <danny.c.bowman@gmail.com>
Diff between rNOMADS versions 2.3.8 dated 2017-11-28 and 2.3.9 dated 2018-01-14
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NEWS | 3 +++ R/ReadGrib.R | 2 +- 4 files changed, 12 insertions(+), 9 deletions(-)
Title: Linguistic Typology and Mapping
Description: Provides R with the Glottolog database <http://glottolog.org> and some more abilities for purposes of linguistic mapping. The Glottolog database contains the catalogue of languages of the world. This package helps researchers to make a linguistic maps, using philosophy of the Cross-Linguistic Linked Data project <http://clld.org/>, which allows for while at the same time facilitating uniform access to the data across publications. A tutorial for this package is available on GitHub pages <https://ropensci.github.io/lingtypology/> and package vignette. Maps created by this package can be used both for the investigation and linguistic teaching. In addition, package provides an ability to download data from typological databases such as WALS, AUTOTYP and others.
Author: George Moroz
Maintainer: George Moroz <agricolamz@gmail.com>
Diff between lingtypology versions 1.0.10 dated 2017-12-15 and 1.0.11 dated 2018-01-14
DESCRIPTION | 6 MD5 | 50 +-- NAMESPACE | 1 NEWS | 4 R/map.feature.R | 401 +++++++++++++------------ inst/doc/lingtypology_creating_maps.R | 20 - inst/doc/lingtypology_creating_maps.Rmd | 73 ++-- inst/doc/lingtypology_creating_maps.html | 310 +++++++++---------- inst/doc/lingtypology_db_API.R | 13 inst/doc/lingtypology_db_API.Rmd | 26 - inst/doc/lingtypology_db_API.html | 67 +--- inst/doc/lingtypology_dplyr.R | 7 inst/doc/lingtypology_dplyr.Rmd | 8 inst/doc/lingtypology_dplyr.html | 27 - inst/doc/lingtypology_glottolog_functions.Rmd | 11 inst/doc/lingtypology_glottolog_functions.html | 15 inst/doc/lingtypology_intro.Rmd | 9 inst/doc/lingtypology_intro.html | 19 - inst/doc/manual/lingtypology.pdf |binary man/map.feature.Rd | 26 - tests/testthat/test-mapfeature.R | 28 + vignettes/lingtypology_creating_maps.Rmd | 73 ++-- vignettes/lingtypology_db_API.Rmd | 26 - vignettes/lingtypology_dplyr.Rmd | 8 vignettes/lingtypology_glottolog_functions.Rmd | 11 vignettes/lingtypology_intro.Rmd | 9 26 files changed, 662 insertions(+), 586 deletions(-)
Title: Mixed GAM Computation Vehicle with Automatic Smoothness
Estimation
Description: Generalized additive (mixed) models, some of their extensions and
other generalized ridge regression with multiple smoothing
parameter estimation by (Restricted) Marginal Likelihood,
Generalized Cross Validation and similar. 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 1.8-22 dated 2017-09-19 and 1.8-23 dated 2018-01-14
ChangeLog | 52 +++++++++ DESCRIPTION | 6 - MD5 | 58 +++++----- NAMESPACE | 3 R/bam.r | 79 ++++++++------ R/coxph.r | 2 R/efam.r | 81 +++++++++++---- R/fast-REML.r | 45 ++++---- R/gam.fit3.r | 34 +++--- R/gam.fit4.r | 49 +++++---- R/gamlss.r | 32 +++++ R/gamm.r | 3 R/mgcv.r | 57 ++++++---- R/plots.r | 177 +++++++++++++++++++++++++++++---- R/smooth.r | 98 +++++++++--------- R/soap.r | 2 R/sparse.r | 18 ++- inst/CITATION | 4 man/bam.Rd | 9 - man/gam.Rd | 6 - man/gam.check.Rd | 2 man/plot.gam.Rd | 19 ++- man/random.effects.Rd | 8 - man/rmvn.Rd | 2 man/smooth.construct.bs.smooth.spec.Rd | 13 +- man/smooth.construct.gp.smooth.spec.Rd | 4 man/summary.gam.Rd | 5 src/init.c | 4 src/mgcv.h | 4 src/sparse-smooth.c | 166 +++++++++++++++++++++--------- 30 files changed, 717 insertions(+), 325 deletions(-)
Title: Weighting for Covariate Balance in Observational Studies
Description: Generates weights to form equivalent groups in observational studies by easing and extending the functionality of the R packages 'twang' (Ridgeway et al., 2017) <https://CRAN.R-project.org/package=twang> for generalized boosted modeling, 'CBPS' (Fong, Ratkovic, & Imai, 2017) <https://CRAN.R-project.org/package=CBPS> for covariate balancing propensity score weighting, 'ebal' (Hainmueller, 2014) <https://CRAN.R-project.org/package=ebal> for entropy balancing, sbw (Zubizarreta, 2015) <doi:10.1080/01621459.2015.1023805>, and 'ATE' (Haris & Chan, 2015) <https://CRAN.R-project.org/package=ATE> for empirical balancing calibration weighting. Also allows for assessment of weights and checking of covariate balance by interfacing directly with 'cobalt' (Greifer, 2017) <https://CRAN.R-project.org/package=cobalt>. (The suggested 'sbw' package is available at <http://www.jrzubizarreta.com/sbw_0.0.2.tar.gz>.)
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between WeightIt versions 0.2.0 dated 2017-11-12 and 0.3.0 dated 2018-01-14
DESCRIPTION | 18 - MD5 | 21 +- NAMESPACE | 7 NEWS.md | 6 R/functions_for_processing.R | 85 +++++++- R/weightit.R | 57 +++-- R/weightit2method.R | 88 +++++--- R/weightitMSM.R |only README.md | 450 +++++++++++++++++++++---------------------- build |only man/summary.weightit.Rd | 28 +- man/weightit.Rd | 73 ++++++ man/weightitMSM.Rd |only 13 files changed, 516 insertions(+), 317 deletions(-)
Title: Text Cleaning Tools
Description: Tools to clean and process text. Tools are geared at checking for substrings
that are not optimal for analysis and replacing or removing them (normalizing) with
more analysis friendly substrings (see Sproat, Black, Chen, Kumar, Ostendorf, &
Richards (2001) <doi:10.1006/csla.2001.0169>). For example, emoticons are often
used in text but not always easily handled by analysis algorithms. The
'replace_emoticon()' function replaces emoticons with word equivalents.
Author: Tyler Rinker [aut, cre],
ctwheels StackOverflow [ctb]
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>
Diff between textclean versions 0.5.1 dated 2017-12-12 and 0.6.3 dated 2018-01-14
DESCRIPTION | 32 ++-- MD5 | 23 ++- NAMESPACE | 4 NEWS | 24 +++ R/fgsub.R |only R/replace_internet_slang.R |only R/replace_kerning.R |only R/replace_number.R | 2 R/replace_word_elongation.R |only R/sysdata.rda |only R/utils.R | 18 ++ README.md | 269 ++++++++++++++++++++++++++++++----------- inst/CITATION | 12 - man/fgsub.Rd |only man/replace_internet_slang.Rd |only man/replace_kern.Rd |only man/replace_word_elongation.Rd |only 17 files changed, 284 insertions(+), 100 deletions(-)
Title: High Performance Algorithms for Vine Copula Modeling
Description: Provides an interface to 'vinecopulib', a C++ library for vine
copula modeling based on 'Boost' and 'Eigen'. The 'rvinecopulib'
package implements the core features of the popular 'VineCopula' package, in
particular inference algorithms for both vine copula and bivariate copula
models. Advantages over 'VineCopula' are a sleeker and more modern API,
improved performances, especially in high dimensions, nonparametric and
multi-parameter families. The 'rvinecopulib' package includes 'vinecopulib' as
header-only C++ library (currently version 0.2.5). Thus
users do not need to install 'vinecopulib' itself in order to use
'rvinecopulib'. Since their initial releases, 'vinecopulib' is licensed under
the MIT License, and 'rvinecopulib' is licensed under the GNU GPL version 3.
Author: Thomas Nagler [aut, cre],
Thibault Vatter [aut]
Maintainer: Thomas Nagler <info@vinecopulib.org>
Diff between rvinecopulib versions 0.2.3.1.0 dated 2017-11-18 and 0.2.5.1.0 dated 2018-01-14
DESCRIPTION | 8 MD5 | 170 +++++----- NEWS.md | 27 + R/bicop.R | 2 R/bicop_methods.R | 22 - R/bicop_plot.R | 2 R/rvinecopulib.R | 2 R/vinecop.R | 2 R/vinecop_methods.R | 45 +- R/vinecop_plot.R | 15 README.md | 4 inst/include/version.hpp | 6 inst/include/vinecopulib.hpp | 2 inst/include/vinecopulib/bicop/abstract.hpp | 2 inst/include/vinecopulib/bicop/archimedean.hpp | 2 inst/include/vinecopulib/bicop/bb1.hpp | 2 inst/include/vinecopulib/bicop/bb6.hpp | 2 inst/include/vinecopulib/bicop/bb7.hpp | 2 inst/include/vinecopulib/bicop/bb8.hpp | 2 inst/include/vinecopulib/bicop/class.hpp | 2 inst/include/vinecopulib/bicop/clayton.hpp | 2 inst/include/vinecopulib/bicop/elliptical.hpp | 2 inst/include/vinecopulib/bicop/family.hpp | 2 inst/include/vinecopulib/bicop/fit_controls.hpp | 2 inst/include/vinecopulib/bicop/frank.hpp | 2 inst/include/vinecopulib/bicop/gaussian.hpp | 2 inst/include/vinecopulib/bicop/gumbel.hpp | 2 inst/include/vinecopulib/bicop/implementation/abstract.ipp | 2 inst/include/vinecopulib/bicop/implementation/archimedean.ipp | 2 inst/include/vinecopulib/bicop/implementation/bb1.ipp | 2 inst/include/vinecopulib/bicop/implementation/bb6.ipp | 2 inst/include/vinecopulib/bicop/implementation/bb7.ipp | 2 inst/include/vinecopulib/bicop/implementation/bb8.ipp | 4 inst/include/vinecopulib/bicop/implementation/class.ipp | 2 inst/include/vinecopulib/bicop/implementation/clayton.ipp | 2 inst/include/vinecopulib/bicop/implementation/elliptical.ipp | 2 inst/include/vinecopulib/bicop/implementation/family.ipp | 2 inst/include/vinecopulib/bicop/implementation/fit_controls.ipp | 2 inst/include/vinecopulib/bicop/implementation/frank.ipp | 2 inst/include/vinecopulib/bicop/implementation/gaussian.ipp | 2 inst/include/vinecopulib/bicop/implementation/gumbel.ipp | 2 inst/include/vinecopulib/bicop/implementation/indep.ipp | 2 inst/include/vinecopulib/bicop/implementation/joe.ipp | 2 inst/include/vinecopulib/bicop/implementation/kernel.ipp | 2 inst/include/vinecopulib/bicop/implementation/parametric.ipp | 2 inst/include/vinecopulib/bicop/implementation/student.ipp | 2 inst/include/vinecopulib/bicop/implementation/tll.ipp | 2 inst/include/vinecopulib/bicop/implementation/tools_select.ipp | 2 inst/include/vinecopulib/bicop/indep.hpp | 2 inst/include/vinecopulib/bicop/joe.hpp | 2 inst/include/vinecopulib/bicop/kernel.hpp | 2 inst/include/vinecopulib/bicop/parametric.hpp | 2 inst/include/vinecopulib/bicop/student.hpp | 2 inst/include/vinecopulib/bicop/tll.hpp | 2 inst/include/vinecopulib/bicop/tools_select.hpp | 2 inst/include/vinecopulib/misc/implementation/tools_eigen.ipp | 2 inst/include/vinecopulib/misc/implementation/tools_interpolation.ipp | 2 inst/include/vinecopulib/misc/implementation/tools_optimization.ipp | 2 inst/include/vinecopulib/misc/implementation/tools_stats.ipp | 2 inst/include/vinecopulib/misc/tools_bobyqa.hpp | 2 inst/include/vinecopulib/misc/tools_eigen.hpp | 2 inst/include/vinecopulib/misc/tools_integration.hpp | 2 inst/include/vinecopulib/misc/tools_interface.hpp | 4 inst/include/vinecopulib/misc/tools_interpolation.hpp | 2 inst/include/vinecopulib/misc/tools_optimization.hpp | 2 inst/include/vinecopulib/misc/tools_parallel.hpp | 2 inst/include/vinecopulib/misc/tools_serialization.hpp | 2 inst/include/vinecopulib/misc/tools_stats.hpp | 2 inst/include/vinecopulib/misc/tools_stl.hpp | 2 inst/include/vinecopulib/misc/tools_thread.hpp | 2 inst/include/vinecopulib/vinecop/class.hpp | 6 inst/include/vinecopulib/vinecop/fit_controls.hpp | 4 inst/include/vinecopulib/vinecop/implementation/class.ipp | 32 + inst/include/vinecopulib/vinecop/implementation/fit_controls.ipp | 11 inst/include/vinecopulib/vinecop/implementation/rvine_matrix.ipp | 56 ++- inst/include/vinecopulib/vinecop/implementation/tools_select.ipp | 110 +++--- inst/include/vinecopulib/vinecop/rvine_matrix.hpp | 14 inst/include/vinecopulib/vinecop/tools_select.hpp | 11 man/bicop.Rd | 2 man/rvinecopulib.Rd | 2 man/vinecop.Rd | 2 src/Makevars | 5 src/vinecop_wrappers.cpp | 4 tests/testthat/Rplots.pdf |binary tests/testthat/test_vinecop.R | 6 tests/testthat/test_vinecop_dist.R | 4 86 files changed, 411 insertions(+), 283 deletions(-)
Title: Coloured Formatting for Columns
Description: Provides a 'pillar' generic designed for formatting columns
of data using the full range of colours provided by modern terminals.
Author: Kirill Müller [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between pillar versions 1.0.1 dated 2017-11-27 and 1.1.0 dated 2018-01-14
pillar-1.0.1/pillar/tests/testthat/out-native/multi-extra-10.txt |only pillar-1.0.1/pillar/tests/testthat/out-native/utf8.txt |only pillar-1.1.0/pillar/DESCRIPTION | 26 pillar-1.1.0/pillar/MD5 | 351 +++++----- pillar-1.1.0/pillar/NAMESPACE | 2 pillar-1.1.0/pillar/NEWS.md | 28 pillar-1.1.0/pillar/R/capital.R |only pillar-1.1.0/pillar/R/extent.R | 2 pillar-1.1.0/pillar/R/multi.R | 159 +++- pillar-1.1.0/pillar/R/pillar-package.R |only pillar-1.1.0/pillar/R/pillar.R | 33 pillar-1.1.0/pillar/R/rowid-capital.R |only pillar-1.1.0/pillar/R/scientific.R | 2 pillar-1.1.0/pillar/R/shaft.R | 4 pillar-1.1.0/pillar/R/sigfig.R | 2 pillar-1.1.0/pillar/R/styles.R | 41 + pillar-1.1.0/pillar/R/title.R | 24 pillar-1.1.0/pillar/R/type-sum.R | 6 pillar-1.1.0/pillar/R/type.R | 31 pillar-1.1.0/pillar/README.md | 4 pillar-1.1.0/pillar/man/colonnade.Rd | 16 pillar-1.1.0/pillar/man/expect_known_display.Rd | 2 pillar-1.1.0/pillar/man/extra_cols.Rd | 7 pillar-1.1.0/pillar/man/pillar-package.Rd |only pillar-1.1.0/pillar/man/pillar_shaft.Rd | 2 pillar-1.1.0/pillar/man/style_subtle.Rd | 14 pillar-1.1.0/pillar/tests/testthat/helper-output.R | 2 pillar-1.1.0/pillar/tests/testthat/out-native/basic-signif-5.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/deal1.txt | 8 pillar-1.1.0/pillar/tests/testthat/out-native/deal2.txt | 8 pillar-1.1.0/pillar/tests/testthat/out-native/escaped.txt | 2 pillar-1.1.0/pillar/tests/testthat/out-native/factor.txt | 14 pillar-1.1.0/pillar/tests/testthat/out-native/multi-08.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-09.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-10.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-11.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-12.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-13.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-14.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-15.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-16.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-17.txt | 5 pillar-1.1.0/pillar/tests/testthat/out-native/multi-18.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-19.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-20.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-21.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-22.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-23.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-24.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-25.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-26.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-27.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-28.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-29.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-30.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-31.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-32.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-33.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-34.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-35.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-36.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-37.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-38.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/multi-39.txt | 2 pillar-1.1.0/pillar/tests/testthat/out-native/multi-inf.txt | 2 pillar-1.1.0/pillar/tests/testthat/out-native/na-names.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/style-bold-false.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/style-neg-false.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/style-regular.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/style-subtle-false.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/style-subtle-neg-false.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300-20.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300-30.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300-40.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300-50.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300-60.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300-70.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-all--300.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-iris-3-20.txt | 10 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-iris-5-30.txt | 14 pillar-1.1.0/pillar/tests/testthat/out-native/tibble-newline.txt | 8 pillar-1.1.0/pillar/tests/testthat/out-native/title-fifteen.txt |only pillar-1.1.0/pillar/tests/testthat/out-native/title-too-long.txt | 22 pillar-1.1.0/pillar/tests/testthat/out/basic-signif-5.txt |only pillar-1.1.0/pillar/tests/testthat/out/basic.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/date.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/deal1.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/deal2.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/deal3.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/decimal-insignif.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/escaped.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/factor.txt | 14 pillar-1.1.0/pillar/tests/testthat/out/integer-06.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/integer-07.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/integer-08.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/integer-09.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/letters-inf.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/letters-long-03.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/letters-long-10.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/letters-long.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/letters.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/list-each.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/list-na.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/list-narrow.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/list-null.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/logical.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/multi-08.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-09.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-10.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-11.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-12.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-13.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-14.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-15.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-16.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-17.txt | 5 pillar-1.1.0/pillar/tests/testthat/out/multi-18.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-19.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-20.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-21.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-22.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-23.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-24.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-25.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-26.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-27.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-28.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-29.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-30.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-31.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-32.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-33.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-34.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-35.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-36.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-37.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-38.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/multi-39.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/multi-extra-10.txt | 3 pillar-1.1.0/pillar/tests/testthat/out/multi-extra-20.txt |only pillar-1.1.0/pillar/tests/testthat/out/multi-extra-30.txt |only pillar-1.1.0/pillar/tests/testthat/out/multi-extra-35.txt |only pillar-1.1.0/pillar/tests/testthat/out/multi-extra-40.txt |only pillar-1.1.0/pillar/tests/testthat/out/multi-inf.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/na-names.txt |only pillar-1.1.0/pillar/tests/testthat/out/numeric-04.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/numeric-07.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/numeric-10.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/numeric-15.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/numeric-22.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/ordered.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/rowid-3.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/rowid-star-title-12.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/scientific-short-neg.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/scientific.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/spaces.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/style-bold-false.txt |only pillar-1.1.0/pillar/tests/testthat/out/style-neg-false.txt |only pillar-1.1.0/pillar/tests/testthat/out/style-regular.txt |only pillar-1.1.0/pillar/tests/testthat/out/style-subtle-false.txt |only pillar-1.1.0/pillar/tests/testthat/out/style-subtle-neg-false.txt |only pillar-1.1.0/pillar/tests/testthat/out/tibble-all--30.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300-20.txt | 18 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300-30.txt | 20 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300-40.txt | 16 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300-50.txt | 14 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300-60.txt | 14 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300-70.txt | 12 pillar-1.1.0/pillar/tests/testthat/out/tibble-all--300.txt | 12 pillar-1.1.0/pillar/tests/testthat/out/tibble-all-digits-secs.txt |only pillar-1.1.0/pillar/tests/testthat/out/tibble-iris-3-20.txt | 10 pillar-1.1.0/pillar/tests/testthat/out/tibble-iris-5-30.txt | 14 pillar-1.1.0/pillar/tests/testthat/out/tibble-mtcars-8-30.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/tibble-newline.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/tibble-non-syntactic.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/tibble-space.txt | 2 pillar-1.1.0/pillar/tests/testthat/out/time-posix.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/time.txt | 4 pillar-1.1.0/pillar/tests/testthat/out/title-crayon.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/title-fifteen.txt |only pillar-1.1.0/pillar/tests/testthat/out/title-longer.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/title-none.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/title-short.txt | 8 pillar-1.1.0/pillar/tests/testthat/out/title-too-long.txt | 22 pillar-1.1.0/pillar/tests/testthat/out/utf8.txt | 2 pillar-1.1.0/pillar/tests/testthat/test-format_character.R | 4 pillar-1.1.0/pillar/tests/testthat/test-format_decimal.R | 10 pillar-1.1.0/pillar/tests/testthat/test-format_multi.R | 74 ++ pillar-1.1.0/pillar/tests/testthat/test-obj-sum.R | 5 pillar-1.1.0/pillar/tests/testthat/test-title.R | 7 190 files changed, 1030 insertions(+), 855 deletions(-)
Title: Create Compact Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation
of hash digests of arbitrary R objects (using the 'md5', 'sha-1', 'sha-256',
'crc32', 'xxhash' and 'murmurhash' algorithms) permitting easy comparison of R
language objects, as well as a function 'hmac()' to create hash-based
message authentication code. Please note that this package is not meant to
be deployed for cryptographic purposes for which more comprehensive (and
widely tested) libraries such as 'OpenSSL' should be used.
Author: Dirk Eddelbuettel <edd@debian.org> with contributions
by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek,
Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen,
Duncan Murdoch, Jim Hester, Wush Wu, Qiang Kou, Thierry Onkelinx,
Michel Lang and Viliam Simko.
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between digest versions 0.6.13 dated 2017-12-14 and 0.6.14 dated 2018-01-14
ChangeLog | 23 ++++++++++++++++++++++- DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/sha1.R | 4 ++-- inst/doc/sha1.html | 32 ++++++++++++++++---------------- man/AES.Rd | 4 ++-- man/digest.Rd | 4 ++-- man/hmac.Rd | 4 ++-- src/raes.c | 4 ++-- tests/sha1Test.R | 19 ++++++++++++++++++- 10 files changed, 79 insertions(+), 41 deletions(-)
Title: A Combined Association Test for Genes using Summary Statistics
Description: Genome-wide association studies (GWAS) have been widely used for identifying common variants associated with complex diseases. Due to the small effect sizes of common variants, the power to detect individual risk variants is generally low. Complementary to SNP-level analysis, a variety of gene-based association tests have been proposed. However, the power of existing gene-based tests is often dependent on the underlying genetic models, and it is not known a priori which test is optimal. Here we proposed COMBined Association Test (COMBAT) to incorporate strengths from multiple existing gene-based tests, including VEGAS, GATES and simpleM. Compared to individual tests, COMBAT shows higher overall performance and robustness across a wide range of genetic models. The algorithm behind this method is described in Wang et al (2017) <doi:10.1534/genetics.117.300257>.
Author: Minghui Wang, Yiyuan Liu, Shizhong Han
Maintainer: Minghui Wang <m.h.wang@live.com>
Diff between COMBAT versions 0.0.2 dated 2017-01-10 and 0.0.4 dated 2018-01-14
DESCRIPTION | 12 +-- MD5 | 17 +++-- NAMESPACE | 4 - R/COMBAT.R | 167 ++++++++---------------------------------------------- R/extSimes.R |only R/gates.R |only R/ld.Rsquare.R |only R/simpleM.R |only R/vegas.R |only man/COMBAT.Rd | 28 +++++---- man/ext_simes.Rd | 33 +--------- man/genetests.Rd |only man/ld.Rsquare.Rd |only 13 files changed, 67 insertions(+), 194 deletions(-)
Title: Robust PCA by Projection Pursuit
Description: Provides functions for robust PCA by projection pursuit. The methods are described in Croux et al. (2006) <doi:10.2139/ssrn.968376>, Croux et al. (2013) <doi:10.1080/00401706.2012.727746>, Todorov and Filzmoser (2013) <doi:10.1007/978-3-642-33042-1_31>.
Author: Peter Filzmoser, Heinrich Fritz, Klaudius Kalcher
Maintainer: Valentin Todorov <valentin.todorov@chello.at>
Diff between pcaPP versions 1.9-72.1 dated 2018-01-04 and 1.9-73 dated 2018-01-14
ChangeLog | 8 ++++++++ DESCRIPTION | 14 +++++--------- MD5 | 8 ++++---- src/R_meal.h | 4 ++-- src/hess.cpp | 14 ++++++++++---- 5 files changed, 29 insertions(+), 19 deletions(-)
Title: In-Process Version of 'MonetDB'
Description: An in-process version of 'MonetDB', a SQL database designed for analytical tasks. Similar to 'SQLite', the database runs entirely inside the 'R' shell.
Author: Hannes Muehleisen [aut, cre], Mark Raasveldt [ctb], Thomas Lumley [ctb], MonetDB B.V. [cph], CWI [cph], The Regents of the University of California [cph], Kungliga Tekniska Hogskolan [cph], Free Software Foundation, Inc. [cph]
Maintainer: Hannes Muehleisen <hannes@cwi.nl>
Diff between MonetDBLite versions 0.5.0 dated 2017-11-15 and 0.5.1 dated 2018-01-14
MonetDBLite-0.5.0/MonetDBLite/src/monetdblite/src/gdk/gdk.bib |only MonetDBLite-0.5.1/MonetDBLite/DESCRIPTION | 8 MonetDBLite-0.5.1/MonetDBLite/MD5 | 244 MonetDBLite-0.5.1/MonetDBLite/README.md | 2 MonetDBLite-0.5.1/MonetDBLite/src/Makevars | 6 MonetDBLite-0.5.1/MonetDBLite/src/embeddedr/converters.c.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/CMakeLists.txt |only MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/Makefile | 6 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/hgimport.sh | 1 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/common/fsync.c | 8 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/common/stream.c | 20 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/embedded/embedded.c | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/embedded/embedded.h | 9 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/embedded/inlined_scripts.c | 82 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk.h | 8 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_aggr.c | 144 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_atoms.c | 35 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_bat.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_batop.c | 155 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_bbp.c | 39 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_calc.c | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_firstn.c | 39 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_hash.c | 84 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_heap.c | 132 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_imprints.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_join.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_logger.c | 28 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_orderidx.c | 172 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_private.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_search.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_storage.c | 19 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/gdk/gdk_system.c | 29 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/mal/mal.c | 10 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/mal/mal.h | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/mal/mal_session.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/aggr.c | 739 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/algebra.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/bat5.h | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/batcalc.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/batmmath.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/batstr.c | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/calc.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/mkey.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/mmath.h | 12 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/mtime.c | 3 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/mtime.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/orderidx.c | 47 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/sample.c | 5 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/str.h | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/tablet.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/modules/tablet.h | 9 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/optimizer/opt_candidates.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/optimizer/opt_mitosis.c | 19 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/optimizer/opt_pipes.c | 17 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/optimizer/opt_pipes.h | 1 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/mal_backend.h | 8 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/rel_bin.c | 32 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql.c | 33 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql.h | 22 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_bat2time.c | 21 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_cast.c | 22 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_cat.c | 18 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_cat.h | 14 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_execute.c | 21 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_fround.c | 19 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_gencode.c | 22 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_gencode.h | 14 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_result.c | 10 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_result.h | 12 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_round.c | 19 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_scenario.c | 40 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_scenario.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_statement.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_transaction.c | 18 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/mal/sqlbackend/sql_transaction.h | 14 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/monetdb_config.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/common/sql_list.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/common/sql_mem.c | 14 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/common/sql_stack.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/common/sql_string.c | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/common/sql_types.c | 97 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/common/sql_types.h | 14 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/include/sql_catalog.h | 7 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/include/sql_hash.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/include/sql_mem.h | 8 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/include/sql_relation.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/include/sql_stack.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_exp.c | 15 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_exp.h | 1 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_optimizer.c | 142 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_prop.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_psm.c | 3 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_psm.h | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_rel.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_schema.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_select.c | 722 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_semantic.c | 3 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_semantic.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_sequence.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_updates.c | 5 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/rel_updates.h | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_atom.c | 62 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_atom.h | 5 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_decimal.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_mvc.c | 62 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_mvc.h | 29 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_parser.tab.c | 7514 +++++----- MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_parser.y | 89 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_privileges.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_privileges.h | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_qc.c | 3 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_qc.h | 11 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_scan.c | 6 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_scan.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_semantic.c | 4 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_semantic.h | 3 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/server/sql_symbol.c | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/storage/bat/bat_logger.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/storage/bat/bat_storage.c | 6 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/storage/bat/bat_utils.h | 2 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/storage/sql_storage.h | 3 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/storage/store.c | 80 MonetDBLite-0.5.1/MonetDBLite/src/monetdblite/src/sql/storage/store_sequence.c | 2 MonetDBLite-0.5.1/MonetDBLite/tests/testthat/test_02_dbi.R | 12 124 files changed, 6196 insertions(+), 5325 deletions(-)
Title: Diverse Cluster Ensemble in R
Description: Performs cluster analysis using an ensemble clustering framework.
Results from a diverse set of algorithms are pooled together using methods
such as majority voting, K-Modes, LinkCluE, and CSPA. There are options to
compare cluster assignments across algorithms using internal and external
indices, visualizations such as heatmaps, and significance testing for the
existence of clusters.
Author: Derek Chiu [aut, cre],
Aline Talhouk [aut],
Johnson Liu [ctb, com]
Maintainer: Derek Chiu <dchiu@bccrc.ca>
Diff between diceR versions 0.3.1 dated 2017-12-12 and 0.3.2 dated 2018-01-14
DESCRIPTION | 30 +++++----- MD5 | 78 +++++++++++++------------- NEWS.md | 8 ++ R/PAC.R | 10 +-- R/algorithms.R | 51 +++++++---------- R/consensus_cluster.R | 136 ++++++++++++++++++++++------------------------ R/consensus_combine.R | 56 ++++++------------ R/consensus_evaluate.R | 82 +++++++++++++-------------- R/consensus_funs.R | 38 ++++++------ R/consensus_matrix.R | 6 +- R/data.R | 2 R/dice.R | 48 ++++++++-------- R/external_validity.R | 14 ++-- R/graphs.R | 57 +++++++++---------- R/impute.R | 24 ++++---- R/pcn.R | 25 +++----- R/prepare_data.R | 9 +-- R/sigclust.R | 25 ++++---- R/similarity.R | 14 ++-- R/utils.R | 21 +++---- man/LCE.Rd | 4 - man/PAC.Rd | 16 ++--- man/compactness.Rd | 2 man/consensus_cluster.Rd | 89 ++++++++++++++---------------- man/consensus_combine.Rd | 12 +--- man/consensus_evaluate.Rd | 75 ++++++++++++------------- man/consensus_matrix.Rd | 10 +-- man/dice.Rd | 54 ++++++++---------- man/external_validity.Rd | 18 +++--- man/graphs.Rd | 35 +++++------ man/impute_knn.Rd | 4 - man/impute_missing.Rd | 28 ++++----- man/k_modes.Rd | 19 +++--- man/majority_voting.Rd | 17 ++--- man/min_fnorm.Rd | 15 ++--- man/pcn.Rd | 23 +++---- man/prepare_data.Rd | 7 +- man/relabel_class.Rd | 4 - man/sigclust.Rd | 27 ++++----- man/similarity.Rd | 8 +- 40 files changed, 578 insertions(+), 623 deletions(-)
Title: Implementation of a Generic Adaptive Monte Carlo Markov Chain
Sampler
Description: Enables sampling from arbitrary distributions if the log density is known up to a constant; a common situation in the context of Bayesian inference. The implemented sampling algorithm was proposed by Vihola (2012) <DOI:10.1007/s11222-011-9269-5> and achieves often a high efficiency by tuning the proposal distributions to a user defined acceptance rate.
Author: Andreas Scheidegger, <andreas.scheidegger@eawag.ch>, <scheidegger.a@gmail.com>
Maintainer: Andreas Scheidegger <andreas.scheidegger@eawag.ch>
Diff between adaptMCMC versions 1.2 dated 2017-06-30 and 1.3 dated 2018-01-14
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 2 +- R/Adaptive_MCMC.R | 20 +++++++++----------- man/MCMC.Rd | 6 +++--- man/MCMC.parallel.Rd | 2 +- 6 files changed, 23 insertions(+), 25 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-11-13 2.5
2016-07-07 2.4
2016-06-15 2.3
2016-05-10 2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-05 0.9.9.6
2016-10-11 0.9.9.4
2016-09-30 0.9.9.3
2016-05-17 0.9.9.1
2016-03-26 0.9.7.0
Title: Tools to Quickly and Neatly Summarize Data
Description: Data frame summaries, cross-tabulations,
weight-enabled frequency tables and common univariate
statistics in concise tables available in a variety of
formats (plain ASCII, rmarkdown and HTML). A good point-
of-entry for exploring data, both for experienced and
new R users.
Author: Dominic Comtois
Maintainer: Dominic Comtois <dominic.comtois@gmail.com>
Diff between summarytools versions 0.8.0 dated 2017-12-10 and 0.8.1 dated 2018-01-14
DESCRIPTION | 13 MD5 | 94 NAMESPACE | 48 NEWS | 140 R/cleartmp.R | 86 R/ctable.R | 524 R/descr.R | 626 R/dfSummary.R | 971 - R/examens.R | 52 R/exams.R | 54 R/freq.R | 470 R/label.R | 256 R/misc.R | 24 R/parse_args.R | 707 R/print.summarytools.R | 2360 +- R/summarytools.R | 64 R/tabagisme.R | 68 R/tobacco.R | 60 R/view.R | 314 R/what.is.R | 256 build |only inst/doc |only inst/includes/stylesheets/bootstrap-grid.css | 3132 +-- inst/includes/stylesheets/bootstrap-grid.min.css | 12 inst/includes/stylesheets/bootstrap-reboot.css | 682 inst/includes/stylesheets/bootstrap-reboot.min.css | 14 inst/includes/stylesheets/bootstrap.css |16746 ++++++++++----------- inst/includes/stylesheets/bootstrap.min.css | 12 inst/includes/stylesheets/custom.css | 286 man/cleartmp.Rd | 54 man/ctable.Rd | 156 man/descr.Rd | 158 man/dfSummary.Rd | 247 man/examens.Rd | 62 man/exams.Rd | 64 man/freq.Rd | 164 man/label-set.Rd | 46 man/label.Rd | 72 man/parse_args.Rd | 95 man/print.summarytools.Rd | 288 man/summarytools-package.Rd | 92 man/tabagisme.Rd | 78 man/tobacco.Rd | 70 man/unlabel.Rd | 36 man/what.is.Rd | 124 vignettes |only 46 files changed, 14951 insertions(+), 14926 deletions(-)
Title: Collection of Convenient Functions for Common Statistical
Computations
Description: Collection of convenient functions for common statistical computations,
which are not directly provided by R's base or stats packages.
This package aims at providing, first, shortcuts for statistical
measures, which otherwise could only be calculated with additional
effort (like standard errors or root mean squared errors). Second,
these shortcut functions are generic (if appropriate), and can be
applied not only to vectors, but also to other objects as well
(e.g., the Coefficient of Variation can be computed for vectors,
linear models, or linear mixed models; the r2()-function returns
the r-squared value for 'lm', 'glm', 'merMod' or 'lme' objects).
The focus of most functions lies on summary statistics or fit
measures for regression models, including generalized linear
models and mixed effects models. However, some of the functions
also deal with other statistical measures, like Cronbach's Alpha,
Cramer's V, Phi etc.
Author: Daniel Lüdecke <d.luedecke@uke.de>
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjstats versions 0.13.0 dated 2017-11-22 and 0.14.0 dated 2018-01-14
DESCRIPTION | 23 - MD5 | 135 ++++---- NAMESPACE | 557 +++++++++++++++++----------------- NEWS.md | 516 ++++++++++++++++---------------- R/HDI.R | 427 ++++++++++---------------- R/S3-methods.R | 55 ++- R/grpmean.R | 562 +++++++++++++++++------------------ R/icc.R | 2 R/mcse.R |only R/merMod_p.R | 5 R/n_eff.R |only R/pred_vars.R | 435 ++++++++++++++------------- R/rope.R |only R/tidy_stan.R | 42 +- R/typical.R | 303 +++++++++--------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/anova-statistics.R | 66 ++-- inst/doc/anova-statistics.html | 342 ++++++++++----------- inst/doc/mixedmodels-statistics.R | 138 ++++---- inst/doc/mixedmodels-statistics.html | 549 +++++++++++++++++----------------- man/boot_ci.Rd | 304 +++++++++--------- man/bootstrap.Rd | 178 +++++------ man/check_assumptions.Rd | 286 ++++++++--------- man/chisq_gof.Rd | 118 +++---- man/cod.Rd | 90 ++--- man/converge_ok.Rd | 132 ++++---- man/cv.Rd | 122 +++---- man/cv_error.Rd | 104 +++--- man/deff.Rd | 86 ++--- man/efc.Rd | 66 ++-- man/eta_sq.Rd | 108 +++--- man/find_beta.Rd | 216 ++++++------- man/gmd.Rd | 78 ++-- man/grpmean.Rd | 116 +++---- man/hdi.Rd | 177 +++++------ man/hoslem_gof.Rd | 92 ++--- man/icc.Rd | 256 +++++++-------- man/inequ_trend.Rd | 140 ++++---- man/is_prime.Rd | 48 +- man/mean_n.Rd | 138 ++++---- man/mn.Rd | 72 ++-- man/mwu.Rd | 104 +++--- man/nhanes_sample.Rd | 30 - man/odds_to_rr.Rd | 154 ++++----- man/overdisp.Rd | 156 ++++----- man/p_value.Rd | 108 +++--- man/pca.Rd | 96 ++--- man/pred_accuracy.Rd | 126 +++---- man/pred_vars.Rd | 142 ++++---- man/prop.Rd | 224 ++++++------- man/r2.Rd | 242 +++++++-------- man/re_var.Rd | 138 ++++---- man/reexports.Rd | 32 - man/reliab_test.Rd | 312 +++++++++---------- man/rmse.Rd | 152 ++++----- man/robust.Rd | 164 +++++----- man/scale_weights.Rd | 96 ++--- man/se.Rd | 276 ++++++++--------- man/se_ybar.Rd | 58 +-- man/smpsize_lmm.Rd | 136 ++++---- man/std_beta.Rd | 140 ++++---- man/svyglm.nb.Rd | 140 ++++---- man/table_values.Rd | 72 ++-- man/tidy_stan.Rd | 156 ++++----- man/typical_value.Rd | 148 ++++----- man/var_pop.Rd | 78 ++-- man/weight.Rd | 114 +++---- man/wtd_sd.Rd | 118 +++---- man/xtab_statistics.Rd | 220 ++++++------- 70 files changed, 5523 insertions(+), 5493 deletions(-)
Title: Spectral Data for Light-Emitting-Diodes
Description: Spectral emission data for some frequently used light emitting
diodes.
Author: Pedro J. Aphalo [aut, cre] (https://orcid.org/0000-0003-3385-972X),
Shafiuddin Ahmed [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologyLEDs versions 0.4.3 dated 2017-12-18 and 0.4.3-1 dated 2018-01-14
DESCRIPTION | 14 - MD5 | 12 - NEWS | 5 inst/doc/user-guide.Rmd | 15 +- inst/doc/user-guide.html | 299 ++++++++++++++++++++-------------------- man/photobiologyLEDs-package.Rd | 2 vignettes/user-guide.Rmd | 15 +- 7 files changed, 186 insertions(+), 176 deletions(-)
More information about photobiologyLEDs at CRAN
Permanent link
Title: Multivariate Response Generalized Linear Models
Description: Provides functions that (1) fit multivariate discrete distributions, (2) generate random numbers from multivariate discrete distributions, and (3) run regression and penalized regression on the multivariate categorical response data. Implemented models include: multinomial logit model, Dirichlet multinomial model, generalized Dirichlet multinomial model, and negative multinomial model. Making the best of the minorization-maximization (MM) algorithm and Newton-Raphson method, we derive and implement stable and efficient algorithms to find the maximum likelihood estimates. On a multi-core machine, multi-threading is supported.
Author: Yiwen Zhang <zhangyiwen1015@gmail.com> and Hua Zhou <huazhou@ucla.edu>
Maintainer: Juhyun Kim <juhkim111@ucla.edu>
Diff between MGLM versions 0.0.8 dated 2017-03-27 and 0.0.9 dated 2018-01-14
MGLM-0.0.8/MGLM/R/predict.R |only MGLM-0.0.8/MGLM/R/print.R |only MGLM-0.0.8/MGLM/inst/doc/Vignette.R |only MGLM-0.0.8/MGLM/inst/doc/Vignette.Rnw |only MGLM-0.0.8/MGLM/man/ddirm.Rd |only MGLM-0.0.8/MGLM/man/dgdirm.Rd |only MGLM-0.0.8/MGLM/man/dmn.Rd |only MGLM-0.0.8/MGLM/man/dnegmn.Rd |only MGLM-0.0.8/MGLM/man/predict-methods.Rd |only MGLM-0.0.8/MGLM/man/print-methods.Rd |only MGLM-0.0.8/MGLM/man/rdirm.Rd |only MGLM-0.0.8/MGLM/man/rgdirm.Rd |only MGLM-0.0.8/MGLM/man/rnegmn.Rd |only MGLM-0.0.8/MGLM/vignettes/Vignette.Rnw |only MGLM-0.0.9/MGLM/DESCRIPTION | 14 MGLM-0.0.9/MGLM/MD5 | 96 - MGLM-0.0.9/MGLM/NAMESPACE | 49 MGLM-0.0.9/MGLM/R/DMD.DM.R |only MGLM-0.0.9/MGLM/R/DMD.GDM.R |only MGLM-0.0.9/MGLM/R/DMD.MN.R |only MGLM-0.0.9/MGLM/R/DMD.NegMN.R |only MGLM-0.0.9/MGLM/R/MGLM-package.R |only MGLM-0.0.9/MGLM/R/MGLMfit.R | 481 ----- MGLM-0.0.9/MGLM/R/MGLMgen.R | 44 MGLM-0.0.9/MGLM/R/MGLMreg.R | 1961 +++------------------ MGLM-0.0.9/MGLM/R/MGLMsparsereg.R | 262 +- MGLM-0.0.9/MGLM/R/MGLMtune.R | 103 - MGLM-0.0.9/MGLM/R/aaclasses.R |only MGLM-0.0.9/MGLM/R/aagenerics.R |only MGLM-0.0.9/MGLM/R/accessors.MGLMsparsereg.R |only MGLM-0.0.9/MGLM/R/accessors.MGLMtune.R |only MGLM-0.0.9/MGLM/R/bAIC.MGLM.R |only MGLM-0.0.9/MGLM/R/coef.MGLM.R |only MGLM-0.0.9/MGLM/R/kr.R | 28 MGLM-0.0.9/MGLM/R/logLik.MGLM.R |only MGLM-0.0.9/MGLM/R/pdfln.R | 394 +++- MGLM-0.0.9/MGLM/R/predict.MGLM.R |only MGLM-0.0.9/MGLM/R/show.MGLM.R |only MGLM-0.0.9/MGLM/build/vignette.rds |binary MGLM-0.0.9/MGLM/inst/doc/Vignette.pdf |binary MGLM-0.0.9/MGLM/inst/doc/mglm_vignette.R |only MGLM-0.0.9/MGLM/inst/doc/mglm_vignette.html |only MGLM-0.0.9/MGLM/inst/doc/mglm_vignette.rmd |only MGLM-0.0.9/MGLM/man/AIC.Rd |only MGLM-0.0.9/MGLM/man/BIC.Rd |only MGLM-0.0.9/MGLM/man/MGLM-package.Rd | 23 MGLM-0.0.9/MGLM/man/MGLMfit-class.Rd | 87 MGLM-0.0.9/MGLM/man/MGLMfit.Rd | 126 - MGLM-0.0.9/MGLM/man/MGLMreg-class.Rd | 99 - MGLM-0.0.9/MGLM/man/MGLMreg.Rd | 214 -- MGLM-0.0.9/MGLM/man/MGLMsparsereg-class.Rd | 89 MGLM-0.0.9/MGLM/man/MGLMsparsereg.Rd | 251 +- MGLM-0.0.9/MGLM/man/MGLMtune-class.Rd | 50 MGLM-0.0.9/MGLM/man/MGLMtune.Rd | 183 - MGLM-0.0.9/MGLM/man/coef.Rd |only MGLM-0.0.9/MGLM/man/dirmn.Rd |only MGLM-0.0.9/MGLM/man/dist.Rd | 58 MGLM-0.0.9/MGLM/man/dof.Rd |only MGLM-0.0.9/MGLM/man/gdirmn.Rd |only MGLM-0.0.9/MGLM/man/kr.Rd | 50 MGLM-0.0.9/MGLM/man/logLik.Rd |only MGLM-0.0.9/MGLM/man/maxlambda.Rd |only MGLM-0.0.9/MGLM/man/mn.Rd |only MGLM-0.0.9/MGLM/man/negmn.Rd |only MGLM-0.0.9/MGLM/man/path.Rd |only MGLM-0.0.9/MGLM/man/pkg-internal.Rd | 4 MGLM-0.0.9/MGLM/man/predict.Rd |only MGLM-0.0.9/MGLM/man/rnaseq.Rd | 32 MGLM-0.0.9/MGLM/man/show.Rd |only MGLM-0.0.9/MGLM/vignettes/Vignette-concordance.tex |only MGLM-0.0.9/MGLM/vignettes/Vignette.pdf |only MGLM-0.0.9/MGLM/vignettes/Vignette.tex |only MGLM-0.0.9/MGLM/vignettes/mglm_vignette.rmd |only 73 files changed, 1685 insertions(+), 3013 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included. The standard textbook for such data is John Aitchison's (1986). "The statistical analysis of compositional data". Chapman & Hall.
Author: Michail Tsagris [aut, cre], Giorgos Athineou [aut]
Maintainer: Michail Tsagris <mtsagris@yahoo.gr>
Diff between Compositional versions 2.7 dated 2017-11-23 and 2.8 dated 2018-01-14
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++++----- NAMESPACE | 3 ++- R/hotel2T2.R | 33 ++++++++++++++++++++++----------- R/mixreg.R |only R/totvar.R |only R/zadr.R |only man/Compositional-package.Rd | 4 ++-- man/alfa.Rd | 20 ++++++++++---------- man/totvar.Rd |only man/zadr.Rd |only 11 files changed, 50 insertions(+), 33 deletions(-)
Title: Fragment Analysis in R
Description: Performs fragment analysis using genetic data coming from capillary electrophoresis machines. These are files with FSA extension which stands for FASTA-type file, and .txt files from Beckman CEQ 8000 system, both contain DNA fragment intensities read by machinery. In addition to visualization, it performs automatic scoring of SSRs (Sample Sequence Repeats; a type of genetic marker very common across the genome) and other type of PCR markers (standing for Polymerase Chain Reaction) in biparental populations such as F1, F2, BC (backcross), and diversity panels (collection of genetic diversity).
Author: Giovanny Covarrubias-Pazaran, Luis Diaz-Garcia, Brandon Schlautman, Walter Salazar, Juan Zalapa.
Maintainer: Giovanny Covarrubias-Pazaran <covarrubiasp@wisc.edu>
Diff between Fragman versions 1.0.8 dated 2017-12-03 and 1.0.9 dated 2018-01-14
Fragman-1.0.8/Fragman/R/score.easy.R |only Fragman-1.0.8/Fragman/man/score.easy.Rd |only Fragman-1.0.9/Fragman/DESCRIPTION | 8 Fragman-1.0.9/Fragman/MD5 | 39 +- Fragman-1.0.9/Fragman/NAMESPACE | 16 Fragman-1.0.9/Fragman/R/find.ladder.R | 257 --------------- Fragman-1.0.9/Fragman/R/ladder.corrector.R | 36 +- Fragman-1.0.9/Fragman/R/ladder.info.attach.R | 18 - Fragman-1.0.9/Fragman/R/overview.R | 18 - Fragman-1.0.9/Fragman/R/overview2.R | 399 +++++++++++++----------- Fragman-1.0.9/Fragman/R/score.markers.R |only Fragman-1.0.9/Fragman/R/storing.inds.R | 77 ++++ Fragman-1.0.9/Fragman/inst/CITATION | 2 Fragman-1.0.9/Fragman/man/Fragman-package.Rd | 89 ++--- Fragman-1.0.9/Fragman/man/find.ladder.Rd | 11 Fragman-1.0.9/Fragman/man/get.scores.Rd | 2 Fragman-1.0.9/Fragman/man/ladder.corrector.Rd | 4 Fragman-1.0.9/Fragman/man/ladder.info.attach.Rd | 2 Fragman-1.0.9/Fragman/man/overview.Rd | 12 Fragman-1.0.9/Fragman/man/overview2.Rd | 14 Fragman-1.0.9/Fragman/man/plot.Rd |only Fragman-1.0.9/Fragman/man/score.markers.Rd |only Fragman-1.0.9/Fragman/man/storing.inds.Rd | 7 23 files changed, 467 insertions(+), 544 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-13 0.2.0