Title: Efficient Effect Size Computation
Description: A collection of functions to compute the standardized
effect sizes for experiments (Cohen d, Hedges g, Cliff delta, Vargha-Delaney A).
The computation algorithms have been optimized to allow efficient computation even
with very large data sets.
Author: Marco Torchiano [aut, cre]
Maintainer: Marco Torchiano <marco.torchiano@polito.it>
Diff between effsize versions 0.7.9 dated 2020-03-23 and 0.8.0 dated 2020-04-09
DESCRIPTION | 8 - MD5 | 14 +-- R/CliffDelta.R | 17 ++-- R/CohenD.R | 180 ++++++++++++++++++++++++++++++++------------ man/cohen.d.Rd | 62 ++++++++++----- man/effsize-package.Rd | 4 tests/testthat/testCliff.R | 18 ++++ tests/testthat/testCohenD.R | 60 ++++++++++++++ 8 files changed, 275 insertions(+), 88 deletions(-)
Title: Flexible Parametric Cure Models
Description: Flexible parametric mixture and non-mixture cure models for time-to-event data.
Author: Jordan Amdahl [aut, cre]
Maintainer: Jordan Amdahl <jrdnmdhl@gmail.com>
Diff between flexsurvcure versions 1.0.0 dated 2019-08-27 and 1.1.0 dated 2020-04-09
DESCRIPTION | 12 +++---- MD5 | 24 +++++++------- NAMESPACE | 2 + NEWS.md | 3 + R/aaa.R | 2 - R/flexsurvcure.R | 9 ++++- build/vignette.rds |binary inst/doc/flexsurvcure.R | 10 +++--- inst/doc/flexsurvcure.Rmd | 2 - inst/doc/flexsurvcure.html | 63 ++++++++++++++++++--------------------- man/flexsurvcure.Rd | 16 ++++++++- tests/testthat/test_surv_funcs.R | 19 +++++++++++ vignettes/flexsurvcure.Rmd | 2 - 13 files changed, 100 insertions(+), 64 deletions(-)
Title: Constrained Regression Model for an Ordinal Response and Ordinal
Predictors
Description: Fits a constrained regression model for an ordinal response with ordinal predictors and possibly others, Espinosa and Hennig (2019) <doi:10.1007/s11222-018-9842-2>. The parameter estimates associated with an ordinal predictor are constrained to be monotonic. If a monotonicity direction (isotonic or antitonic) is not specified for an ordinal predictor by the user, then the monotonicity direction classification procedure establishes it. Two monotonicity tests are also available to test the null hypothesis of monotonicity over a set of parameters associated with an ordinal predictor.
Author: Javier Espinosa <javier.espinosa@ucl.ac.uk>
Maintainer: Javier Espinosa <javier.espinosa@ucl.ac.uk>
Diff between crov versions 0.1.3 dated 2018-11-02 and 0.2.0 dated 2020-04-09
DESCRIPTION | 10 MD5 | 28 +- NAMESPACE | 7 R/cmleBonferroni.R |only R/cmleConfReg.R |only R/cmleFiltered.R |only R/loglikGrad.R | 7 R/loglikHess.R |only R/loglikOrdPred.R | 7 R/mdcp.R | 576 ++++++++++++++++++++++++++++--------------------- R/mdcs1.R |only R/mdcs2.R |only R/monoTestBonf.R | 16 - R/monoTestBonfSingle.R | 2 R/monoTestConfReg.R |only man/crovData.Rd | 26 +- man/mdcp.Rd | 177 ++++++++------- man/monoTestBonf.Rd | 81 +++--- man/monoTestConfReg.Rd |only 19 files changed, 522 insertions(+), 415 deletions(-)
Title: Penalized Quantile Regression
Description: Performs penalized quantile regression for LASSO, SCAD and MCP functions including group penalties. Provides a function that automatically generates lambdas and evaluates different models with cross validation or BIC, including a large p version of BIC.
Author: Ben Sherwood [aut, cre], Adam Maidman [ctb]
Maintainer: Ben Sherwood <ben.sherwood@ku.edu>
Diff between rqPen versions 2.2.1 dated 2020-01-28 and 2.2.2 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 6 ++++++ R/mainFunctions.R | 16 +++++++++++----- man/cv.rq.group.pen.Rd | 4 ++-- man/rq.group.fit.Rd | 8 ++++---- 6 files changed, 32 insertions(+), 20 deletions(-)
Title: Multivariate Analysis and Visualization for Biological Data
Description: Code to support a systems biology research program from inception through publication. The methods focus on dimension reduction approaches to detect patterns in complex, multivariate experimental data and places an emphasis on informative visualizations. The goal for this project is to create a package that will evolve over time, thereby remaining relevant and reflective of current methods and techniques. As a result, we encourage suggested additions to the package, both methodological and graphical.
Author: Samuel V. Scarpino
Maintainer: Samuel V. Scarpino <scarpino@utexas.edu>
Diff between multiDimBio versions 1.2.1 dated 2019-08-30 and 1.2.2 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/simPower.R | 2 +- man/multiDimBio-package.Rd | 4 ++-- 4 files changed, 10 insertions(+), 10 deletions(-)
Title: Public Economic Data and Quantitative Analysis
Description: Provides an interface to access public economic and financial data for
economic research and quantitative analysis. The data sources including
NBS, FRED, Yahoo Finance, 163 Finance and etc.
Author: Shichen Xie [aut, cre]
Maintainer: Shichen Xie <xie@shichen.name>
Diff between pedquant versions 0.1.3 dated 2020-02-14 and 0.1.5 dated 2020-04-09
DESCRIPTION | 8 - MD5 | 53 +++++------ NAMESPACE | 3 NEWS.md | 8 + R/condition_helper_fun.R | 145 +++++++++++++++++++------------ R/dim_admin_div_cn.R | 52 +++++++++-- R/dim_country_currency.R | 101 +++++----------------- R/dim_exchange_commodity.R | 15 +-- R/dim_exchange_stock.R | 12 +- R/ed_0interest.R | 61 +++++-------- R/ed_code.R | 60 ++++++++++++- R/ed_wb.R |only R/md_1forex.R | 63 +++++++++++++ R/md_2money.R | 12 +- R/md_stock1_.R | 15 ++- R/md_stock1_163.R | 177 ++++++++++++++++++++++++++++++++------- R/md_stock_adj.R | 5 - R/md_stock_fs.R | 133 +++++++++++++++-------------- R/md_stock_symbol.R | 154 +++++---------------------------- R/pq_plot.R | 33 +++---- R/sysdata.rda |binary README.md | 8 - man/ed_fred.Rd | 4 man/figures/README-charts1-1.png |binary man/figures/README-charts2-1.png |binary man/md_stock.Rd | 20 ++-- man/md_stock_financials.Rd | 3 man/pq_plot.Rd | 10 +- 28 files changed, 663 insertions(+), 492 deletions(-)
Title: Model Wrappers for Discriminant Analysis
Description: Bindings for additional classification models for use with the
'parsnip' package. Models include flavors of discriminant analysis, such as
linear (Fisher (1936) <doi:10.1111/j.1469-1809.1936.tb02137.x>), regularized
(Friedman (1989) <doi:10.1080/01621459.1989.10478752>), and flexible
(Hastie, Tibshirani, and Buja (1994) <doi:10.1080/01621459.1994.10476866>),
as well as naive Bayes classifiers (Hand and Yu (2007)
<doi:10.1111/j.1751-5823.2001.tb00465.x>).
Author: Max Kuhn [aut, cre],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between discrim versions 0.0.1 dated 2019-10-11 and 0.0.2 dated 2020-04-09
discrim-0.0.1/discrim/R/parsnip.R |only discrim-0.0.2/discrim/DESCRIPTION | 14 + discrim-0.0.2/discrim/MD5 | 39 +++-- discrim-0.0.2/discrim/NEWS.md |only discrim-0.0.2/discrim/R/0_imports.R | 1 discrim-0.0.2/discrim/R/discrim_flexible.R | 23 --- discrim-0.0.2/discrim/R/discrim_lin.R | 28 --- discrim-0.0.2/discrim/R/discrim_regularized.R | 30 ---- discrim-0.0.2/discrim/R/naive_Bayes.R | 30 +--- discrim-0.0.2/discrim/R/naive_Bayes_data.R | 71 ++++++++++ discrim-0.0.2/discrim/man/discrim_flexible.Rd | 48 ++++-- discrim-0.0.2/discrim/man/discrim_linear.Rd | 45 +++--- discrim-0.0.2/discrim/man/discrim_regularized.Rd | 51 ++++--- discrim-0.0.2/discrim/man/naive_Bayes.Rd | 52 ++++--- discrim-0.0.2/discrim/man/rmd |only discrim-0.0.2/discrim/tests/testthat/test-flexible.R | 2 discrim-0.0.2/discrim/tests/testthat/test-linear-fda.R | 2 discrim-0.0.2/discrim/tests/testthat/test-linear-lda.R | 2 discrim-0.0.2/discrim/tests/testthat/test-naive-Bayes.R | 2 discrim-0.0.2/discrim/tests/testthat/test-naive-Bayes_naivebayes.R |only discrim-0.0.2/discrim/tests/testthat/test-rda.R | 2 21 files changed, 259 insertions(+), 183 deletions(-)
Title: Tools for Analyzing Shapes and Patterns
Description: This is an evolving and growing collection of tools for the quantification, assessment, and comparison of shape and pattern. This collection provides tools for: (1) the spatial decomposition of planar shapes using 'ShrinkShape' to incrementally shrink shapes to extinction while computing area, perimeter, and number of parts at each iteration of shrinking; the spectra of results are returned in graphic and tabular formats (Remmel 2018) <doi:10.3390/su10103413>, (2) simulating landscape patterns, (3) provision of tools for estimating composition and configuration parameters from a categorical (binary) landscape map (grid) and then simulates a selected number of statistically similar landscapes. Class-focused pattern metrics are computed for each simulated map to produce empirical distributions against which statistical comparisons can be made. The code permits the analysis of single maps or pairs of maps (Remmel and Fortin 2013) <doi:10.1007/s10980-013-9905-x>, (4) counting the number of each first-order pattern element and converting that information into both frequency and empirical probability vectors (Remmel 2020) <doi:10.3390/e22040420>. NOTE: This is a consolidation of existing packages ('PatternClass', 'ShapePattern') to begin warehousing all shape and pattern code in a common package. Additional utility tools for handling data are provided and this package will be added to as more tools are created, cleaned-up, and documented. Note that all future developments will appear in this package and that 'PatternClass' will eventually be archived.
Author: Tarmo K. Remmel [aut, cre] (<https://orcid.org/0000-0001-6251-876X>),
Marie-Josee Fortin [ctb],
Ferenc Csillag [ctb],
Sandor Kabos [ctb]
Maintainer: Tarmo K. Remmel <remmelt@yorku.ca>
Diff between ShapePattern versions 2.0.3 dated 2020-04-02 and 2.0.4 dated 2020-04-09
DESCRIPTION | 8 - MD5 | 11 - NEWS.md |only R/patternbits.R | 314 +++++++++++++++++++++++++------------------- build/partial.rdb |binary man/ShapePattern-package.Rd | 15 +- man/patternbits.Rd | 4 7 files changed, 205 insertions(+), 147 deletions(-)
Title: Poisson-Tweedie Generalized Linear Mixed Model
Description: Fits Poisson-Tweedie generalized linear mixed
model. Likelihood approximation based on adaptive Gauss Hermite
quadrature rule.
Author: Mirko Signorelli [aut, cre],
Pietro Spitali [aut],
Roula Tsonaka [aut]
Maintainer: Mirko Signorelli <msignorelli.rpackages@gmail.com>
Diff between ptmixed versions 0.4.3 dated 2020-02-19 and 0.5.1 dated 2020-04-09
DESCRIPTION | 16 +-- MD5 | 49 ++++++----- NAMESPACE | 2 R/df1.R | 4 R/makespaghetti.R | 23 ++--- R/nbglm.R | 27 ++---- R/nbmixed.R | 58 +++++-------- R/pmf.R |only R/ptglm.R | 28 ++---- R/ptmixed.R | 37 +++++--- R/ranef.R | 44 ++++------ R/simulate_ptglmm.R |only R/wald-test.R | 30 ++---- inst/NEWS.md | 19 ++++ inst/doc |only man/df1.Rd | 42 +++++---- man/loglik.pt.1re.Rd | 110 ++++++++++++++----------- man/make.spaghetti.Rd | 174 ++++++++++++++++++++++------------------ man/nbglm.Rd | 121 +++++++++++++-------------- man/nbmixed.Rd | 213 ++++++++++++++++++++++++------------------------- man/pmf.Rd |only man/ptglm.Rd | 118 ++++++++++++--------------- man/ptmixed.Rd | 210 ++++++++++++++++++++++++++---------------------- man/ranef.Rd | 99 +++++++++------------- man/simulate_ptglmm.Rd |only man/summary.ptglm.Rd | 68 +++++++-------- man/summary.ptglmm.Rd | 72 ++++++++-------- man/wald.test.Rd | 108 +++++++++++------------- 28 files changed, 856 insertions(+), 816 deletions(-)
Title: Publishing Interactive Plots
Description: A native R package that allows to publish, share and track revisions
of plots using your favorite plotting package, e.g. 'ggplot2'. It also provides
a kind of interactivity for such plots by specifying certain parameters for any
specific plot view. See <https://docs.dstack.ai> for more information.
Author: Vitaly Khudobakhshov [aut, cre]
Maintainer: Vitaly Khudobakhshov <vitaly@dstack.ai>
Diff between dstack versions 0.1.0 dated 2020-03-24 and 0.2.0 dated 2020-04-09
dstack-0.1.0/dstack/tests/testthat/test_stack.R |only dstack-0.2.0/dstack/DESCRIPTION | 10 dstack-0.2.0/dstack/MD5 | 38 ++- dstack-0.2.0/dstack/NAMESPACE | 11 - dstack-0.2.0/dstack/R/auto.R |only dstack-0.2.0/dstack/R/config.R | 117 ++++++++++- dstack-0.2.0/dstack/R/dataframe.R |only dstack-0.2.0/dstack/R/datatable.R |only dstack-0.2.0/dstack/R/ggplot.R | 8 dstack-0.2.0/dstack/R/plotly.R |only dstack-0.2.0/dstack/R/stack.R | 239 ++++++++++++++++------- dstack-0.2.0/dstack/man/auto_handler.Rd |only dstack-0.2.0/dstack/man/commit.Rd | 14 + dstack-0.2.0/dstack/man/configure.Rd |only dstack-0.2.0/dstack/man/create_frame.Rd | 9 dstack-0.2.0/dstack/man/dataframe_handler.Rd |only dstack-0.2.0/dstack/man/datatable_handler.Rd |only dstack-0.2.0/dstack/man/in_place_config.Rd |only dstack-0.2.0/dstack/man/is.datatable.Rd |only dstack-0.2.0/dstack/man/is.ggplot2.Rd |only dstack-0.2.0/dstack/man/is.plotly.Rd |only dstack-0.2.0/dstack/man/list_profiles.Rd |only dstack-0.2.0/dstack/man/plotly_handler.Rd |only dstack-0.2.0/dstack/man/pull.Rd |only dstack-0.2.0/dstack/man/push.Rd | 4 dstack-0.2.0/dstack/man/push_frame.Rd | 15 - dstack-0.2.0/dstack/man/use_config.Rd |only dstack-0.2.0/dstack/man/yaml_config.Rd | 5 dstack-0.2.0/dstack/tests/testthat/test_config.R |only 29 files changed, 352 insertions(+), 118 deletions(-)
Title: A Method to Download Department of Education College Scorecard
Data
Description: A method to download Department of Education College
Scorecard data using the public API
<https://collegescorecard.ed.gov/data/documentation/>. It is based on
the 'dplyr' model of piped commands to select and filter data in a
single chained function call. An API key from the U.S. Department of
Education is required.
Author: Benjamin Skinner [aut, cre] (<https://orcid.org/0000-0002-0337-7415>)
Maintainer: Benjamin Skinner <btskinner@coe.ufl.edu>
Diff between rscorecard versions 0.14.0 dated 2020-01-08 and 0.15.0 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++-------- NEWS.md | 22 +++++++++++++++++++++- R/dictionary.R | 20 +++++++++++--------- R/get.R | 7 ++++++- R/init.R | 1 + R/select.R | 3 +++ R/sysdata.rda |binary man/sc_dict.Rd | 10 ++++++++-- tests/testthat/test-dictionary.R |only 10 files changed, 63 insertions(+), 25 deletions(-)
Title: Flexibly Reshape Data: A Reboot of the Reshape Package
Description: Flexibly restructure and aggregate data using just two
functions: melt and 'dcast' (or 'acast').
Author: Hadley Wickham <h.wickham@gmail.com>
Maintainer: Hadley Wickham <h.wickham@gmail.com>
Diff between reshape2 versions 1.4.3 dated 2017-12-11 and 1.4.4 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 4 ++++ README.md | 12 +++++------- man/cast.Rd | 28 ++++++++++++++++++++++------ man/french_fries.Rd | 4 +++- man/melt.array.Rd | 40 ++++++++++++++++++++++++++++++---------- man/melt.data.frame.Rd | 19 ++++++++++++++----- man/melt.default.Rd | 6 ++++-- man/melt.list.Rd | 6 ++++-- man/smiths.Rd | 4 +++- man/tips.Rd | 4 +++- tests/testthat/test-cast.r | 4 +--- tests/testthat/test-melt.r | 1 + 14 files changed, 111 insertions(+), 55 deletions(-)
Title: Make Static HTML Documentation for a Package
Description: Generate an attractive and useful website from a source package.
'pkgdown' converts your documentation, vignettes, 'README', and more to
'HTML' making it easy to share information about your package online.
Author: Hadley Wickham [aut, cre] (<https://orcid.org/0000-0003-4757-117X>),
Jay Hesselberth [aut] (<https://orcid.org/0000-0002-6299-179X>),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between pkgdown versions 1.5.0 dated 2020-03-25 and 1.5.1 dated 2020-04-09
pkgdown-1.5.0/pkgdown/tests/testthat/assets/home-empty-readme-md |only pkgdown-1.5.1/pkgdown/DESCRIPTION | 8 +- pkgdown-1.5.1/pkgdown/MD5 | 39 ++++------ pkgdown-1.5.1/pkgdown/NAMESPACE | 1 pkgdown-1.5.1/pkgdown/NEWS.md | 15 +++ pkgdown-1.5.1/pkgdown/R/build-articles.R | 4 - pkgdown-1.5.1/pkgdown/R/build-home-citation.R | 2 pkgdown-1.5.1/pkgdown/R/build-reference.R | 6 - pkgdown-1.5.1/pkgdown/R/deploy-site.R | 21 ++++- pkgdown-1.5.1/pkgdown/R/highlight.r | 3 pkgdown-1.5.1/pkgdown/R/markdown.R | 2 pkgdown-1.5.1/pkgdown/R/topics.R | 1 pkgdown-1.5.1/pkgdown/man/build_articles.Rd | 5 + pkgdown-1.5.1/pkgdown/man/deploy_site_github.Rd | 7 + pkgdown-1.5.1/pkgdown/tests/testthat/assets/version-formatting/docs/404.html | 12 +-- pkgdown-1.5.1/pkgdown/tests/testthat/assets/version-formatting/docs/index.html | 8 +- pkgdown-1.5.1/pkgdown/tests/testthat/assets/version-formatting/docs/pkgdown.yml | 4 - pkgdown-1.5.1/pkgdown/tests/testthat/test-build_home.R | 14 --- pkgdown-1.5.1/pkgdown/tests/testthat/test-highlight.R | 15 +++ pkgdown-1.5.1/pkgdown/tests/testthat/test-link-href.R | 1 pkgdown-1.5.1/pkgdown/tests/testthat/test-markdown.R |only 21 files changed, 103 insertions(+), 65 deletions(-)
Title: Graphical VAR for Experience Sampling Data
Description: Estimates within and between time point interactions in experience sampling data, using the Graphical vector autoregression model in combination with regularization. See also Epskamp, Waldorp, Mottus & Borsboom (2018) <doi:10.1080/00273171.2018.1454823>.
Author: Sacha Epskamp
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between graphicalVAR versions 0.2.2 dated 2018-06-16 and 0.2.3 dated 2020-04-09
DESCRIPTION | 6 MD5 | 42 +-- NAMESPACE | 66 +++--- NEWS | 71 +++--- R/Kappa.R | 20 - R/RcppExports.R | 38 +-- R/Rothmana.R | 204 +++++++++--------- R/dataPrep.R | 242 +++++++++++----------- R/gVARsimulator.R | 350 ++++++++++++++++---------------- R/graphicalVAR.R | 534 ++++++++++++++++++++++++------------------------- R/lambdas.R | 242 +++++++++++----------- R/methods.R | 182 ++++++++-------- R/mlGraphicalVAR.R | 188 ++++++++--------- R/simMLgvar.R | 332 +++++++++++++++--------------- R/varGLM.R | 128 +++++------ man/S3.Rd | 52 ++-- man/graphicalVAR.Rd | 312 ++++++++++++++-------------- man/graphicalVARsim.Rd | 96 ++++---- man/mlGraphicalVAR.Rd | 212 +++++++++---------- man/plot.Rd | 82 +++---- man/randomGVARmodel.Rd | 106 ++++----- man/simMLgvar.Rd | 132 ++++++------ 22 files changed, 1821 insertions(+), 1816 deletions(-)
Title: Thematic Maps
Description: Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps.
Author: Martijn Tennekes [aut, cre],
Joel Gombin [ctb],
Sebastian Jeworutzki [ctb],
Kent Russell [ctb],
Richard Zijdeman [ctb],
John Clouse [ctb],
Robin Lovelace [ctb],
Jakub Nowosad [ctb],
Jannes Muenchow [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap versions 2.3-2 dated 2020-01-19 and 3.0 dated 2020-04-09
tmap-2.3-2/tmap/inst/doc/tmap-changes-v2.R |only tmap-2.3-2/tmap/inst/doc/tmap-changes-v2.Rmd |only tmap-2.3-2/tmap/inst/doc/tmap-changes-v2.html |only tmap-2.3-2/tmap/vignettes/tmap-changes-v2.Rmd |only tmap-3.0/tmap/DESCRIPTION | 20 tmap-3.0/tmap/MD5 | 145 ++- tmap-3.0/tmap/NAMESPACE | 42 - tmap-3.0/tmap/NEWS | 10 tmap-3.0/tmap/R/add_leaflet_titles.R |only tmap-3.0/tmap/R/cat2pal.R | 51 + tmap-3.0/tmap/R/cat2shape.R | 16 tmap-3.0/tmap/R/check_shape.R | 2 tmap-3.0/tmap/R/deprecated.R | 210 ----- tmap-3.0/tmap/R/determine_asp_ratios.R |only tmap-3.0/tmap/R/gather_shape_info.R |only tmap-3.0/tmap/R/gridplot.R | 12 tmap-3.0/tmap/R/legend_prepare.R | 6 tmap-3.0/tmap/R/meta_plot.R | 6 tmap-3.0/tmap/R/meta_plot_items.R | 42 - tmap-3.0/tmap/R/num2pal.R | 83 ++ tmap-3.0/tmap/R/num2shape.R | 3 tmap-3.0/tmap/R/order_x.R | 16 tmap-3.0/tmap/R/pkg.R | 2 tmap-3.0/tmap/R/plot_all.R | 3 tmap-3.0/tmap/R/plot_map.R | 39 - tmap-3.0/tmap/R/plot_misc_functions.R | 61 - tmap-3.0/tmap/R/prepare_vp.R |only tmap-3.0/tmap/R/preprocess_gt.R | 24 tmap-3.0/tmap/R/preprocess_shapes.R | 406 ++++------- tmap-3.0/tmap/R/print.R |only tmap-3.0/tmap/R/print_shortcut.R |only tmap-3.0/tmap/R/print_tmap.R | 357 --------- tmap-3.0/tmap/R/process_aes.R | 25 tmap-3.0/tmap/R/process_color_aes.R | 25 tmap-3.0/tmap/R/process_data.R | 24 tmap-3.0/tmap/R/process_facet_layout.R | 2 tmap-3.0/tmap/R/process_fill.R | 5 tmap-3.0/tmap/R/process_gps.R | 12 tmap-3.0/tmap/R/process_layers.R | 14 tmap-3.0/tmap/R/process_lwd_aes.R | 6 tmap-3.0/tmap/R/process_meta.R | 7 tmap-3.0/tmap/R/process_raster.R | 10 tmap-3.0/tmap/R/process_shape_aes.R | 4 tmap-3.0/tmap/R/process_shapes.R | 69 - tmap-3.0/tmap/R/process_symbols.R | 4 tmap-3.0/tmap/R/process_tm.R | 54 - tmap-3.0/tmap/R/qtm.R | 5 tmap-3.0/tmap/R/stars_misc.R |only tmap-3.0/tmap/R/symbol_functions.R | 2 tmap-3.0/tmap/R/tm_layers.R | 70 + tmap-3.0/tmap/R/tm_misc_elements.R | 28 tmap-3.0/tmap/R/tmap_icons.R | 4 tmap-3.0/tmap/R/tmap_save.R | 2 tmap-3.0/tmap/R/tmap_style_catalogue.R | 2 tmap-3.0/tmap/R/view_tmap.R | 69 + tmap-3.0/tmap/R/xxx_raster.R | 110 --- tmap-3.0/tmap/R/xxx_scales.R | 212 +++-- tmap-3.0/tmap/build/create_land.R | 48 + tmap-3.0/tmap/build/vignette.rds |binary tmap-3.0/tmap/data/land.rda |binary tmap-3.0/tmap/inst/doc/tmap-JSS-code.Rmd | 2 tmap-3.0/tmap/inst/doc/tmap-JSS-code.html | 944 +++++++++++++++----------- tmap-3.0/tmap/inst/doc/tmap-changes.R |only tmap-3.0/tmap/inst/doc/tmap-changes.Rmd |only tmap-3.0/tmap/inst/doc/tmap-changes.html |only tmap-3.0/tmap/inst/doc/tmap-getstarted.Rmd | 4 tmap-3.0/tmap/inst/doc/tmap-getstarted.html | 498 +++++++++---- tmap-3.0/tmap/man/deprecated_functions.Rd | 73 -- tmap-3.0/tmap/man/metro.Rd | 2 tmap-3.0/tmap/man/print.tmap.Rd | 2 tmap-3.0/tmap/man/tm_facets.Rd | 24 tmap-3.0/tmap/man/tm_grid.Rd | 6 tmap-3.0/tmap/man/tm_lines.Rd | 18 tmap-3.0/tmap/man/tm_polygons.Rd | 13 tmap-3.0/tmap/man/tm_raster.Rd | 17 tmap-3.0/tmap/man/tm_symbols.Rd | 26 tmap-3.0/tmap/man/tm_text.Rd | 13 tmap-3.0/tmap/man/tmap_leaflet.Rd | 2 tmap-3.0/tmap/vignettes/tmap-JSS-code.Rmd | 2 tmap-3.0/tmap/vignettes/tmap-changes.Rmd |only tmap-3.0/tmap/vignettes/tmap-getstarted.Rmd | 4 81 files changed, 1995 insertions(+), 2024 deletions(-)
Title: Data Mining Classification and Regression Methods
Description: Facilitates the use of data mining algorithms in classification and regression (including time series forecasting) tasks by presenting a short and coherent set of functions. Versions: 1.4.4 new automated machine learning (AutoML) and ensembles, via improved fit(), mining() and mparheuristic() functions, and new categorical preprocessing, via improved delevels() function; 1.4.3 new metrics (e.g., macro precision, explained variance), new "lssvm" model and improved mparheuristic() function; 1.4.2 new "NMAE" metric, "xgboost" and "cv.glmnet" models (16 classification and 18 regression models); 1.4.1 new tutorial and more robust version; 1.4 - new classification and regression models, with a total of 14 classification and 15 regression methods, including: Decision Trees, Neural Networks, Support Vector Machines, Random Forests, Bagging and Boosting; 1.3 and 1.3.1 - new classification and regression metrics; 1.2 - new input importance methods via improved Importance() function; 1.0 - first version.
Author: Paulo Cortez [aut, cre]
Maintainer: Paulo Cortez <pcortez@dsi.uminho.pt>
Diff between rminer versions 1.4.3 dated 2019-12-16 and 1.4.4 dated 2020-04-09
DESCRIPTION | 10 MD5 | 22 - NAMESPACE | 2 R/estimate.R | 7 R/metrics.R | 44 ++ R/model.R | 1009 ++++++++++++++++++++++++++++++++++++++------------- R/preprocess.R | 70 +++ man/crossvaldata.Rd | 3 man/delevels.Rd | 77 +++ man/fit.Rd | 140 +++++-- man/mining.Rd | 50 ++ man/mparheuristic.Rd | 109 ++++- 12 files changed, 1222 insertions(+), 321 deletions(-)
Title: Inference of Gene Regulatory Networks
Description: We present 'corto' (Correlation Tool), a simple package to infer
gene regulatory networks and visualize master regulators from gene expression
data using DPI (Data Processing Inequality) and bootstrapping to recover edges.
An initial step is performed to calculate all significant
edges between a list of source nodes (centroids) and target genes.
Then all triplets containing two centroids and one target are tested
in a DPI step which removes edges. A bootstrapping process then calculates
the robustness of the network, eventually re-adding edges previously removed by DPI.
The algorithm has been optimized to run outside a computing cluster, using a fast correlation
implementation. The package finally provides functions to calculate network enrichment
analysis from RNA-Seq and ATAC-Seq signatures as described in the article by
Giorgi lab (2020) <doi:10.1093/bioinformatics/btaa223>.
Author: Federico M. Giorgi [aut, cre],
Daniele Mercatelli [ctb],
Gonzalo Lopez-Garcia [ctb]
Maintainer: Federico M. Giorgi <federico.giorgi@gmail.com>
Diff between corto versions 1.0.5 dated 2020-03-03 and 1.0.8 dated 2020-04-09
DESCRIPTION | 19 +++++++++---------- MD5 | 4 ++-- inst/doc/corto_vignette.html | 2 +- 3 files changed, 12 insertions(+), 13 deletions(-)
Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.
Author: Murray Efford
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secr versions 4.2.0 dated 2020-02-22 and 4.2.2 dated 2020-04-09
DESCRIPTION | 8 +-- MD5 | 26 +++++------ NEWS | 14 ++++++ R/addCovariates.R | 25 ++++++----- R/join2.R | 9 ++-- R/reduce.R | 1 R/utility.R | 3 - R/writeGPS.R | 3 - inst/doc/secr-datainput.pdf |binary inst/doc/secr-overview.pdf |binary man/secr-package.Rd | 4 - man/suggest.buffer.Rd | 9 ++-- man/writeGPS.Rd | 5 +- src/prwifastproximity.cpp | 97 ++++++++++++++++++++------------------------ 14 files changed, 111 insertions(+), 93 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-29 0.1.1
2019-10-28 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-10 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-09-25 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-10 1.0.7
2019-12-09 1.0.6
2019-10-17 1.0.5
2019-10-10 1.0.4
2019-09-28 1.0.3
2019-08-21 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-07 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-04 0.4
2017-10-02 0.3.2
2017-06-27 0.3
2017-05-03 0.2.6
Title: Explorer of World Population Prospects
Description: Explore data in the 'wpp2019' (or 2017, 2015, ...) package using a 'shiny' interface.
Author: Hana Sevcikova <hanas@uw.edu>
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between wppExplorer versions 2.3-3 dated 2020-01-10 and 2.3-4 dated 2020-04-09
ChangeLog | 6 +++ DESCRIPTION | 8 ++-- MD5 | 12 +++---- inst/explore/README.html | 2 - inst/explore/server.R | 77 ++++++++++++++++++++++++++------------------- inst/explore/ui.R | 8 ++-- man/wppExplorer-package.Rd | 6 +-- 7 files changed, 70 insertions(+), 49 deletions(-)
Title: Construct and Compare scGRN from Single-Cell Transcriptomic Data
Description: A workflow based on machine learning methods to construct and compare single-cell gene regulatory networks (scGRN) using single-cell RNA-seq (scRNA-seq) data collected from different conditions. Uses principal component regression, tensor decomposition, and manifold alignment, to accurately identify even subtly shifted gene expression programs.
Author: Daniel Osorio [aut, cre] (<https://orcid.org/0000-0003-4424-8422>),
Yan Zhong [aut, ctb],
Guanxun Li [aut, ctb],
Jianhua Huang [aut, ctb],
James Cai [aut, ctb, ths] (<https://orcid.org/0000-0002-8081-6725>)
Maintainer: Daniel Osorio <dcosorioh@tamu.edu>
Diff between scTenifoldNet versions 1.2.0 dated 2020-03-10 and 1.2.1 dated 2020-04-09
scTenifoldNet-1.2.0/scTenifoldNet/R/checkPyDependencies.R |only scTenifoldNet-1.2.0/scTenifoldNet/inst |only scTenifoldNet-1.2.1/scTenifoldNet/DESCRIPTION | 9 +- scTenifoldNet-1.2.1/scTenifoldNet/MD5 | 16 +--- scTenifoldNet-1.2.1/scTenifoldNet/NAMESPACE | 4 - scTenifoldNet-1.2.1/scTenifoldNet/R/dRegulation.R | 4 - scTenifoldNet-1.2.1/scTenifoldNet/R/manifoldAlignment.R | 54 +++++--------- scTenifoldNet-1.2.1/scTenifoldNet/R/scTenifoldNet.R | 5 - scTenifoldNet-1.2.1/scTenifoldNet/man/dRegulation.Rd | 4 - scTenifoldNet-1.2.1/scTenifoldNet/man/scTenifoldNet.Rd | 4 - 10 files changed, 40 insertions(+), 60 deletions(-)
Title: Czekanowski's Diagrams
Description: Allows for production of Czekanowski's Diagrams. See A. Vasterlund (2019) Master thesis, Linkoping University.
Author: Albin Vasterlund [aut],
Krzysztof Bartoszek [cre, aut, ths]
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Diff between RMaCzek versions 1.3.2 dated 2020-03-02 and 1.3.3 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/czek_matrix.R | 7 +++++-- man/RMaCzek.Rd | 4 ++-- man/czek_matrix.Rd | 8 +++++--- 5 files changed, 20 insertions(+), 15 deletions(-)
Title: Forest Plots, Funnel Plots, and Visual Funnel Plot Inference for
Meta-Analysis
Description: A compilation of functions to create visually appealing and information-rich
plots of meta-analytic data using 'ggplot2'. Currently allows to create forest plots,
funnel plots, and many of their variants, such as rainforest plots, thick forest plots,
additional evidence contour funnel plots, and sunset funnel plots. In addition, functionalities
for visual inference with the funnel plot in the context of meta-analysis are provided.
Author: Michael Kossmeier [cre, aut],
Ulrich S. Tran [aut],
Martin Voracek [aut]
Maintainer: Michael Kossmeier <michael.kossmeier@univie.ac.at>
Diff between metaviz versions 0.3.0 dated 2019-01-14 and 0.3.1 dated 2020-04-09
DESCRIPTION | 8 ++-- MD5 | 52 ++++++++++++++--------------- NEWS.md | 13 +++++++ R/funnelinf.R | 1 R/viz_forest.R | 10 ++++- R/viz_funnel.R | 24 ++++++++++--- R/viz_rainforest.R | 1 R/viz_sunset.R | 59 ++++++++++++++++++++++++--------- R/viz_thickforest.R | 1 build/vignette.rds |binary inst/doc/funnelinf.html | 46 +++++++++++++++++++------- inst/doc/metaviz.Rmd | 2 - inst/doc/metaviz.html | 66 +++++++++++++++++++++++++------------- man/brainvol.Rd | 6 ++- man/exrehab.Rd | 6 ++- man/funnelinf.Rd | 33 +++++++++++++------ man/homeopath.Rd | 6 ++- man/internal_viz_classicforest.Rd | 25 ++++++++++---- man/internal_viz_rainforest.Rd | 25 ++++++++++---- man/internal_viz_thickforest.Rd | 25 ++++++++++---- man/mozart.Rd | 6 ++- man/viz_forest.Rd | 33 ++++++++++++++----- man/viz_funnel.Rd | 44 +++++++++++++++++++------ man/viz_rainforest.Rd | 63 +++++++++++++++++++++++++++--------- man/viz_sunset.Rd | 43 +++++++++++++++++------- man/viz_thickforest.Rd | 32 +++++++++++++----- vignettes/metaviz.Rmd | 2 - 27 files changed, 453 insertions(+), 179 deletions(-)
Title: Joint Modelling of Multivariate Longitudinal Data and
Time-to-Event Outcomes
Description: Fits the joint model proposed by Henderson and colleagues (2000)
<doi:10.1093/biostatistics/1.4.465>, but extended to the case of multiple
continuous longitudinal measures. The time-to-event data is modelled using a
Cox proportional hazards regression model with time-varying covariates. The
multiple longitudinal outcomes are modelled using a multivariate version of the
Laird and Ware linear mixed model. The association is captured by a multivariate
latent Gaussian process. The model is estimated using a Monte Carlo Expectation
Maximization algorithm. This project is funded by the Medical Research Council
(Grant number MR/M013227/1).
Author: Graeme L. Hickey [cre, aut] (<https://orcid.org/0000-0002-4989-0054>),
Pete Philipson [aut] (<https://orcid.org/0000-0001-7846-0208>),
Andrea Jorgensen [ctb] (<https://orcid.org/0000-0002-6977-9337>),
Ruwanthi Kolamunnage-Dona [aut]
(<https://orcid.org/0000-0003-3886-6208>),
Paula Williamson [ctb] (<https://orcid.org/0000-0001-9802-6636>),
Dimitris Rizopoulos [ctb, dtc] (data/renal.rda, R/hessian.R, R/vcov.R),
Alessandro Gasparini [aut] (<https://orcid.org/0000-0002-8319-7624>),
Medical Research Council [fnd] (Grant number: MR/M013227/1)
Maintainer: Graeme L. Hickey <graemeleehickey@gmail.com>
Diff between joineRML versions 0.4.3 dated 2020-02-17 and 0.4.4 dated 2020-04-09
DESCRIPTION | 22 +++--- MD5 | 132 +++++++++++++++++++++------------------ NAMESPACE | 9 ++ NEWS.md | 24 +++++-- R/baseHaz.R | 2 R/bootSE.R | 2 R/confint.mjoint.R | 2 R/dynLong.R | 2 R/dynSurv.R | 2 R/fitted.mjoint.R | 2 R/fixef.mjoint.R | 2 R/formula.mjoint.R | 2 R/generics.R |only R/getVarCov.mjoint.R | 2 R/initsSurv.R | 2 R/logLik.mjoint.R | 2 R/mjoint.R | 2 R/mjoint.object.R | 2 R/plot.dynLong.R | 2 R/plot.dynSurv.R | 2 R/plot.mjoint.R | 2 R/plot.ranef.mjoint.R | 2 R/plotConvergence.R | 2 R/process_newdata.R | 1 R/ranef.mjoint.R | 2 R/residuals.mjoint.R | 2 R/sampleData.R | 2 R/sigma.mjoint.R | 2 R/simData.R | 4 - R/summary.mjoint.R | 2 R/tidiers.R |only R/vcov.mjoint.R | 2 README.md | 147 ++++++++++++++++++++++++++++++-------------- build/vignette.rds |binary inst/doc/joineRML-tidy.R |only inst/doc/joineRML-tidy.Rmd |only inst/doc/joineRML-tidy.html |only inst/doc/joineRML.html | 12 +-- inst/doc/technical.pdf |binary man/baseHaz.Rd | 2 man/bootSE.Rd | 2 man/confint.mjoint.Rd | 2 man/dynLong.Rd | 2 man/dynSurv.Rd | 2 man/epileptic.qol.Rd | 6 + man/fitted.mjoint.Rd | 2 man/fixef.mjoint.Rd | 2 man/formula.mjoint.Rd | 2 man/getVarCov.mjoint.Rd | 2 man/heart.valve.Rd | 6 + man/logLik.mjoint.Rd | 2 man/mjoint.Rd | 2 man/mjoint.object.Rd | 6 + man/mjoint_tidiers.Rd |only man/pbc2.Rd | 6 + man/plot.dynLong.Rd | 2 man/plot.dynSurv.Rd | 2 man/plot.mjoint.Rd | 2 man/plot.ranef.mjoint.Rd | 2 man/plotConvergence.Rd | 2 man/ranef.mjoint.Rd | 2 man/reexports.Rd |only man/renal.Rd | 6 + man/residuals.mjoint.Rd | 2 man/sampleData.Rd | 2 man/sigma.mjoint.Rd | 2 man/simData.Rd | 4 - man/summary.mjoint.Rd | 2 man/vcov.mjoint.Rd | 2 tests/testthat/test-#59.R |only tests/testthat/test-tidy.R |only vignettes/joineRML-tidy.Rmd |only 72 files changed, 290 insertions(+), 187 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-01 0.9.2
2017-10-29 0.9.0
2017-08-13 0.6.0
2017-06-05 0.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-13 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-06-15 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-09-09 0.2
2015-08-18 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-13 1.3
2019-12-09 1.1
2018-11-14 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-22 0.3.2
2019-11-09 0.3.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-05 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-31 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-01-29 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-05 0.2.1
2018-01-02 0.2.0
2015-10-21 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-24 2.0.6
2018-08-16 2.0.5
2018-03-15 2.0.4
2018-03-12 2.0.3
2016-11-28 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-20 2.3.6
2020-02-14 2.3.5
2019-12-19 2.3.4
2019-04-12 2.3.3
2019-02-26 2.3.2
2019-02-15 2.3.1
2019-01-09 2.3.0
2018-10-13 2.2.1
2018-09-18 2.2.0
2018-08-23 2.1.9
2018-07-17 2.1.7
2018-07-09 2.1.5
2018-06-11 2.1.1
2018-05-01 1.0.2
2018-04-17 1.0.0
2018-03-21 0.2.4
2018-02-09 0.2.3
2018-01-24 0.2.2
2018-01-05 0.2.0
2017-12-13 0.1.3
2017-11-16 0.1.2
2017-10-03 0.1.1
2017-08-21 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-07-02 1.3
2012-06-19 1.2
2012-03-12 1.1
2011-04-01 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-26 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-05 1.7-3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-04-11 1.2-1
2013-11-22 1.1-8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-16 0.1.4
2019-08-26 0.1.3
2019-04-10 0.1.2
2018-06-29 0.1.1
2017-01-31 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-25 1.2.2
2019-07-08 1.2.0
2018-08-10 1.1.0
2017-09-21 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-30 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-04 0.1.2
Title: Average Bioequivalence with Expanding Limits (ABEL)
Description: Performs comparative bioavailability calculations for Average Bioequivalence with
Expanding Limits (ABEL). Implemented are 'Method A' and 'Method B' and the detection of outliers.
If the design allows, assessment of the empiric Type I Error and iteratively adjusting alpha to
control the consumer risk.
Average Bioequivalence - optionally with a tighter (narrow therapeutic index drugs) or wider
acceptance range (Gulf Cooperation Council, South Africa: Cmax) - is implemented as well.
Author: Helmut Schütz [aut, cre] (<https://orcid.org/0000-0002-1167-7880>),
Michael Tomashevskiy [ctb],
Detlew Labes [ctb] (<https://orcid.org/0000-0003-2169-426X>)
Maintainer: Helmut Schütz <helmut.schuetz@bebac.at>
Diff between replicateBE versions 1.0.13 dated 2020-01-09 and 1.0.14 dated 2020-04-09
DESCRIPTION | 8 - MD5 | 18 ++-- NEWS.md | 20 ++++ README.md | 32 ++++++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/vignette.Rmd | 26 +++--- inst/doc/vignette.html | 197 +++++++++++++++++++++++----------------------- tests/testthat/testthat.R | 4 vignettes/vignette.Rmd | 26 +++--- 10 files changed, 187 insertions(+), 144 deletions(-)
Title: Seamless R and C++ Integration
Description: The 'Rcpp' package provides R functions as well as C++ classes which
offer a seamless integration of R and C++. Many R data types and objects can be
mapped back and forth to C++ equivalents which facilitates both writing of new
code as well as easier integration of third-party libraries. Documentation
about 'Rcpp' is provided by several vignettes included in this package, via the
'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel and
Francois (2011, <doi:10.18637/jss.v040.i08>), the book by Eddelbuettel (2013,
<doi:10.1007/978-1-4614-6868-4>) and the paper by Eddelbuettel and Balamuta (2018,
<doi:10.1080/00031305.2017.1375990>); see 'citation("Rcpp")' for details.
Author: Dirk Eddelbuettel, Romain Francois, JJ Allaire, Kevin Ushey, Qiang Kou,
Nathan Russell, Douglas Bates and John Chambers
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between Rcpp versions 1.0.4 dated 2020-03-17 and 1.0.4.6 dated 2020-04-09
ChangeLog | 76 ++++++++++++++++++++++++++++ DESCRIPTION | 9 +-- MD5 | 41 +++++++-------- R/Attributes.R | 28 ++++++---- README.md | 17 ++---- inst/NEWS.Rd | 33 +++++++++++- inst/doc/Rcpp-FAQ.pdf |binary inst/doc/Rcpp-attributes.pdf |binary inst/doc/Rcpp-extending.pdf |binary inst/doc/Rcpp-introduction.pdf |binary inst/doc/Rcpp-jss-2011.pdf |binary inst/doc/Rcpp-modules.pdf |binary inst/doc/Rcpp-package.pdf |binary inst/doc/Rcpp-quickref.pdf |binary inst/doc/Rcpp-sugar.pdf |binary inst/examples/RcppGibbs/RcppGibbs_Updated.R |only inst/include/Rcpp/Environment.h | 10 +-- inst/include/Rcpp/config.h | 4 - inst/include/Rcpp/exceptions_impl.h | 49 ++++++++++++------ inst/include/Rcpp/lang.h | 54 ++++++++++++++++--- inst/tinytest/test_exceptions.R | 7 ++ tests/tinytest.R | 8 +- 22 files changed, 255 insertions(+), 81 deletions(-)
Title: Rank Aggregation with Partition Mallows Model
Description: Rank aggregation aims to achieve a better ranking list given multiple observations. 'PAMA' implements Partition-Mallows model for rank aggregation. Both Bayesian inference and Maximum likelihood estimation (MLE) are provided. It can handle partial list as well. When covariates information is available, this package can make inference by incorporating the covariate information. More information can be found in the paper "Integrated Partition-Mallows Model and Its Inference for Rank Aggregation". The paper is not yet published.
Author: Wanchuang Zhu [cre, aut]
Maintainer: Wanchuang Zhu <andy.chou.sub@gmail.com>
Diff between PAMA versions 0.1.0 dated 2020-01-13 and 0.1.1 dated 2020-04-09
PAMA-0.1.0/PAMA/R/BARDM.B.R |only PAMA-0.1.0/PAMA/R/BARDM.Cov.R |only PAMA-0.1.0/PAMA/R/BARDM.F.R |only PAMA-0.1.0/PAMA/R/BARDM.PL.R |only PAMA-0.1.0/PAMA/man/BARDM.B.Rd |only PAMA-0.1.0/PAMA/man/BARDM.Cov.Rd |only PAMA-0.1.0/PAMA/man/BARDM.F.Rd |only PAMA-0.1.0/PAMA/man/BARDM.PL.Rd |only PAMA-0.1.1/PAMA/DESCRIPTION | 9 +++++---- PAMA-0.1.1/PAMA/MD5 | 20 ++++++++++---------- PAMA-0.1.1/PAMA/NAMESPACE | 8 ++++---- PAMA-0.1.1/PAMA/R/PAMA.B.R |only PAMA-0.1.1/PAMA/R/PAMA.Cov.R |only PAMA-0.1.1/PAMA/R/PAMA.F.R |only PAMA-0.1.1/PAMA/R/PAMA.PL.R |only PAMA-0.1.1/PAMA/man/PAMA.B.Rd |only PAMA-0.1.1/PAMA/man/PAMA.Cov.Rd |only PAMA-0.1.1/PAMA/man/PAMA.F.Rd |only PAMA-0.1.1/PAMA/man/PAMA.PL.Rd |only 19 files changed, 19 insertions(+), 18 deletions(-)
Title: Conducts Mokken Scale Analysis
Description: Contains functions for performing Mokken
scale analysis on test and questionnaire data (e.g., Sijtsma and Van der Ark, 2017, <doi:10.1111/bmsp.12078>).
It includes an automated item selection algorithm, and various checks of model assumptions.
Author: L. Andries van der Ark [aut, cre],
Letty Koopman [aut],
J. Hendrik Straat [ctb],
Don van den Bergh [ctb]
Maintainer: L. Andries van der Ark <L.A.vanderArk@uva.nl>
Diff between mokken versions 3.0.0 dated 2020-04-03 and 3.0.1 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- inst/doc/GettingStartedWithMokken.pdf |binary man/mokken-package.Rd | 4 ++-- src/geneticAlgorithm.cpp | 10 +++++----- 5 files changed, 15 insertions(+), 15 deletions(-)
Title: Recognize and Handle Data in Formats Used by Swedish Cancer
Centers
Description: Handle data in formats used by cancer centers in Sweden, both from 'INCA'
(<https://rcc.incanet.se>) and by the older register platform 'Rockan'.
All variables are coerced to suitable classes based on their format.
Dates (from various formats such as with missing month or day, with or
without century prefix or with just a week number) are all recognized as
dates and coerced to the ISO 8601 standard (Y-m-d).
Boolean variables (internally stored either as 0/1 or "True"/"False"/blanks
when exported) are coerced to logical.
Variable names ending in '_Beskrivning' and '_Varde' will be character,
and 'PERSNR' will be coerced (if possible) to a valid personal identification
number 'pin' (by the 'sweidnumbr' package).
The package also allow the user to interactively choose if a variable should
be coerced into a potential format even though not all of its values might
conform to the recognized pattern.
It also contain a caching mechanism in order to temporarily store data sets
with its newly decided formats in order to not rerun the identification
process each time.
The package also include a mechanism to aid the documentation process
connected to projects build on data from 'INCA'.
From version 0.7, some general help functions are also included,
as previously found in the 'rccmisc' package.
Author: Erik Bulow [aut, cre] (<https://orcid.org/0000-0002-9973-456X>)
Maintainer: Erik Bulow <erik.bulow@rccvast.se>
Diff between incadata versions 0.8.2 dated 2019-05-05 and 0.9.1 dated 2020-04-09
incadata-0.8.2/incadata/R/dplyr_methods.R |only incadata-0.8.2/incadata/R/misc.R |only incadata-0.8.2/incadata/man/dplyr_methods.Rd |only incadata-0.8.2/incadata/man/next_method.Rd |only incadata-0.8.2/incadata/man/reexports.Rd |only incadata-0.8.2/incadata/tests/testthat/test-dplyr_methods.R |only incadata-0.8.2/incadata/tests/testthat/test-misc.R |only incadata-0.9.1/incadata/DESCRIPTION | 12 incadata-0.9.1/incadata/MD5 | 186 +- incadata-0.9.1/incadata/NAMESPACE | 108 - incadata-0.9.1/incadata/NEWS.md | 49 incadata-0.9.1/incadata/R/as.Dates.R | 232 +- incadata-0.9.1/incadata/R/as.incadata.R | 212 +- incadata-0.9.1/incadata/R/as.incadata.data.frame.R | 91 - incadata-0.9.1/incadata/R/as.incadata.default.R | 122 - incadata-0.9.1/incadata/R/as_numeric.R | 76 incadata-0.9.1/incadata/R/best_match.R | 182 +- incadata-0.9.1/incadata/R/bmatch.R | 74 incadata-0.9.1/incadata/R/clean_text.R | 30 incadata-0.9.1/incadata/R/create_s3_methods.R | 74 incadata-0.9.1/incadata/R/cut.integer.R | 108 - incadata-0.9.1/incadata/R/documents.R | 94 - incadata-0.9.1/incadata/R/exceed_threshold.R | 228 +- incadata-0.9.1/incadata/R/exportr.R | 130 - incadata-0.9.1/incadata/R/find_documents.R | 34 incadata-0.9.1/incadata/R/find_links.R | 66 incadata-0.9.1/incadata/R/find_register.R | 62 incadata-0.9.1/incadata/R/id.R | 76 incadata-0.9.1/incadata/R/is.inca.R | 48 incadata-0.9.1/incadata/R/is.incalogical.R | 94 - incadata-0.9.1/incadata/R/is.wholenumber.R | 32 incadata-0.9.1/incadata/R/is_scalar_in.R | 62 incadata-0.9.1/incadata/R/lownames.R | 74 incadata-0.9.1/incadata/R/lt_leadtime.R | 30 incadata-0.9.1/incadata/R/manual_ex_data.R | 34 incadata-0.9.1/incadata/R/psum.R | 32 incadata-0.9.1/incadata/R/specify_missing.R | 138 - incadata-0.9.1/incadata/R/use_incadata.R | 126 - incadata-0.9.1/incadata/R/width.R | 56 incadata-0.9.1/incadata/README.md | 128 - incadata-0.9.1/incadata/build/vignette.rds |binary incadata-0.9.1/incadata/inst/WORDLIST |only incadata-0.9.1/incadata/inst/doc/incadoc.html | 823 +++++----- incadata-0.9.1/incadata/inst/doc/incadoc.html.asis | 12 incadata-0.9.1/incadata/man/as.Dates.Rd | 130 - incadata-0.9.1/incadata/man/as.incadata.Rd | 245 +- incadata-0.9.1/incadata/man/as_numeric.Rd | 68 incadata-0.9.1/incadata/man/best_match.Rd | 106 - incadata-0.9.1/incadata/man/clean_text.Rd | 46 incadata-0.9.1/incadata/man/create_s3_method.Rd | 82 incadata-0.9.1/incadata/man/cut.integer.Rd | 56 incadata-0.9.1/incadata/man/documents.Rd | 58 incadata-0.9.1/incadata/man/ex_data.Rd | 54 incadata-0.9.1/incadata/man/exceed_threshold.Rd | 122 - incadata-0.9.1/incadata/man/exportr.Rd | 77 incadata-0.9.1/incadata/man/find_documents.Rd | 50 incadata-0.9.1/incadata/man/find_links.Rd | 58 incadata-0.9.1/incadata/man/find_register.Rd | 48 incadata-0.9.1/incadata/man/id.Rd | 45 incadata-0.9.1/incadata/man/is.inca.Rd | 46 incadata-0.9.1/incadata/man/is.incalogical.Rd | 76 incadata-0.9.1/incadata/man/is.scalar_in.Rd | 66 incadata-0.9.1/incadata/man/is.wholenumber.Rd | 50 incadata-0.9.1/incadata/man/lownames.Rd | 44 incadata-0.9.1/incadata/man/lt.Rd | 48 incadata-0.9.1/incadata/man/psum.Rd | 38 incadata-0.9.1/incadata/man/specify_missing.Rd | 64 incadata-0.9.1/incadata/man/use_incadata.Rd | 94 - incadata-0.9.1/incadata/man/width.Rd | 44 incadata-0.9.1/incadata/tests/testthat.R | 8 incadata-0.9.1/incadata/tests/testthat/test-as.Dates.R | 66 incadata-0.9.1/incadata/tests/testthat/test-as.incadata.data.frame.R | 28 incadata-0.9.1/incadata/tests/testthat/test-as.incadata.default.R | 40 incadata-0.9.1/incadata/tests/testthat/test-best_match.R | 70 incadata-0.9.1/incadata/tests/testthat/test-bmatch.R | 24 incadata-0.9.1/incadata/tests/testthat/test-clean_text.R | 14 incadata-0.9.1/incadata/tests/testthat/test-create_s3_methods.R | 36 incadata-0.9.1/incadata/tests/testthat/test-cut.integer.R | 22 incadata-0.9.1/incadata/tests/testthat/test-destring.R | 18 incadata-0.9.1/incadata/tests/testthat/test-exceed_threshold.R | 58 incadata-0.9.1/incadata/tests/testthat/test-exportr.R | 56 incadata-0.9.1/incadata/tests/testthat/test-find_register.R | 74 incadata-0.9.1/incadata/tests/testthat/test-id.R | 51 incadata-0.9.1/incadata/tests/testthat/test-incalogical.R | 28 incadata-0.9.1/incadata/tests/testthat/test-is.inca.R | 14 incadata-0.9.1/incadata/tests/testthat/test-is_scalar_in.R | 26 incadata-0.9.1/incadata/tests/testthat/test-lownames.R | 22 incadata-0.9.1/incadata/tests/testthat/test-lt.R | 12 incadata-0.9.1/incadata/tests/testthat/test-psum.R | 16 incadata-0.9.1/incadata/tests/testthat/test-specify_missing.R | 44 incadata-0.9.1/incadata/tests/testthat/test-use_incadata.R | 48 incadata-0.9.1/incadata/tests/testthat/test-width.R | 18 incadata-0.9.1/incadata/vignettes/incadata.Rmd | 247 +-- incadata-0.9.1/incadata/vignettes/incadoc.Rmd | 347 ++-- incadata-0.9.1/incadata/vignettes/incadoc.Rmd.orig | 196 +- incadata-0.9.1/incadata/vignettes/incadoc.html.asis | 12 incadata-0.9.1/incadata/vignettes/precompile.R | 14 incadata-0.9.1/incadata/vignettes/rccdates.Rmd | 138 - 98 files changed, 3799 insertions(+), 3698 deletions(-)
Title: R Interface for the 'H2O' Scalable Machine Learning Platform
Description: R interface for 'H2O', the scalable open source machine learning
platform that offers parallelized implementations of many supervised and
unsupervised machine learning algorithms such as Generalized Linear
Models, Gradient Boosting Machines (including XGBoost), Random Forests,
Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes, Cox
Proportional Hazards, K-Means, PCA, Word2Vec, as well as a fully automatic
machine learning algorithm (AutoML).
Author: Erin LeDell [aut, cre],
Navdeep Gill [aut],
Spencer Aiello [aut],
Anqi Fu [aut],
Arno Candel [aut],
Cliff Click [aut],
Tom Kraljevic [aut],
Tomas Nykodym [aut],
Patrick Aboyoun [aut],
Michal Kurka [aut],
Michal Malohlava [aut],
Ludi Rehak [ctb],
Eric Eckstrand [ctb],
Brandon Hill [ctb],
Sebastian Vidrio [ctb],
Surekha Jadhawani [ctb],
Amy Wang [ctb],
Raymond Peck [ctb],
Wendy Wong [ctb],
Jan Gorecki [ctb],
Matt Dowle [ctb],
Yuan Tang [ctb],
Lauren DiPerna [ctb],
H2O.ai [cph, fnd]
Maintainer: Erin LeDell <erin@h2o.ai>
Diff between h2o versions 3.28.0.4 dated 2020-02-26 and 3.30.0.1 dated 2020-04-09
h2o-3.28.0.4/h2o/R/deepwater.R |only h2o-3.28.0.4/h2o/man/h2o.deepwater.Rd |only h2o-3.28.0.4/h2o/man/h2o.deepwater.available.Rd |only h2o-3.28.0.4/h2o/man/h2o.getFutureModel.Rd |only h2o-3.30.0.1/h2o/DESCRIPTION | 16 h2o-3.30.0.1/h2o/MD5 | 378 ++-- h2o-3.30.0.1/h2o/NAMESPACE | 11 h2o-3.30.0.1/h2o/R/aggregator.R | 56 h2o-3.30.0.1/h2o/R/automl.R | 13 h2o-3.30.0.1/h2o/R/classes.R | 25 h2o-3.30.0.1/h2o/R/communication.R | 52 h2o-3.30.0.1/h2o/R/connection.R | 8 h2o-3.30.0.1/h2o/R/constants.R | 9 h2o-3.30.0.1/h2o/R/coxph.R | 133 + h2o-3.30.0.1/h2o/R/deeplearning.R | 305 +++ h2o-3.30.0.1/h2o/R/export.R | 11 h2o-3.30.0.1/h2o/R/frame.R | 935 +++++++++- h2o-3.30.0.1/h2o/R/gam.R |only h2o-3.30.0.1/h2o/R/gbm.R | 212 ++ h2o-3.30.0.1/h2o/R/glm.R | 241 ++ h2o-3.30.0.1/h2o/R/glrm.R | 161 + h2o-3.30.0.1/h2o/R/import.R | 35 h2o-3.30.0.1/h2o/R/isolationforest.R | 106 + h2o-3.30.0.1/h2o/R/kmeans.R | 124 + h2o-3.30.0.1/h2o/R/kvstore.R | 84 h2o-3.30.0.1/h2o/R/models.R | 502 ++++- h2o-3.30.0.1/h2o/R/naivebayes.R | 127 + h2o-3.30.0.1/h2o/R/pca.R | 75 h2o-3.30.0.1/h2o/R/psvm.R | 107 + h2o-3.30.0.1/h2o/R/randomforest.R | 207 ++ h2o-3.30.0.1/h2o/R/segment.R |only h2o-3.30.0.1/h2o/R/stackedensemble.R | 180 + h2o-3.30.0.1/h2o/R/svd.R | 78 h2o-3.30.0.1/h2o/R/targetencoder.R | 121 + h2o-3.30.0.1/h2o/R/w2vutils.R | 13 h2o-3.30.0.1/h2o/R/word2vec.R | 85 h2o-3.30.0.1/h2o/R/xgboost.R | 259 ++ h2o-3.30.0.1/h2o/inst/branch.txt | 2 h2o-3.30.0.1/h2o/inst/buildnum.txt | 2 h2o-3.30.0.1/h2o/man/H2OSegmentModels-class.Rd |only h2o-3.30.0.1/h2o/man/H2OSegmentModelsFuture-class.Rd |only h2o-3.30.0.1/h2o/man/apply.Rd | 1 h2o-3.30.0.1/h2o/man/as.character.H2OFrame.Rd | 1 h2o-3.30.0.1/h2o/man/as.data.frame.H2OFrame.Rd | 1 h2o-3.30.0.1/h2o/man/as.data.frame.H2OSegmentModels.Rd |only h2o-3.30.0.1/h2o/man/as.factor.Rd | 1 h2o-3.30.0.1/h2o/man/as.h2o.Rd | 1 h2o-3.30.0.1/h2o/man/as.matrix.H2OFrame.Rd | 1 h2o-3.30.0.1/h2o/man/as.numeric.Rd | 1 h2o-3.30.0.1/h2o/man/as.vector.H2OFrame.Rd | 1 h2o-3.30.0.1/h2o/man/colnames.Rd | 2 h2o-3.30.0.1/h2o/man/dim.H2OFrame.Rd | 2 h2o-3.30.0.1/h2o/man/dimnames.H2OFrame.Rd | 2 h2o-3.30.0.1/h2o/man/dot-h2o.__SEGMENT_MODELS_BUILDERS.Rd |only h2o-3.30.0.1/h2o/man/h2o-package.Rd | 6 h2o-3.30.0.1/h2o/man/h2o.abs.Rd | 1 h2o-3.30.0.1/h2o/man/h2o.aic.Rd | 1 h2o-3.30.0.1/h2o/man/h2o.any.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.arrange.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.ascharacter.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.asfactor.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.asnumeric.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.assign.Rd | 18 h2o-3.30.0.1/h2o/man/h2o.automl.Rd | 15 h2o-3.30.0.1/h2o/man/h2o.betweenss.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.biases.Rd | 17 h2o-3.30.0.1/h2o/man/h2o.bottomN.Rd | 16 h2o-3.30.0.1/h2o/man/h2o.ceiling.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.centers.Rd | 8 h2o-3.30.0.1/h2o/man/h2o.centersSTD.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.centroid_stats.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.cluster_sizes.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.coef.Rd | 21 h2o-3.30.0.1/h2o/man/h2o.coef_norm.Rd | 21 h2o-3.30.0.1/h2o/man/h2o.colnames.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.cor.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.cos.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.cosh.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.coxph.Rd | 26 h2o-3.30.0.1/h2o/man/h2o.cross_validation_fold_assignment.Rd | 18 h2o-3.30.0.1/h2o/man/h2o.cross_validation_holdout_predictions.Rd | 18 h2o-3.30.0.1/h2o/man/h2o.cross_validation_models.Rd | 18 h2o-3.30.0.1/h2o/man/h2o.cross_validation_predictions.Rd | 18 h2o-3.30.0.1/h2o/man/h2o.cummax.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.cummin.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.cumprod.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.cumsum.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.deepfeatures.Rd | 16 h2o-3.30.0.1/h2o/man/h2o.diff.Rd | 17 h2o-3.30.0.1/h2o/man/h2o.dim.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.dimnames.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.distance.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.download_model.Rd | 4 h2o-3.30.0.1/h2o/man/h2o.exp.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.exportHDFS.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.fillna.Rd | 9 h2o-3.30.0.1/h2o/man/h2o.filterNACols.Rd | 13 h2o-3.30.0.1/h2o/man/h2o.findSynonyms.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.find_row_by_threshold.Rd | 20 h2o-3.30.0.1/h2o/man/h2o.find_threshold_by_max_metric.Rd | 20 h2o-3.30.0.1/h2o/man/h2o.floor.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.gam.Rd |only h2o-3.30.0.1/h2o/man/h2o.getFrame.Rd | 27 h2o-3.30.0.1/h2o/man/h2o.getId.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.getModelTree.Rd | 16 h2o-3.30.0.1/h2o/man/h2o.getTypes.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.get_segment_models.Rd |only h2o-3.30.0.1/h2o/man/h2o.glm.Rd | 8 h2o-3.30.0.1/h2o/man/h2o.group_by.Rd | 8 h2o-3.30.0.1/h2o/man/h2o.head.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.hist.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.hit_ratio_table.Rd | 16 h2o-3.30.0.1/h2o/man/h2o.ifelse.Rd | 1 h2o-3.30.0.1/h2o/man/h2o.isax.Rd | 13 h2o-3.30.0.1/h2o/man/h2o.ischaracter.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.isfactor.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.isnumeric.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.isolationForest.Rd | 18 h2o-3.30.0.1/h2o/man/h2o.keyof.Rd | 3 h2o-3.30.0.1/h2o/man/h2o.kfold_column.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.kurtosis.Rd | 1 h2o-3.30.0.1/h2o/man/h2o.levels.Rd | 3 h2o-3.30.0.1/h2o/man/h2o.log.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.log10.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.log1p.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.log2.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.logloss.Rd | 20 h2o-3.30.0.1/h2o/man/h2o.max.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.mean.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.median.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.merge.Rd | 1 h2o-3.30.0.1/h2o/man/h2o.min.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.mktime.Rd | 9 h2o-3.30.0.1/h2o/man/h2o.na_omit.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.nacnt.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.names.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.ncol.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.nlevels.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.no_progress.Rd | 21 h2o-3.30.0.1/h2o/man/h2o.nrow.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.null_deviance.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.null_dof.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.num_iterations.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.pivot.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.print.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.prod.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.psvm.Rd | 15 h2o-3.30.0.1/h2o/man/h2o.randomForest.Rd | 20 h2o-3.30.0.1/h2o/man/h2o.range.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.rank_within_group_by.Rd | 17 h2o-3.30.0.1/h2o/man/h2o.rep_len.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.residual_deviance.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.residual_dof.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.rm.Rd | 9 h2o-3.30.0.1/h2o/man/h2o.round.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.saveModel.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.scoreHistory.Rd | 20 h2o-3.30.0.1/h2o/man/h2o.sd.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.sdev.Rd | 13 h2o-3.30.0.1/h2o/man/h2o.setLevels.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.setTimezone.Rd | 9 h2o-3.30.0.1/h2o/man/h2o.show_progress.Rd | 22 h2o-3.30.0.1/h2o/man/h2o.signif.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.sin.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.skewness.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.sqrt.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.stackedEnsemble.Rd | 55 h2o-3.30.0.1/h2o/man/h2o.str.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.sum.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.tan.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.tanh.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.targetencoder.Rd | 51 h2o-3.30.0.1/h2o/man/h2o.topN.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.tot_withinss.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.totss.Rd | 11 h2o-3.30.0.1/h2o/man/h2o.train_segments.Rd |only h2o-3.30.0.1/h2o/man/h2o.trunc.Rd | 12 h2o-3.30.0.1/h2o/man/h2o.unique.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.upload_model.Rd |only h2o-3.30.0.1/h2o/man/h2o.var.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.varimp.Rd | 13 h2o-3.30.0.1/h2o/man/h2o.week.Rd | 10 h2o-3.30.0.1/h2o/man/h2o.weights.Rd | 16 h2o-3.30.0.1/h2o/man/h2o.which.Rd | 2 h2o-3.30.0.1/h2o/man/h2o.which_max.Rd | 15 h2o-3.30.0.1/h2o/man/h2o.which_min.Rd | 14 h2o-3.30.0.1/h2o/man/h2o.word2vec.Rd | 21 h2o-3.30.0.1/h2o/man/h2o.xgboost.Rd | 26 h2o-3.30.0.1/h2o/man/h2o.year.Rd | 10 h2o-3.30.0.1/h2o/man/is.character.Rd | 12 h2o-3.30.0.1/h2o/man/is.h2o.Rd | 12 h2o-3.30.0.1/h2o/man/names.H2OFrame.Rd | 12 h2o-3.30.0.1/h2o/man/predict.H2OModel.Rd | 22 h2o-3.30.0.1/h2o/man/print.H2OFrame.Rd | 10 h2o-3.30.0.1/h2o/man/print.H2OTable.Rd | 10 h2o-3.30.0.1/h2o/man/range.H2OFrame.Rd | 12 h2o-3.30.0.1/h2o/man/use.package.Rd | 4 197 files changed, 5974 insertions(+), 405 deletions(-)
Title: Test for Finiteness of Moments in a Distribution
Description: The purpose of this package is to tests whether a given
moment of the distribution of a given sample is finite or not. For
heavy-tailed distributions with tail exponent b, only moments of
order smaller than b are finite. Tail exponent and heavy-
tailedness are notoriously difficult to ascertain. But the
finiteness of moments (including fractional moments) can be tested
directly. This package does that following the test suggested by
Trapani (2016) <doi:10.1016/j.jeconom.2015.08.006>.
Author: Torsten Heinrich [aut, cre],
Julian Winkler [aut]
Maintainer: Torsten Heinrich <torsten.heinrich@posteo.net>
Diff between finity versions 0.1.2 dated 2020-04-07 and 0.1.3 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- R/RcppExports.R | 6 ++---- R/example.R |only build/partial.rdb |binary man/compute_absolute_moment.Rd | 3 +-- man/finite_moment_test.Rd | 3 +-- man/finity-package.Rd | 3 +-- src/finite_moment_test.cpp | 8 +++----- 9 files changed, 20 insertions(+), 26 deletions(-)
Title: Decode Coded Variables to Plain Text and the Other Way Around
Description: Main function "decode" is used to decode coded key values to plain
text. Function "code" can be used to code plain text to code if there is a
1:1 relation between the two. The concept relies on 'keyvalue' objects used
for translation. There are several 'keyvalue' objects included in the areas
of geographical regional codes, administrative health care unit codes,
diagnosis codes and more. It is also easy to extend the use by arbitrary
code sets.
Author: Erik Bulow [aut, cre] (<https://orcid.org/0000-0002-9973-456X>)
Maintainer: Erik Bulow <erik.bulow@rccvast.se>
Diff between decoder versions 1.1.13 dated 2019-01-08 and 1.2.1 dated 2020-04-09
decoder-1.1.13/decoder/inst/doc/RC_units.R |only decoder-1.1.13/decoder/inst/doc/RC_units.Rmd |only decoder-1.1.13/decoder/inst/doc/RC_units.html |only decoder-1.1.13/decoder/man/rc.Rd |only decoder-1.1.13/decoder/vignettes/RC_units.Rmd |only decoder-1.2.1/decoder/DESCRIPTION | 13 decoder-1.2.1/decoder/MD5 | 215 decoder-1.2.1/decoder/NAMESPACE | 43 decoder-1.2.1/decoder/NEWS.md |only decoder-1.2.1/decoder/R/as.key.R | 44 decoder-1.2.1/decoder/R/as.keyvalue.R | 72 decoder-1.2.1/decoder/R/as.keyvalue.data.frame.R | 54 decoder-1.2.1/decoder/R/as.keyvalue.default.R | 46 decoder-1.2.1/decoder/R/as.keyvalue.keyvalue.R | 2 decoder-1.2.1/decoder/R/as.keyvalue.list.R | 132 decoder-1.2.1/decoder/R/as.value.R | 46 decoder-1.2.1/decoder/R/code.R | 56 decoder-1.2.1/decoder/R/datasets_keyvalue.R | 987 +- decoder-1.2.1/decoder/R/decode.R | 266 decoder-1.2.1/decoder/R/decode.data.frame.R | 128 decoder-1.2.1/decoder/R/decode.default.R | 92 decoder-1.2.1/decoder/R/extra_functions.R | 91 decoder-1.2.1/decoder/R/internal_format_as_key.R | 160 decoder-1.2.1/decoder/R/internals.R | 28 decoder-1.2.1/decoder/R/is.keyvalue.R | 18 decoder-1.2.1/decoder/R/keyvalue_methods.R | 56 decoder-1.2.1/decoder/R/sysdata.rda |binary decoder-1.2.1/decoder/README.md | 57 decoder-1.2.1/decoder/build/vignette.rds |binary decoder-1.2.1/decoder/data |only decoder-1.2.1/decoder/inst/WORDLIST |only decoder-1.2.1/decoder/inst/doc/decoder.R | 209 decoder-1.2.1/decoder/inst/doc/decoder.Rmd | 498 - decoder-1.2.1/decoder/inst/doc/decoder.html | 1600 ++-- decoder-1.2.1/decoder/inst/doc/sjukhus.R | 111 decoder-1.2.1/decoder/inst/doc/sjukhus.Rmd | 245 decoder-1.2.1/decoder/inst/doc/sjukhus.html | 3538 ++-------- decoder-1.2.1/decoder/man/as.keyvalue.list.Rd | 104 decoder-1.2.1/decoder/man/atc.Rd |only decoder-1.2.1/decoder/man/decode.Rd | 333 decoder-1.2.1/decoder/man/distrikt.Rd | 81 decoder-1.2.1/decoder/man/extra_functions.Rd | 58 decoder-1.2.1/decoder/man/figo.Rd | 78 decoder-1.2.1/decoder/man/forsamling.Rd | 91 decoder-1.2.1/decoder/man/hemort.Rd | 86 decoder-1.2.1/decoder/man/hsn.Rd | 108 decoder-1.2.1/decoder/man/icd10.Rd | 86 decoder-1.2.1/decoder/man/icd7.Rd | 78 decoder-1.2.1/decoder/man/icd7_grov.Rd | 80 decoder-1.2.1/decoder/man/icd9.Rd | 78 decoder-1.2.1/decoder/man/icd9cmd.Rd |only decoder-1.2.1/decoder/man/icdo.Rd | 78 decoder-1.2.1/decoder/man/icdo3.Rd | 78 decoder-1.2.1/decoder/man/icdo3_grov.Rd | 82 decoder-1.2.1/decoder/man/key_and_value.Rd | 62 decoder-1.2.1/decoder/man/keyvalue.Rd | 113 decoder-1.2.1/decoder/man/klinik.Rd | 83 decoder-1.2.1/decoder/man/kommun.Rd | 86 decoder-1.2.1/decoder/man/kon.Rd | 78 decoder-1.2.1/decoder/man/kva.Rd |only decoder-1.2.1/decoder/man/lan.Rd | 80 decoder-1.2.1/decoder/man/m_rtr.Rd | 78 decoder-1.2.1/decoder/man/n_rtr.Rd | 78 decoder-1.2.1/decoder/man/pad.Rd | 76 decoder-1.2.1/decoder/man/pad0.Rd | 38 decoder-1.2.1/decoder/man/patologiavdelning.Rd | 94 decoder-1.2.1/decoder/man/region.Rd | 76 decoder-1.2.1/decoder/man/rockan.Rd |only decoder-1.2.1/decoder/man/sida.Rd | 78 decoder-1.2.1/decoder/man/sjukhus.Rd | 105 decoder-1.2.1/decoder/man/sjukhus_inca.Rd | 76 decoder-1.2.1/decoder/man/sjukhus_par.Rd | 79 decoder-1.2.1/decoder/man/sjukvardsomrade.Rd | 132 decoder-1.2.1/decoder/man/snomed.Rd | 80 decoder-1.2.1/decoder/man/snomed3.Rd | 78 decoder-1.2.1/decoder/man/summary.keyvalue.Rd | 48 decoder-1.2.1/decoder/man/t_rtr.Rd | 78 decoder-1.2.1/decoder/man/tnmgrund.Rd | 78 decoder-1.2.1/decoder/tests/testthat.R | 8 decoder-1.2.1/decoder/tests/testthat/test-as.key.R | 28 decoder-1.2.1/decoder/tests/testthat/test-as.keyvalue.data.frame.R | 26 decoder-1.2.1/decoder/tests/testthat/test-as.keyvalue.default.R | 20 decoder-1.2.1/decoder/tests/testthat/test-as.keyvalue.list.R | 64 decoder-1.2.1/decoder/tests/testthat/test-as.value.R | 20 decoder-1.2.1/decoder/tests/testthat/test-code.R | 24 decoder-1.2.1/decoder/tests/testthat/test-datasets_keyvalue.R | 76 decoder-1.2.1/decoder/tests/testthat/test-decode.R | 70 decoder-1.2.1/decoder/tests/testthat/test-internal_extra_functions_sjukvardsomrade.R | 58 decoder-1.2.1/decoder/tests/testthat/test-internal_format_as_key.R | 36 decoder-1.2.1/decoder/tests/testthat/test-is.keyvalue.R | 14 decoder-1.2.1/decoder/tests/testthat/test-keyvalue_methods.R | 20 decoder-1.2.1/decoder/tests/testthat/test-pad0.R | 16 decoder-1.2.1/decoder/vignettes/decoder.Rmd | 498 - decoder-1.2.1/decoder/vignettes/sjukhus.Rmd | 245 94 files changed, 5944 insertions(+), 7359 deletions(-)
Title: Methods for Correlation Analysis
Description: Lightweight package for computing different kinds of correlations, such as partial correlations, Bayesian correlations, multilevel correlations, polychoric correlations, biweight correlations, distance correlations and more. Relies on the easystats ecosystem (Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>).
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [ctb] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between correlation versions 0.1.0 dated 2020-03-16 and 0.2.0 dated 2020-04-09
DESCRIPTION | 16 +- MD5 | 64 +++++----- NAMESPACE | 3 NEWS.md |only R/cor_test.R | 102 ++++++++-------- R/cor_test_bayes.R | 2 R/cor_test_biserial.R |only R/cor_test_distance.R | 12 + R/cor_test_freq.R | 6 R/cor_test_tetrachoric.R | 13 -- R/cor_to_pcor.R | 40 ++++-- R/correlation.R | 44 ++++--- R/mahalanobis.R | 4 R/methods.easycorrelation.R | 23 +++ R/print.easycormatrix.R | 8 + R/simulate_simpson.R | 18 +- R/utils_bootstrapping.R | 3 R/utils_find_correlationtype.R |only R/z_fisher.R | 2 README.md | 180 +++++++++++++++-------------- inst |only man/cor_test.Rd | 213 ++++++++++++++++++----------------- man/cor_to_p.Rd | 2 man/correlation.Rd | 207 +++++++++++++++++----------------- man/distance_mahalanobis.Rd | 5 man/figures/unnamed-chunk-11-1.png |binary man/figures/unnamed-chunk-12-1.png |binary man/figures/unnamed-chunk-7-1.png |binary man/is.cor.Rd | 32 ++--- man/isSquare.Rd | 32 ++--- man/simulate_simpson.Rd | 65 +++++----- tests/testthat/test-cor_multilevel.R | 50 ++++---- tests/testthat/test-cor_test.R | 62 ++++++---- tests/testthat/test-cor_to_pcor.R | 96 ++++++++------- tests/testthat/test-correlation.R | 156 +++++++++++++------------ 35 files changed, 794 insertions(+), 666 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-13 0.2.0
2019-06-09 0.1.0.1
2017-09-25 0.1.0
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2013-05-09 1.0
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2019-09-09 2.2-1
2018-04-24 2.1-1
2017-08-24 2.0-1
2017-06-18 1.1-0
2017-03-14 1.0-0
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2016-07-26 1.2
2016-03-11 1.1
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2013-07-18 4.2-0
2013-06-04 4.1-0
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2019-12-14 0.2.0
2019-10-06 0.1.0
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2019-10-30 1.0.1
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2019-04-09 2.0.2
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2018-06-12 2.0.0
2016-04-27 1.1.0
2016-01-15 1.0.1
2015-10-20 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-05 0.0.2.8
2019-08-02 0.0.2.7
2019-01-22 0.0.2.6
2018-10-05 0.0.2.5
2018-09-12 0.0.2.4
2018-08-28 0.0.2.3
2018-06-28 0.0.2.2
2018-06-27 0.0.2.1
2018-06-15 0.0.1.9
2018-06-15 0.0.2.0
2018-05-31 0.0.0.9
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-06 2.3.1
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
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2019-02-15 1.8
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2017-05-23 1.6
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2016-07-14 1.5.0
2016-01-06 1.0.1
2015-12-08 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-17 2.0.2
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2018-06-15 1.3.4
2018-05-06 1.3.2
2017-08-23 1.3.0
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2019-12-04 1.2.6
2019-11-17 1.2.5
2019-04-24 1.2.4
2019-01-02 1.2.3
2018-12-14 1.2.2
2018-12-11 1.2.1
Title: Parse XML
Description: Work with XML files using a simple, consistent
interface. Built on top of the 'libxml2' C library.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Jeroen Ooms [aut],
RStudio [cph],
R Foundation [ctb] (Copy of R-project homepage cached as example)
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between xml2 versions 1.3.0 dated 2020-04-01 and 1.3.1 dated 2020-04-09
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 4 ++++ build/xml2.pdf |binary inst/doc/modification.html | 12 ++++++------ src/xml2_doc.cpp | 4 ++-- tests/testthat/test-read-xml.R | 12 ++++++++++++ 7 files changed, 34 insertions(+), 18 deletions(-)
Title: Automate Package and Project Setup
Description: Automate package and project setup tasks that are otherwise
performed manually. This includes setting up unit testing, test
coverage, continuous integration, Git, 'GitHub', licenses, 'Rcpp', 'RStudio'
projects, and more.
Author: Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>),
RStudio [cph, fnd]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between usethis versions 1.5.1 dated 2019-07-04 and 1.6.0 dated 2020-04-09
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Title: Time-Based Rolling Functions
Description: Provides rolling statistical functions based
on date and time windows instead of n-lagged observations.
Author: Michael Schramm [aut, cre] (<https://orcid.org/0000-0003-1876-6592>),
Frank Harrell [ctb]
Maintainer: Michael Schramm <michael.schramm@ag.tamu.edu>
Diff between tbrf versions 0.1.4 dated 2020-03-25 and 0.1.5 dated 2020-04-09
DESCRIPTION | 6 +++--- MD5 | 15 ++++++++------- NAMESPACE | 2 ++ NEWS.md | 6 ++++++ R/tbr_gmean.R | 6 ++++-- R/utils.R | 25 ++++++++++++++++--------- inst/doc/intro_to_tbrf.html | 10 ++++++---- man/list_NA.Rd |only man/open_window.Rd | 2 +- 9 files changed, 46 insertions(+), 26 deletions(-)
Title: Stratification and Matching for Large Observational Data Sets
Description: A pilot matching design to automatically
stratify and match large datasets. The manual_stratify() function allows
users to manually stratify a dataset based on categorical variables of
interest, while the auto_stratify() function does automatically by
allocating a held-aside (pilot) data set, fitting a prognostic score
(see Hansen (2008) <doi:10.1093/biomet/asn004>) on the pilot set, and stratifying the data set based
on prognostic score quantiles. The strata_match() function then does optimal
matching of the data set in parallel within strata.
Author: Rachael C. Aikens [aut, cre],
Joseph Rigdon [aut],
Justin Lee [aut],
Michael Baiocchi [aut],
Jonathan Chen [aut]
Maintainer: Rachael C. Aikens <rockyaikens@gmail.com>
Diff between stratamatch versions 0.1.4 dated 2020-02-18 and 0.1.5 dated 2020-04-09
DESCRIPTION | 8 MD5 | 11 R/make_issue_table.R | 2 inst/CITATION |only inst/doc/Intro_to_stratamatch.html | 400 +++++++++++++++++++++++++--------- tests/testthat/test-auto_stratify.R | 1 tests/testthat/test-manual_stratify.R | 34 +- 7 files changed, 331 insertions(+), 125 deletions(-)
Title: Estimating Hierarchical Linear Models for Single-Case Designs
Description: Provides a set of tools for estimating hierarchical linear
models and effect sizes based on data from single-case designs.
Functions are provided for calculating standardized mean difference effect sizes that
are directly comparable to standardized mean differences estimated from between-subjects randomized experiments,
as described in Hedges, Pustejovsky, and Shadish (2012) <DOI:10.1002/jrsm.1052>;
Hedges, Pustejovsky, and Shadish (2013) <DOI:10.1002/jrsm.1086>; and
Pustejovsky, Hedges, and Shadish (2014) <DOI:10.3102/1076998614547577>.
Includes an interactive web interface.
Author: James Pustejovsky [aut, cre],
Bethany Hamilton [aut]
Maintainer: James Pustejovsky <jepusto@gmail.com>
Diff between scdhlm versions 0.3.1 dated 2016-12-20 and 0.3.2 dated 2020-04-09
DESCRIPTION | 17 MD5 | 131 +- NEWS | 15 R/HPS-ES-functions.R | 105 + R/scdhlm-package.r | 174 +++ R/simulation-functions.R | 2 build/vignette.rds |binary data/AlberMorgan.RData |only data/Anglesea.RData |binary data/BartonArwood.RData |binary data/Bryant2018.RData |only data/Carson.RData |binary data/Lambert.RData |binary data/Laski.RData |binary data/Musser.RData |binary data/Rodriguez.RData |binary data/Romaniuk.RData |binary data/Ruiz.RData |only data/Saddler.RData |binary data/Salazar.RData |only data/Schutte.RData |binary data/Thiemann2001.RData |only data/Thiemann2004.RData |only data/Thorne.RData |binary inst/doc/Estimating-effect-sizes.R | 33 inst/doc/Estimating-effect-sizes.Rmd | 43 inst/doc/Estimating-effect-sizes.html | 550 +++++++--- inst/shiny-examples/scdhlm/helper-functions.R | 4 inst/shiny-examples/scdhlm/lme-fit.R | 15 inst/shiny-examples/scdhlm/mappings.R | 6 inst/shiny-examples/scdhlm/markdown/example-data.md | 8 inst/shiny-examples/scdhlm/markdown/scdhlm.md | 2 inst/shiny-examples/scdhlm/rsconnect/shinyapps.io/jepusto/scdhlm.dcf | 8 inst/shiny-examples/scdhlm/server.R | 65 + inst/shiny-examples/scdhlm/ui.R | 11 man/AlberMorgan.Rd |only man/Anglesea.Rd | 5 man/BartonArwood.Rd | 5 man/Bryant2018.Rd |only man/CI_g.Rd | 1 man/Carson.Rd | 7 man/Info_Expected_lmeAR1.Rd | 1 man/Lambert.Rd | 5 man/Laski.Rd | 5 man/MB1results.Rd | 5 man/MB1time.Rd | 5 man/MB2results.Rd | 5 man/MB2time.Rd | 5 man/MB4results.Rd | 5 man/MB4time.Rd | 5 man/Musser.Rd | 5 man/Rodriguez.Rd | 5 man/Romaniuk.Rd | 5 man/Ruiz.Rd |only man/Saddler.Rd | 5 man/Salazar.Rd |only man/Schutte.Rd | 5 man/Thiemann2001.Rd |only man/Thiemann2004.Rd |only man/Thorne.Rd | 9 man/compare_RML_HPS.Rd | 1 man/design_matrix.Rd | 1 man/effect_size_ABk.Rd | 30 man/effect_size_MB.Rd | 27 man/g_REML.Rd | 14 man/scdhlm.Rd | 24 man/shine_scd.Rd | 1 man/simulate.g_REML.Rd | 6 man/simulate_MB2.Rd | 15 man/simulate_MB4.Rd | 17 tests/testthat/test_HPS_examples.R | 8 tests/testthat/test_functions_same.R |only vignettes/Estimating-effect-sizes.Rmd | 43 73 files changed, 1022 insertions(+), 447 deletions(-)
Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to
load live data from a 'LabKey' Server, <http://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a 'LabKey' Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 2.3.4 dated 2020-02-11 and 2.4.0 dated 2020-04-09
DESCRIPTION | 8 +++--- MD5 | 44 ++++++++++++++++++--------------- NAMESPACE | 15 +++++++++-- NEWS | 9 ++++++ R/labkey.domain.R | 32 ++++++++++++++++++++++-- R/labkey.experiment.R | 11 ++++++-- R/labkey.getFolders.R | 21 +++++++++------ R/labkey.saveBatch.R | 10 +++---- R/labkey.security.R |only man/Rlabkey-package.Rd | 4 +-- man/labkey.domain.create.Rd | 1 man/labkey.domain.createAndLoad.Rd | 1 man/labkey.domain.createDesign.Rd | 8 ++++-- man/labkey.domain.createIndices.Rd |only man/labkey.domain.drop.Rd | 1 man/labkey.domain.get.Rd | 1 man/labkey.domain.inferFields.Rd | 1 man/labkey.domain.save.Rd | 1 man/labkey.experiment.createRun.Rd | 34 ++++++++++++++++++++++++- man/labkey.experiment.saveBatch.Rd | 40 ++++++++++++++++++++++++++++-- man/labkey.getFolders.Rd | 13 ++++++--- man/labkey.security.createContainer.Rd |only man/labkey.security.deleteContainer.Rd |only man/labkey.security.getContainers.Rd |only man/labkey.security.moveContainer.Rd |only man/saveResults.Rd | 4 ++- 26 files changed, 203 insertions(+), 56 deletions(-)
Title: A Common API to Modeling and Analysis Functions
Description: A common interface is provided to allow users to specify a model without having to remember the different argument names across different functions or computational engines (e.g. 'R', 'Spark', 'Stan', etc).
Author: Max Kuhn [aut, cre],
Davis Vaughan [aut],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between parsnip versions 0.0.5 dated 2020-01-07 and 0.1.0 dated 2020-04-09
DESCRIPTION | 8 - MD5 | 147 ++++++++++++++-------------- NAMESPACE | 17 +++ NEWS.md | 8 + R/aaa.R | 37 ++++++- R/aaa_models.R | 127 +++++++++++------------- R/aaa_multi_predict.R | 34 +++--- R/adds.R | 2 R/arguments.R | 21 ++-- R/boost_tree.R | 38 ++++--- R/convert_data.R | 43 ++++---- R/decision_tree.R | 18 ++- R/descriptors.R | 2 R/engines.R | 26 ++-- R/fit.R | 64 ++++++------ R/fit_helpers.R | 21 +--- R/linear_reg.R | 49 ++++++--- R/linear_reg_data.R | 4 R/logistic_reg.R | 31 +++-- R/logistic_reg_data.R | 2 R/mars.R | 21 ++-- R/misc.R | 28 +++-- R/mlp.R | 24 ++-- R/multinom_reg.R | 26 +++- R/nearest_neighbor.R | 15 ++ R/nearest_neighbor_data.R | 21 ++-- R/nullmodel.R | 13 +- R/predict.R | 48 +++++---- R/predict_class.R | 37 ++++--- R/predict_classprob.R | 21 +--- R/predict_interval.R | 30 ++--- R/predict_numeric.R | 31 ++--- R/predict_quantile.R | 23 ++-- R/predict_raw.R | 13 +- R/rand_forest.R | 19 ++- R/rand_forest_data.R | 21 ++-- R/surv_reg.R | 9 + R/svm_poly.R | 9 + R/svm_rbf.R | 7 + R/translate.R | 7 - R/zzz.R | 2 build/parsnip.pdf |binary inst/doc/parsnip_Intro.html | 38 ++----- man/boost_tree.Rd | 22 +++- man/convert_args.Rd |only man/convert_stan_interval.Rd |only man/decision_tree.Rd | 9 + man/descriptors.Rd | 2 man/eval_args.Rd |only man/figures |only man/has_multi_predict.Rd | 2 man/linear_reg.Rd | 14 ++ man/logistic_reg.Rd | 14 ++ man/mars.Rd | 11 +- man/mlp.Rd | 13 ++ man/multi_predict.Rd | 2 man/multinom_reg.Rd | 12 +- man/nearest_neighbor.Rd | 11 +- man/null_model.Rd | 2 man/other_predict.Rd |only man/predict.model_fit.Rd | 5 man/rand_forest.Rd | 11 +- man/set_new_model.Rd | 4 man/surv_reg.Rd | 9 + man/svm_poly.Rd | 12 ++ man/svm_rbf.Rd | 9 + man/translate.Rd | 5 man/xgb_train.Rd | 2 tests/testthat/helper-objects.R | 2 tests/testthat/test_linear_reg.R | 6 - tests/testthat/test_logistic_reg.R | 6 - tests/testthat/test_nearest_neighbor_kknn.R | 15 +- vignettes/articles/Classification.Rmd | 2 vignettes/articles/Models.Rmd | 7 - vignettes/articles/Regression.Rmd | 2 vignettes/articles/Scratch.Rmd | 12 +- vignettes/articles/Submodels.Rmd | 7 - 77 files changed, 844 insertions(+), 548 deletions(-)
Title: Multivariate Survival Trees
Description: Constructs trees for multivariate survival data using marginal and frailty models.
Grows, prunes, and selects the best-sized tree.
Author: Xiaogang Su [aut],
Peter Calhoun [aut, cre],
Juanjuan Fan [aut]
Maintainer: Peter Calhoun <calhoun.peter@gmail.com>
Diff between MST versions 2.1 dated 2018-02-16 and 2.2 dated 2020-04-09
MST-2.1/MST/data/datalist |only MST-2.2/MST/DESCRIPTION | 8 ++++---- MST-2.2/MST/MD5 | 25 ++++++++++++------------- MST-2.2/MST/R/MST.R | 3 +-- MST-2.2/MST/R/bootstrap.size.R | 2 +- MST-2.2/MST/R/listIntoTree.R | 2 +- MST-2.2/MST/R/partition.MST.R | 6 +++--- MST-2.2/MST/R/rmultime.R | 2 +- MST-2.2/MST/R/splitting.stat.MST1.R | 5 ++++- MST-2.2/MST/R/splitting.stat.MST3.R | 5 ++++- MST-2.2/MST/R/splitting.stat.MST4.R | 5 ++++- MST-2.2/MST/data/Teeth.rda |binary MST-2.2/MST/inst/NEWS.Rd | 8 ++++++++ MST-2.2/MST/man/MST-package.Rd | 4 ++-- 14 files changed, 45 insertions(+), 30 deletions(-)
Title: Tuning of the Latent Dirichlet Allocation Models Parameters
Description: For this first version only metrics to estimate the best fitting
number of topics are implemented.
Author: Murzintcev Nikita [aut],
Nathan Chaney [ctb, cre] (<https://orcid.org/0000-0001-8985-2514>)
Maintainer: Nathan Chaney <nathan@nathanchaney.com>
Diff between ldatuning versions 1.0.0 dated 2019-05-12 and 1.0.1 dated 2020-04-09
DESCRIPTION | 27 +++++++++------ MD5 | 26 +++++++++----- NAMESPACE | 4 ++ NEWS.md |only R/ldatuning.R | 3 + R/main.R | 85 +++++++++++++++++++++++++++++++++++++++--------- build/vignette.rds |binary demo |only inst/doc/topics.R | 18 +++++----- inst/doc/topics.html | 43 +++++++++++++----------- man/Arun2010.Rd |only man/CaoJuan2009.Rd |only man/Deveaud2014.Rd | 9 +++-- man/FindTopicsNumber.Rd | 17 +++++++-- man/Griffiths2004.Rd |only man/ldatuning.Rd | 5 +- 16 files changed, 166 insertions(+), 71 deletions(-)