Title: Tools to Quickly and Neatly Summarize Data
Description: Data frame summaries, cross-tabulations,
weight-enabled frequency tables and common descriptive
(univariate) statistics in concise tables available in a
variety of formats (plain ASCII, Markdown and HTML). A good
point-of-entry for exploring data, both for experienced
and new R users.
Author: Dominic Comtois [aut, cre]
Maintainer: Dominic Comtois <dominic.comtois@gmail.com>
Diff between summarytools versions 0.9.6 dated 2020-03-02 and 0.9.8 dated 2020-12-10
DESCRIPTION | 12 MD5 | 81 - NAMESPACE | 4 NEWS.md | 66 + R/args_validation.R | 98 +- R/ctable.R | 67 + R/descr.R | 96 +- R/dfSummary.R | 903 +++++++++++-------- R/examens.R | 2 R/freq.R | 46 - R/helpers.R | 89 - R/label.R | 2 R/parse_args.R | 33 R/print.summarytools.R | 1456 ++++++++++++++++++-------------- R/st_options.R | 14 R/sysdata.rda |binary R/tb.R | 87 - R/view.R | 29 R/what.is.R | 105 +- R/zzz.R | 10 build/vignette.rds |binary inst/doc/Introduction.R | 10 inst/doc/Introduction.Rmd | 189 ++-- inst/doc/Introduction.html | 714 ++++++++++++--- inst/doc/Recommendations-rmarkdown.html | 443 +++++++-- inst/includes/favicon.html |only man/descr.Rd | 5 man/dfSummary.Rd | 14 man/examens.Rd | 6 man/exams.Rd | 4 man/freq.Rd | 6 man/parse_args.Rd | 2 man/print.list.Rd | 2 man/print.stby.Rd | 2 man/print.summarytools.Rd | 16 man/st_options.Rd | 14 man/tabagisme.Rd | 4 man/tb.Rd | 8 man/tobacco.Rd | 4 man/view.Rd | 5 man/what.is.Rd | 12 vignettes/Introduction.Rmd | 189 ++-- 42 files changed, 3080 insertions(+), 1769 deletions(-)
Title: Privacy-Preserving Distributed Algorithms
Description: A collection of privacy-preserving distributed algorithms for conducting multi-site data analyses. The regression analyses can be linear regression for continuous outcome, logistic regression for binary outcome, Cox proportional hazard regression for time-to event outcome, or Poisson regression for count outcome. The PDA algorithm runs on a lead site and only requires summary statistics from collaborating sites, with one or few iterations. For more information, please visit our software websites: <https://github.com/Penncil/pda>, and <https://pdamethods.org/>.
Author: Chongliang Luo [aut, cre],
Rui Duan [aut],
Mackenzie Edmondson [aut],
Jiayi Tong [aut],
Yong Chen [aut],
Penn Computing Inference Learning (PennCIL) lab [cph]
Maintainer: Chongliang Luo <luocl3009@gmail.com>
Diff between pda versions 1.0 dated 2020-11-23 and 1.0-2 dated 2020-12-10
pda-1.0-2/pda/DESCRIPTION | 10 - pda-1.0-2/pda/MD5 | 18 + pda-1.0-2/pda/R/ODAH.R |only pda-1.0-2/pda/R/ODAP.R | 325 ++--------------------------------- pda-1.0-2/pda/R/pda.R | 28 ++- pda-1.0-2/pda/demo/00Index | 2 pda-1.0-2/pda/demo/ODAH.R |only pda-1.0-2/pda/man/ODAH.derive.Rd |only pda-1.0-2/pda/man/ODAH.estimate.Rd |only pda-1.0-2/pda/man/ODAH.initialize.Rd |only pda-1.0-2/pda/man/ODAP.derive.Rd | 7 pda-1.0-2/pda/man/ODAP.estimate.Rd | 2 pda-1.0/pda/demo/ODAP.R |only 13 files changed, 62 insertions(+), 330 deletions(-)
Title: Improved Text Rendering Support for 'Grid' Graphics
Description: Provides support for rendering of formatted text using 'grid' graphics. Text can be
formatted via a minimal subset of 'Markdown', 'HTML', and inline 'CSS' directives, and it can be
rendered both with and without word wrap.
Author: Claus O. Wilke [aut, cre] (<https://orcid.org/0000-0002-7470-9261>)
Maintainer: Claus O. Wilke <wilke@austin.utexas.edu>
Diff between gridtext versions 0.1.2 dated 2020-12-01 and 0.1.4 dated 2020-12-10
DESCRIPTION | 10 +++++----- MD5 | 13 +++++++------ NEWS.md | 8 ++++++++ tests/testthat/Rplots.pdf |binary tests/testthat/helper-vdiffr.R |only tests/testthat/test-grid-renderer.R | 6 +++--- tests/testthat/test-richtext-grob.R | 8 ++++---- tests/testthat/test-textbox-grob.R | 12 ++++++------ 8 files changed, 33 insertions(+), 24 deletions(-)
Title: Sequential Parameter Optimization Toolbox
Description: A set of tools for model-based optimization and tuning of
algorithms. It includes surrogate models, optimizers, and design of experiment
approaches. The main interface is spot, which uses sequentially updated
surrogate models for the purpose of efficient optimization. The main goal is
to ease the burden of objective function evaluations, when a single evaluation
requires a significant amount of resources.
Author: Thomas Bartz-Beielstein [aut, cre]
(<https://orcid.org/0000-0002-5938-5158>),
Joerg Stork [aut] (0000-0002-7471-3498),
Martin Zaefferer [aut] (<https://orcid.org/0000-0003-2372-2092>),
Margarita Rebolledo [ctb],
Christian Lasarczyk [ctb],
Frederik Rehbach [aut] (<https://orcid.org/0000-0003-0922-8629>)
Maintainer: Thomas Bartz-Beielstein <tbb@bartzundbartz.de>
Diff between SPOT versions 2.1.8 dated 2020-12-03 and 2.1.10 dated 2020-12-10
DESCRIPTION | 27 ++++----- MD5 | 65 +++++++++++----------- NEWS.md | 4 + R/buildCVModel.R | 6 -- R/buildKrigingDACE.R | 99 ++++++++++++++++------------------ R/buildKrigingForrester.R | 31 ++++------ R/buildTree.R | 19 +++--- R/duplicateHandling.R | 3 - R/funSring.R | 10 +-- R/initialInputCheck.R | 34 +++++------ R/objectiveFunctionEvaluation.R | 1 R/optimES.R | 17 +---- R/optimLHD.R | 105 +++++++++++++++++-------------------- R/repair.R | 39 ++++++------- R/selectAll.R | 9 +-- R/selectN.R | 1 R/simulateKriging.R | 43 +++++++-------- R/spot.R | 33 ++++++----- R/spotTools.R | 3 - R/sringRes3.R | 3 - R/wrapper.R | 11 +-- inst/doc/SPOTVignetteNutshell.html | 68 ++++------------------- man/buildTreeModel.Rd | 2 man/checkArrival.Rd | 2 man/getCorrelationMatrix.Rd | 3 - man/init_ring.Rd | 4 - man/repairNonNumeric.Rd | 1 man/selectAll.Rd | 5 + man/simulateFunction.Rd | 3 - man/simulationSpectral.Rd | 5 + man/spotControl.Rd | 6 +- man/spotFillControlList.Rd | 2 man/spotLoop.Rd | 3 - tests/testthat/test.direct.R |only 34 files changed, 304 insertions(+), 363 deletions(-)
Title: Statistical Methods for Phenology Analysis in Temperate Fruit
Trees
Description: The phenology of plants (i.e. the timing of their annual life
phases) depends on climatic cues. For temperate trees and many other plants,
spring phases, such as leaf emergence and flowering, have been found to result
from the effects of both cool (chilling) conditions and heat. Fruit tree
scientists (pomologists) have developed some metrics to quantify chilling
and heat (e.g. see Luedeling (2012) <doi.org/10.1016/j.scienta.2012.07.011>).
'chillR' contains functions for processing temperature records into
chilling (Chilling Hours, Utah Chill Units and Chill Portions) and heat units
(Growing Degree Hours). Regarding chilling metrics, Chill Portions are often
considered the most promising, but they are difficult to calculate. This package
makes it easy. 'chillR' also contains procedures for conducting a PLS analysis
relating phenological dates (e.g. bloom dates) to either mean temperatures or
mean chill and heat accumulation rates, based on long-term weather and phenology
records (Luedeling and Gassner (2012) <doi.org/10.1016/j.agrformet.2011.10.020>).
As of version 0.65, it also includes functions for generating weather
scenarios with a weather generator, for conducting climate change analyses
for temperature-based climatic metrics and for plotting results from such
analyses. Since version 0.70, 'chillR' contains a function for interpolating
hourly temperature records.
Author: Eike Luedeling [aut, cre]
Maintainer: Eike Luedeling <eike@eikeluedeling.com>
Diff between chillR versions 0.70.24 dated 2020-05-03 and 0.72 dated 2020-12-10
DESCRIPTION | 29 MD5 | 178 ++-- NAMESPACE | 31 R/RMSEP_RPD.R | 14 R/RcppExports.R |only R/UnifiedModel.R |only R/add_date.R |only R/bootstrap_phenologyFit.R |only R/chillR-package.R | 10 R/genSeason.R |only R/getClimateWizardData.R | 19 R/getClimateWizard_scenarios.R | 7 R/handle_gsod.R | 2 R/make_hourly_temps.R | 188 ++--- R/phenologyFitter.R |only R/plot_pheno_results.R | 166 ++-- R/temp_models.R | 236 ++++-- build/vignette.rds |binary data/KA_bloom.rda |binary inst/doc/PhenoFlex.R |only inst/doc/PhenoFlex.Rmd |only inst/doc/PhenoFlex.html |only inst/doc/hourly_temperatures.Rmd | 2 inst/doc/hourly_temperatures.html | 898 ++++++++++++------------ man/ChuineCF.Rd |only man/ChuineFstar.Rd |only man/DynModel_driver.Rd |only man/Dynamic_Model.Rd | 36 man/KA_bloom.Rd | 6 man/KA_weather.Rd | 6 man/PLS_chill_force.Rd | 20 man/PLS_pheno.Rd | 16 man/PhenoFlex.Rd |only man/PhenoFlex_GAUSSwrapper.Rd |only man/PhenoFlex_GDHwrapper.Rd |only man/PhenoFlex_fixedDynModelGAUSSwrapper.Rd |only man/PhenoFlex_fixedDynModelwrapper.Rd |only man/StepChill_Wrapper.Rd |only man/UniChill_Wrapper.Rd |only man/UniForce_Wrapper.Rd |only man/UnifiedModel_Wrapper.Rd |only man/Winters_hours_gaps.Rd | 6 man/add_date.Rd |only man/bloom_prediction.Rd | 11 man/bloom_prediction2.Rd | 13 man/bloom_prediction3.Rd | 13 man/bootstrap.phenologyFit.Rd |only man/c.bootstrap_phenologyFit.Rd |only man/california_stations.Rd | 6 man/check_temperature_record.Rd | 8 man/check_temperature_scenario.Rd | 13 man/chifull.Rd |only man/chillR-package.Rd | 14 man/chilling.Rd | 9 man/daily_chill.Rd | 10 man/extract_temperatures_from_grids.Rd | 13 man/figures |only man/filter_temperatures.Rd | 14 man/fix_weather.Rd | 11 man/genSeason.Rd |only man/genSeasonList.Rd |only man/getClimateWizardData.Rd | 16 man/getClimateWizard_scenarios.Rd | 15 man/get_weather.Rd | 11 man/handle_chile_agromet.Rd | 12 man/handle_cimis.Rd | 12 man/handle_gsod.Rd | 12 man/handle_ucipm.Rd | 12 man/handle_wunderground.Rd | 12 man/interpolate_gaps_hourly.Rd | 17 man/make_all_day_table.Rd | 12 man/make_chill_plot.Rd | 19 man/make_climate_scenario.Rd | 11 man/make_climate_scenario_from_files.Rd | 11 man/make_daily_chill_figures.Rd | 9 man/make_daily_chill_plot.Rd | 21 man/make_daily_chill_plot2.Rd | 14 man/make_multi_pheno_trend_plot.Rd | 17 man/make_pheno_trend_plot.Rd | 24 man/patch_daily_temperatures.Rd | 9 man/phenologyFit.Rd |only man/phenologyFitter.Rd |only man/plot.bootstrap_phenologyFit.Rd |only man/plot.phenologyFit.Rd |only man/plot_PLS.Rd | 15 man/plot_climateWizard_scenarios.Rd | 8 man/plot_climate_scenarios.Rd | 21 man/predict.bootstrap_phenologyFit.Rd |only man/predict.phenologyFit.Rd |only man/print.phenologyFit.Rd |only man/runn_mean.Rd | 9 man/runn_mean_pred.Rd | 11 man/stack_hourly_temps.Rd | 8 man/stage_transitions.Rd | 8 man/step_model.Rd | 9 man/summary.bootstrap_phenologyFit.Rd |only man/summary.phenologyFit.Rd |only man/tempResponse.Rd | 14 man/tempResponse_daily_list.Rd | 17 man/tempResponse_hourtable.Rd | 7 man/temperature_generation.Rd | 17 man/temperature_scenario_baseline_adjustment.Rd | 10 man/temperature_scenario_from_records.Rd | 10 src |only tests |only vignettes/Chilling_references.bib | 187 ++-- vignettes/PhenoFlex.Rmd |only vignettes/hourly_temperatures.Rmd | 2 108 files changed, 1614 insertions(+), 1010 deletions(-)
Title: Linear and Nonlinear Methods for Analyzing Daily and Monthly
Dendroclimatological Data
Description: Provides novel dendroclimatological methods, primarily used by the
Tree-ring research community. There are four core functions. The first one is
daily_response(), which finds the optimal sequence of days that are related
to one or more tree-ring proxy records. Similar function is daily_response_seascorr(),
which implements partial correlations in the analysis of daily response functions.
For the enthusiast of monthly data, there is monthly_response() function.
The last core function is compare_methods(), which effectively compares several
linear and nonlinear regression algorithms on the task of climate reconstruction.
Author: Jernej Jevsenak [aut, cre]
Maintainer: Jernej Jevsenak <jernej.jevsenak@gmail.com>
Diff between dendroTools versions 1.0.9 dated 2020-10-30 and 1.1.1 dated 2020-12-10
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 7 ++++++- inst/doc/Compare_different_regression_methods.html | 4 ++-- inst/doc/Examples_with_daily_climate_data.html | 4 ++-- tests/testthat/test_general.R | 12 ++++++------ 6 files changed, 25 insertions(+), 20 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
(<https://orcid.org/0000-0002-0734-2199>),
Christoph Burow [aut, trl, dtc]
(<https://orcid.org/0000-0002-5023-4046>),
Michael Dietze [aut] (<https://orcid.org/0000-0001-6063-1726>),
Margret C. Fuchs [aut],
Christoph Schmidt [aut] (<https://orcid.org/0000-0002-2309-3209>),
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] (<https://orcid.org/0000-0002-0805-9547>),
Norbert Mercier [ctb] (<https://orcid.org/0000-0002-6375-9108>),
Rachel K. Smedley [ctb] (<https://orcid.org/0000-0001-7773-5193>),
Claire Christophe [ctb],
Antoine Zink [ctb] (<https://orcid.org/0000-0001-7146-1101>),
Julie Durcan [ctb] (<https://orcid.org/0000-0001-8724-8022>),
Georgina E. King [ctb, dtc] (<https://orcid.org/0000-0003-1059-8192>),
Anne Philippe [ctb],
Guillaume Guerin [ctb] (<https://orcid.org/0000-0001-6298-5579>),
Svenja Riedesel [aut] (<https://orcid.org/0000-0003-2936-8776>),
Martin Autzen [aut] (<https://orcid.org/0000-0001-6249-426X>),
Pierre Guibert [ctb] (<https://orcid.org/0000-0001-8969-8684>),
Dirk Mittelstrass [aut],
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@aber.ac.uk>
Diff between Luminescence versions 0.9.9 dated 2020-11-29 and 0.9.10 dated 2020-12-10
Luminescence-0.9.10/Luminescence/DESCRIPTION | 8 Luminescence-0.9.10/Luminescence/MD5 | 277 ++--- Luminescence-0.9.10/Luminescence/NEWS.md | 27 Luminescence-0.9.10/Luminescence/R/Luminescence-package.R | 28 Luminescence-0.9.10/Luminescence/R/analyse_SAR.CWOSL.R | 22 Luminescence-0.9.10/Luminescence/R/analyse_pIRIRSequence.R | 7 Luminescence-0.9.10/Luminescence/R/calc_FuchsLang2001.R | 71 - Luminescence-0.9.10/Luminescence/R/internals_RLum.R | 31 Luminescence-0.9.10/Luminescence/R/plot_RLum.Results.R | 490 +++++----- Luminescence-0.9.10/Luminescence/R/use_DRAC.R | 134 +- Luminescence-0.9.10/Luminescence/README.md | 7 Luminescence-0.9.10/Luminescence/build/partial.rdb |binary Luminescence-0.9.10/Luminescence/man/Analyse_SAR.OSLdata.Rd | 2 Luminescence-0.9.10/Luminescence/man/CW2pHMi.Rd | 2 Luminescence-0.9.10/Luminescence/man/CW2pLM.Rd | 2 Luminescence-0.9.10/Luminescence/man/CW2pLMi.Rd | 2 Luminescence-0.9.10/Luminescence/man/CW2pPMi.Rd | 2 Luminescence-0.9.10/Luminescence/man/GitHub-API.Rd | 2 Luminescence-0.9.10/Luminescence/man/Luminescence-package.Rd | 27 Luminescence-0.9.10/Luminescence/man/PSL2Risoe.BINfileData.Rd | 2 Luminescence-0.9.10/Luminescence/man/RLum-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/RLum.Analysis-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/RLum.Data.Curve-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/RLum.Data.Image-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/RLum.Data.Spectrum-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/RLum.Results-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/Risoe.BINfileData-class.Rd | 2 Luminescence-0.9.10/Luminescence/man/Risoe.BINfileData2RLum.Analysis.Rd | 2 Luminescence-0.9.10/Luminescence/man/Second2Gray.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_Al2O3C_CrossTalk.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_Al2O3C_ITC.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_Al2O3C_Measurement.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_FadingMeasurement.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_IRSAR.RF.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_SAR.CWOSL.Rd | 10 Luminescence-0.9.10/Luminescence/man/analyse_SAR.TL.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_baSAR.Rd | 2 Luminescence-0.9.10/Luminescence/man/analyse_pIRIRSequence.Rd | 27 Luminescence-0.9.10/Luminescence/man/analyse_portableOSL.Rd | 2 Luminescence-0.9.10/Luminescence/man/app_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/apply_CosmicRayRemoval.Rd | 2 Luminescence-0.9.10/Luminescence/man/apply_EfficiencyCorrection.Rd | 2 Luminescence-0.9.10/Luminescence/man/bin_RLum.Data.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_AliquotSize.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_AverageDose.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_CentralDose.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_CobbleDoseRate.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_CommonDose.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_CosmicDoseRate.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_FadingCorr.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_FastRatio.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_FiniteMixture.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_FuchsLang2001.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_HomogeneityTest.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_Huntley2006.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_IEU.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_Kars2008.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_Lamothe2003.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_MaxDose.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_MinDose.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_OSLLxTxDecomposed.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_OSLLxTxRatio.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_SourceDoseRate.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_Statistics.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_TLLxTxRatio.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_ThermalLifetime.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_WodaFuchs2008.Rd | 2 Luminescence-0.9.10/Luminescence/man/calc_gSGC.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_Activity2Concentration.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_BIN2CSV.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_Concentration2DoseRate.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_Daybreak2CSV.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_PSL2CSV.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_RLum2Risoe.BINfileData.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_Wavelength2Energy.Rd | 2 Luminescence-0.9.10/Luminescence/man/convert_XSYG2CSV.Rd | 2 Luminescence-0.9.10/Luminescence/man/extract_IrradiationTimes.Rd | 2 Luminescence-0.9.10/Luminescence/man/figures/Luminescence_logo.png |only Luminescence-0.9.10/Luminescence/man/fit_CWCurve.Rd | 2 Luminescence-0.9.10/Luminescence/man/fit_LMCurve.Rd | 2 Luminescence-0.9.10/Luminescence/man/fit_OSLLifeTimes.Rd | 2 Luminescence-0.9.10/Luminescence/man/fit_SurfaceExposure.Rd | 2 Luminescence-0.9.10/Luminescence/man/fit_ThermalQuenching.Rd | 2 Luminescence-0.9.10/Luminescence/man/get_Layout.Rd | 2 Luminescence-0.9.10/Luminescence/man/get_Quote.Rd | 2 Luminescence-0.9.10/Luminescence/man/get_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/get_Risoe.BINfileData.Rd | 2 Luminescence-0.9.10/Luminescence/man/get_rightAnswer.Rd | 2 Luminescence-0.9.10/Luminescence/man/length_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/merge_RLum.Analysis.Rd | 2 Luminescence-0.9.10/Luminescence/man/merge_RLum.Data.Curve.Rd | 2 Luminescence-0.9.10/Luminescence/man/merge_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/merge_RLum.Results.Rd | 2 Luminescence-0.9.10/Luminescence/man/merge_Risoe.BINfileData.Rd | 2 Luminescence-0.9.10/Luminescence/man/names_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_AbanicoPlot.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_DRCSummary.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_DRTResults.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_DetPlot.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_FilterCombinations.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_GrowthCurve.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_Histogram.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_KDE.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_NRt.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RLum.Analysis.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RLum.Data.Curve.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RLum.Data.Image.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RLum.Data.Spectrum.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RLum.Results.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_ROI.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_RadialPlot.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_Risoe.BINfileData.Rd | 2 Luminescence-0.9.10/Luminescence/man/plot_ViolinPlot.Rd | 2 Luminescence-0.9.10/Luminescence/man/read_BIN2R.Rd | 2 Luminescence-0.9.10/Luminescence/man/read_Daybreak2R.Rd | 2 Luminescence-0.9.10/Luminescence/man/read_PSL2R.Rd | 2 Luminescence-0.9.10/Luminescence/man/read_RF2R.Rd | 2 Luminescence-0.9.10/Luminescence/man/read_SPE2R.Rd | 2 Luminescence-0.9.10/Luminescence/man/read_XSYG2R.Rd | 2 Luminescence-0.9.10/Luminescence/man/replicate_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/report_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/sTeve.Rd | 2 Luminescence-0.9.10/Luminescence/man/scale_GammaDose.Rd | 2 Luminescence-0.9.10/Luminescence/man/set_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/set_Risoe.BINfileData.Rd | 2 Luminescence-0.9.10/Luminescence/man/smooth_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/structure_RLum.Rd | 2 Luminescence-0.9.10/Luminescence/man/template_DRAC.Rd | 2 Luminescence-0.9.10/Luminescence/man/tune_Data.Rd | 2 Luminescence-0.9.10/Luminescence/man/use_DRAC.Rd | 2 Luminescence-0.9.10/Luminescence/man/verify_SingleGrainData.Rd | 2 Luminescence-0.9.10/Luminescence/man/write_R2BIN.Rd | 2 Luminescence-0.9.10/Luminescence/man/write_RLum2CSV.Rd | 2 Luminescence-0.9.10/Luminescence/tests/testthat/test_analyse_SARCWOSL.R | 99 ++ Luminescence-0.9.10/Luminescence/tests/testthat/test_calc_FuchsLang2001.R | 55 - Luminescence-0.9.10/Luminescence/tests/testthat/test_internals.R | 25 Luminescence-0.9.10/Luminescence/tests/testthat/test_read_BIN2R.R | 4 Luminescence-0.9.10/Luminescence/tests/testthat/test_use_DRAC.R | 4 Luminescence-0.9.9/Luminescence/man/figures/RL_Logo.png |only Luminescence-0.9.9/Luminescence/man/figures/RL_Logo.svg |only 141 files changed, 843 insertions(+), 746 deletions(-)
Title: HTML Widgets for R
Description: A framework for creating HTML widgets that render in various
contexts including the R console, 'R Markdown' documents, and 'Shiny'
web applications.
Author: Ramnath Vaidyanathan [aut, cph],
Yihui Xie [aut],
JJ Allaire [aut],
Joe Cheng [aut],
Carson Sievert [aut, cre] (<https://orcid.org/0000-0002-4958-2844>),
Kenton Russell [aut, cph],
Ellis Hughes [ctb],
RStudio [cph]
Maintainer: Carson Sievert <carson@rstudio.com>
Diff between htmlwidgets versions 1.5.2 dated 2020-10-03 and 1.5.3 dated 2020-12-10
htmlwidgets-1.5.2/htmlwidgets/inst/NEWS |only htmlwidgets-1.5.3/htmlwidgets/DESCRIPTION | 10 htmlwidgets-1.5.3/htmlwidgets/MD5 | 35 +- htmlwidgets-1.5.3/htmlwidgets/NAMESPACE | 1 htmlwidgets-1.5.3/htmlwidgets/NEWS.md |only htmlwidgets-1.5.3/htmlwidgets/R/htmlwidgets.R | 177 +++++++++-- htmlwidgets-1.5.3/htmlwidgets/R/pandoc.R | 9 htmlwidgets-1.5.3/htmlwidgets/R/utils.R | 36 +- htmlwidgets-1.5.3/htmlwidgets/build/vignette.rds |binary htmlwidgets-1.5.3/htmlwidgets/inst/doc/develop_advanced.R | 2 htmlwidgets-1.5.3/htmlwidgets/inst/doc/develop_advanced.Rmd | 7 htmlwidgets-1.5.3/htmlwidgets/inst/doc/develop_advanced.html | 8 htmlwidgets-1.5.3/htmlwidgets/inst/doc/develop_intro.Rmd | 2 htmlwidgets-1.5.3/htmlwidgets/inst/doc/develop_intro.html | 2 htmlwidgets-1.5.3/htmlwidgets/inst/www/htmlwidgets.js | 4 htmlwidgets-1.5.3/htmlwidgets/man/JSEvals.Rd |only htmlwidgets-1.5.3/htmlwidgets/man/htmlwidgets-shiny.Rd | 11 htmlwidgets-1.5.3/htmlwidgets/tests |only htmlwidgets-1.5.3/htmlwidgets/vignettes/develop_advanced.Rmd | 7 htmlwidgets-1.5.3/htmlwidgets/vignettes/develop_intro.Rmd | 2 20 files changed, 234 insertions(+), 79 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-23 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-26 1.0-3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-11 1.1.5
2018-10-15 1.1.1
2018-09-30 1.1.0
2018-09-03 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-02 1.1.2
2019-01-03 1.1.1
2018-12-07 1.1.0
2018-11-29 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-09 0.3.2
2015-02-04 0.3.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-29 2.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-02-18 2.3.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-13 1.0.0
2020-02-12 0.4.3
2019-11-14 0.4.2
2019-07-19 0.4.1
2019-03-25 0.4.0
2019-01-02 0.3.9
2018-10-17 0.3.8
2018-08-20 0.3.7
2018-05-11 0.3.6
2018-02-16 0.3.5
2017-12-20 0.3.4
2017-10-25 0.3.2
2017-08-18 0.2
2017-07-08 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2009-06-14 0.1.2
2007-04-19 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-25 0.1.1
2018-08-30 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-07 1.3.0
2019-09-22 1.2.0
2019-01-30 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-14 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-06-22 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-16 2.10
2012-02-19 2.05
2010-07-26 2.04
2007-12-07 2.03
2006-09-29 2.02
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-21 3.0.2
2019-06-07 3.0.1
2019-03-04 3.0.0
2018-11-29 2.2.0
2018-11-16 2.1.1
2018-10-17 2.1.0
2018-10-13 2.0.3
2018-10-04 2.0.2
2018-08-24 2.0.1
2018-03-27 2.0.0
2017-05-04 1.3.2
2017-03-31 1.3.1
2017-02-10 1.3.0
2017-01-31 1.2.1
2016-12-28 1.2.0
2016-06-18 1.1.0
2016-04-27 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-15 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-30 0.9.4
2020-03-12 0.9.3
2020-01-09 0.9.1
2019-09-20 0.9.0
2019-08-23 0.8.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-27 4.7.0
2018-03-08 4.6.1
2017-06-17 4.6.0
2014-11-24 4.5.3
2014-05-20 4.5.0
2013-08-13 4.4.1
2012-10-17 4.4.0
2012-04-19 4.3.5
2010-11-30 4.3.2
2010-10-23 4.3.0
Title: Tokenization, Parts of Speech Tagging, Lemmatization and
Dependency Parsing with the 'UDPipe' 'NLP' Toolkit
Description: This natural language processing toolkit provides language-agnostic
'tokenization', 'parts of speech tagging', 'lemmatization' and 'dependency
parsing' of raw text. Next to text parsing, the package also allows you to train
annotation models based on data of 'treebanks' in 'CoNLL-U' format as provided
at <https://universaldependencies.org/format.html>. The techniques are explained
in detail in the paper: 'Tokenizing, POS Tagging, Lemmatizing and Parsing UD 2.0
with UDPipe', available at <doi:10.18653/v1/K17-3009>.
The toolkit also contains functionalities for commonly used data manipulations on texts
which are enriched with the output of the parser. Namely functionalities and algorithms
for collocations, token co-occurrence, document term matrix handling,
term frequency inverse document frequency calculations,
information retrieval metrics (Okapi BM25), handling of multi-word expressions,
keyword detection (Rapid Automatic Keyword Extraction, noun phrase extraction, syntactical patterns)
sentiment scoring and semantic similarity analysis.
Author: Jan Wijffels [aut, cre, cph],
BNOSAC [cph],
Institute of Formal and Applied Linguistics, Faculty of Mathematics and
Physics, Charles University in Prague, Czech Republic [cph],
Milan Straka [ctb, cph],
Jana Straková [ctb, cph]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between udpipe versions 0.8.4-1 dated 2020-10-12 and 0.8.5 dated 2020-12-10
DESCRIPTION | 6 MD5 | 52 +- NAMESPACE | 6 NEWS.md | 15 R/nlp_cooccurrence.R | 10 R/nlp_flow.R | 436 +++++++++++++++++- R/nlp_morphological.R | 56 ++ R/utils.R | 62 ++ inst/doc/udpipe-annotation.html | 6 inst/doc/udpipe-parallel.html | 6 inst/doc/udpipe-train.html | 6 inst/doc/udpipe-tryitout.html | 4 inst/doc/udpipe-universe.Rmd | 2 inst/doc/udpipe-universe.html | 6 inst/doc/udpipe-usecase-postagging-lemmatisation.html | 4 inst/doc/udpipe-usecase-topicmodelling.html | 4 man/cbind_morphological.Rd | 23 man/cooccurrence.Rd | 10 man/document_term_matrix.Rd | 79 +++ man/dtm_align.Rd |only man/dtm_bind.Rd | 20 man/dtm_colsums.Rd | 41 + man/dtm_sample.Rd |only man/txt_collapse.Rd | 6 man/txt_contains.Rd | 3 man/txt_count.Rd | 2 man/txt_recode.Rd | 13 vignettes/udpipe-universe.Rmd | 2 28 files changed, 787 insertions(+), 93 deletions(-)
Title: Regression Models with Break-Points / Change-Points Estimation
Description: Given a regression model, segmented `updates' it by adding one or more segmented (i.e., piece-wise linear) relationships. Several variables with multiple breakpoints are allowed. The estimation method is discussed in Muggeo (2003, <doi:10.1002/sim.1545>) and illustrated in Muggeo (2008, <https://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf>). An approach for hypothesis testing is presented in Muggeo (2016, <doi:10.1080/00949655.2016.1149855>), and interval estimation for the breakpoint is discussed in Muggeo (2017, <doi:10.1111/anzs.12200>).
Author: Vito M. R. Muggeo [aut, cre]
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between segmented versions 1.3-0 dated 2020-10-27 and 1.3-1 dated 2020-12-10
DESCRIPTION | 8 MD5 | 26 - NEWS | 23 - R/broken.line.r | 1 R/davies.test.r | 6 R/pscore.test.R | 32 + R/seg.def.fit.r | 5 R/seg.lm.fit.r | 8 R/segmented.default.r | 8 R/segmented.glm.R | 882 ++++++++++++++++++++++---------------------- R/segmented.lm.R | 924 +++++++++++++++++++++++------------------------ man/confint.segmented.Rd | 3 man/plot.segmented.Rd | 2 man/segmented-package.Rd | 7 14 files changed, 989 insertions(+), 946 deletions(-)
Title: Monte-Carlo Methods for Simulating Luminescence Phenomena
Description: A collection of functions to simulate luminescence production in
dosimetric materials using Monte Carlo methods. Implemented are models for
delocalised transitions (e.g., Chen and McKeever (1997) <doi:10.1142/2781>),
localised transitions (e.g., Pagonis et al. (2019) <doi:10.1016/j.jlumin.2018.11.024>)
and tunnelling transitions (Jain et al. (2012) <doi:10.1088/0953-8984/24/38/385402>
and Pagonis et al. (2019) <doi:10.1016/j.jlumin.2018.11.024>).
Supported stimulation methods are thermal luminescence (TL),
continuous-wave optically stimulated luminescence (CW-OSL),
linearly-modulated optically stimulated luminescence (LM-OSL),
linearly-modulated infrared stimulated luminescence (LM-IRSL),
and isothermal luminescence (ITL or ISO-TL).
Author: Johannes Friedrich [aut, trl] (<https://orcid.org/0000-0002-0805-9547>),
Sebastian Kreutzer [aut, trl, cre]
(<https://orcid.org/0000-0002-0734-2199>),
Vasilis Pagonis [aut] (<https://orcid.org/0000-0002-4852-9312>),
Christoph Schmidt [aut] (<https://orcid.org/0000-0002-2309-3209>),
Christian Laag [ctb] (<https://orcid.org/0000-0002-6012-1029>),
Ena Rajovic [ctb],
Alex Roy Duncan [ctb]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@aber.ac.uk>
Diff between RLumCarlo versions 0.1.6 dated 2020-07-05 and 0.1.7 dated 2020-12-10
DESCRIPTION | 16 +- MD5 | 110 ++++++++-------- NEWS.md | 26 ++- R/create_ClusterSystem.R | 6 R/run_MC_CW_IRSL_LOC.R | 6 R/run_MC_CW_IRSL_TUN.R | 4 R/run_MC_CW_OSL_DELOC.R | 4 R/run_MC_ISO_DELOC.R | 2 R/run_MC_ISO_LOC.R | 2 R/run_MC_ISO_TUN.R | 4 R/run_MC_LM_OSL_DELOC.R | 4 R/run_MC_LM_OSL_LOC.R | 4 R/run_MC_LM_OSL_TUN.R | 2 R/run_MC_TL_DELOC.R | 2 R/run_MC_TL_LOC.R | 4 R/run_MC_TL_TUN.R | 2 README.md | 27 +-- build/partial.rdb |binary inst/doc/RLumCarlo_-_Getting_started_with_RLumCarlo.pdf |binary man/create_ClusterSystem.Rd | 2 man/figures/Logo_RLumCarlo.png |binary man/figures/README-unnamed-chunk-2-1.png |binary man/methods_RLumCarlo.Rd | 2 man/plot_RLumCarlo.Rd | 2 man/run_MC_CW_IRSL_LOC.Rd | 8 - man/run_MC_CW_IRSL_TUN.Rd | 6 man/run_MC_CW_OSL_DELOC.Rd | 6 man/run_MC_ISO_DELOC.Rd | 4 man/run_MC_ISO_LOC.Rd | 4 man/run_MC_ISO_TUN.Rd | 6 man/run_MC_LM_OSL_DELOC.Rd | 6 man/run_MC_LM_OSL_LOC.Rd | 6 man/run_MC_LM_OSL_TUN.Rd | 4 man/run_MC_TL_DELOC.Rd | 4 man/run_MC_TL_LOC.Rd | 6 man/run_MC_TL_TUN.Rd | 4 src/Makevars | 2 src/Makevars.win | 1 tests/testthat/test_benchmark_models.R | 22 +-- tests/testthat/test_create_ClusterSystem.R | 7 - tests/testthat/test_internals.R | 3 tests/testthat/test_methods.R | 10 - tests/testthat/test_plot_RLumCarlo.R | 5 tests/testthat/test_run_MC_CW_IRSL_LOC.R | 3 tests/testthat/test_run_MC_CW_IRSL_TUN.R | 3 tests/testthat/test_run_MC_CW_OSL_DELOC.R | 3 tests/testthat/test_run_MC_ISO_DELOC.R | 3 tests/testthat/test_run_MC_ISO_LOC.R | 3 tests/testthat/test_run_MC_ISO_TUN.R | 13 + tests/testthat/test_run_MC_LM_OSL_DELOC.R | 3 tests/testthat/test_run_MC_LM_OSL_LOC.R | 3 tests/testthat/test_run_MC_LM_OSL_TUN.R | 3 tests/testthat/test_run_MC_TL_DELOC.R | 3 tests/testthat/test_run_MC_TL_LOC.R | 3 tests/testthat/test_run_MC_TL_TUN.R | 4 tests/testthat/test_utils.R | 7 - 56 files changed, 203 insertions(+), 196 deletions(-)
Title: R-Squared Measures for Multilevel Models
Description: Generates both total- and level-specific R-squared measures from
Rights and Sterba’s (2019) <doi:10.1037/met0000184> framework of R-squared measures for multilevel
models with random intercepts and/or slopes, which is based on a completely
full decomposition of variance. Additionally generates graphical
representations of these R-squared measures to allow visualizing and
interpreting all measures in the framework together as an integrated set.
This framework subsumes 10 previously-developed R-squared measures for
multilevel models as special cases of 5 measures from the framework, and it
also includes several newly-developed measures. Measures in the framework
can be used to compute R-squared differences when comparing multilevel
models (following procedures in Rights & Sterba (2020) <doi:10.1080/00273171.2019.1660605>).
Author: Mairead Shaw [aut, cre],
Jason Rights [aut],
Sonya Sterba [aut],
Jessica Flake [aut]
Maintainer: Mairead Shaw <mairead.shaw@mail.mcgill.ca>
Diff between r2mlm versions 0.1.0 dated 2020-09-25 and 0.2.0 dated 2020-12-10
DESCRIPTION | 10 MD5 | 20 - NAMESPACE | 2 NEWS.md |only R/prepare_data.R |only R/r2mlm.R | 483 +++++-------------------- R/r2mlm_comp.R | 990 ++++++++++++---------------------------------------- R/r2mlm_manual.R | 2 R/utils.R |only inst |only man/r2mlm.Rd | 6 man/r2mlm_comp.Rd | 19 man/r2mlm_manual.Rd | 2 13 files changed, 391 insertions(+), 1143 deletions(-)
Title: Tests for General Factorial Designs
Description: Implemented are the Wald-type statistic,
a permuted version thereof as well as the ANOVA-type statistic
for general factorial designs, even with non-normal error terms
and/or heteroscedastic variances, for crossed designs with an
arbitrary number of factors and nested designs with up to three factors.
Friedrich et al. (2017) <doi:10.18637/jss.v079.c01>.
Author: Sarah Friedrich, Frank Konietschke, Markus Pauly
Maintainer: Sarah Friedrich <sarah.friedrich@med.uni-goettingen.de>
Diff between GFD versions 0.2.8 dated 2020-09-30 and 0.2.9 dated 2020-12-10
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- R/GUI.R | 6 ++++-- inst/NEWS.md | 5 ++++- 4 files changed, 16 insertions(+), 10 deletions(-)
Title: Measuring Multivariate Dependence Using Distance Multivariance
Description: Distance multivariance is a measure of dependence which can be used to detect
and quantify dependence of arbitrarily many random vectors. The necessary functions are
implemented in this packages and examples are given. It includes: distance multivariance,
distance multicorrelation, dependence structure detection, tests of independence and
copula versions of distance multivariance based on the Monte Carlo empirical transform.
Detailed references are given in the package description, as starting point for the
theoretic background we refer to:
B. Böttcher, Dependence and Dependence Structures: Estimation and Visualization Using
the Unifying Concept of Distance Multivariance. Open Statistics, Vol. 1, No. 1 (2020),
<doi:10.1515/stat-2020-0001>.
Author: Björn Böttcher [aut, cre],
Martin Keller-Ressel [ctb]
Maintainer: Björn Böttcher <bjoern.boettcher@tu-dresden.de>
Diff between multivariance versions 2.3.0 dated 2020-04-23 and 2.4.0 dated 2020-12-10
multivariance-2.3.0/multivariance/tests/testthat/Rplots.pdf |only multivariance-2.4.0/multivariance/DESCRIPTION | 10 multivariance-2.4.0/multivariance/MD5 | 30 - multivariance-2.4.0/multivariance/NAMESPACE | 2 multivariance-2.4.0/multivariance/R/multivariance-functions.R | 178 ++++++---- multivariance-2.4.0/multivariance/inst/NEWS | 15 multivariance-2.4.0/multivariance/man/anscombe.extended.Rd | 22 - multivariance-2.4.0/multivariance/man/cdm.mu.bcd.Rd | 4 multivariance-2.4.0/multivariance/man/copula.multicorrelation.Rd | 8 multivariance-2.4.0/multivariance/man/dependence.structure.Rd | 2 multivariance-2.4.0/multivariance/man/moments.for.pearson.Rd | 3 multivariance-2.4.0/multivariance/man/multicorrelation.Rd | 11 multivariance-2.4.0/multivariance/man/multivariance-package.Rd | 4 multivariance-2.4.0/multivariance/man/multivariance.test.Rd | 4 multivariance-2.4.0/multivariance/man/simple.int.hash.Rd |only multivariance-2.4.0/multivariance/src/multivariance.cpp | 10 multivariance-2.4.0/multivariance/tests/testthat/testmultivariances.R | 32 + 17 files changed, 221 insertions(+), 114 deletions(-)
Title: Isolation-Based Outlier Detection
Description: Fast and multi-threaded implementation of
isolation forest (Liu, Ting, Zhou (2008) <doi:10.1109/ICDM.2008.17>),
extended isolation forest (Hariri, Kind, Brunner (2018) <arXiv:1811.02141>),
SCiForest (Liu, Ting, Zhou (2010) <doi:10.1007/978-3-642-15883-4_18>),
and fair-cut forest (Cortes (2019) <arXiv:1911.06646>),
for isolation-based outlier detection, clustered outlier detection, distance or similarity
approximation (Cortes (2019) <arXiv:1910.12362>),
and imputation of missing values (Cortes (2019) <arXiv:1911.06646>),
based on random or guided decision tree splitting. Provides simple heuristics for fitting the model to
categorical columns and handling missing data, and offers options for varying between random and guided
splits, and for using different splitting criteria.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between isotree versions 0.1.20 dated 2020-10-13 and 0.1.24 dated 2020-12-10
DESCRIPTION | 8 MD5 | 56 +++--- NAMESPACE | 1 R/RcppExports.R | 12 + R/helpers.R | 31 +++ R/isoforest.R | 323 ++++++++++++++++++++++++++++++++++------ man/add.isolation.tree.Rd | 7 man/append.trees.Rd | 16 + man/isolation.forest.Rd | 88 +++++++--- man/isotree.to.sql.Rd |only man/load.isotree.model.Rd | 2 man/predict.isolation_forest.Rd | 2 man/unpack.isolation.forest.Rd | 4 src/RcppExports.cpp | 48 +++++ src/Rwrapper.cpp | 145 ++++++++++++++--- src/crit.cpp | 2 src/dealloc.cpp | 2 src/dist.cpp | 12 - src/extended.cpp | 10 - src/fit_model.cpp | 34 ++-- src/helpers_iforest.cpp | 37 +++- src/impute.cpp | 14 - src/isoforest.cpp | 14 - src/isotree.h | 32 +++ src/merge_models.cpp | 2 src/mult.cpp | 2 src/predict.cpp | 36 ++-- src/serialize.cpp | 2 src/sql.cpp |only src/utils.cpp | 78 ++++----- 30 files changed, 751 insertions(+), 269 deletions(-)
Title: Symbolic Differentiation
Description: R-based solution for symbolic differentiation. It admits
user-defined function as well as function substitution
in arguments of functions to be differentiated. Some symbolic
simplification is part of the work.
Author: Andrew Clausen [aut],
Serguei Sokol [aut, cre] (<https://orcid.org/0000-0002-5674-3327>),
Andreas Rappold [ctb]
Maintainer: Serguei Sokol <sokol@insa-toulouse.fr>
Diff between Deriv versions 4.1.1 dated 2020-10-26 and 4.1.2 dated 2020-12-10
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 7 ++++++- tests/testthat/test_Deriv.R | 8 ++++---- 4 files changed, 17 insertions(+), 12 deletions(-)
Title: Create Interactive Collapsible Trees with the JavaScript 'D3'
Library
Description: Create and customize interactive collapsible 'D3' trees using the 'D3'
JavaScript library and the 'htmlwidgets' package. These trees can be used
directly from the R console, from 'RStudio', in Shiny apps and R Markdown documents.
When in Shiny the tree layout is observed by the server and can be used as a reactive filter
of structured data.
Author: Jonathan Sidi [aut, cre],
Kenton Russell [ctb] (https://github.com/timelyportfolio)
Maintainer: Jonathan Sidi <yonicd@gmail.com>
Diff between d3Tree versions 0.2.0 dated 2017-06-13 and 0.2.2 dated 2020-12-10
DESCRIPTION | 20 ++++++++--------- MD5 | 19 ++++++++-------- R/d3TreeFunctions.R | 2 - inst/examples/remote_git/server.R | 2 - inst/examples/remote_git/www/functions/RunStanGit.r | 18 +++++++++++---- inst/examples/remote_git/www/functions/StanFunctions.r | 12 +++++----- inst/examples/titanic_shiny/DESCRIPTION |only inst/examples/titanic_shiny/server.R | 5 ++-- inst/examples/titanic_shiny/ui.R | 2 - man/d3tree.Rd | 12 ++++++++-- man/stan.models.Rd | 4 ++- 11 files changed, 60 insertions(+), 36 deletions(-)
Title: Produce Forest Plots to Visualize Covariate Effects
Description: Produce forest plots to visualize covariate effects using either
the command line or an interactive 'Shiny' application.
Author: Samer Mouksassi [aut, cre] (<https://orcid.org/0000-0002-7152-6654>),
Dean Attali [ctb]
Maintainer: Samer Mouksassi <samermouksassi@gmail.com>
Diff between coveffectsplot versions 0.0.9 dated 2020-04-03 and 0.0.9.1 dated 2020-12-10
DESCRIPTION | 23 +- MD5 | 56 +++--- NAMESPACE | 1 NEWS.md | 10 + R/data.R | 2 R/forest_plot.R | 240 ++++++++++++++++++++------- README.md | 5 build/vignette.rds |binary inst/doc/Exposure_Response_Example.R | 11 - inst/doc/Exposure_Response_Example.Rmd | 11 - inst/doc/Exposure_Response_Example.html | 70 +++++++ inst/doc/Introduction_to_coveffectsplot.R | 9 - inst/doc/Introduction_to_coveffectsplot.Rmd | 9 - inst/doc/Introduction_to_coveffectsplot.html | 72 +++++++- inst/doc/PKPD_Example.R |only inst/doc/PKPD_Example.Rmd |only inst/doc/PKPD_Example.html |only inst/doc/PK_Example.R |only inst/doc/PK_Example.Rmd |only inst/doc/PK_Example.html |only inst/doc/Pediatric_Cov_Sim.R | 11 - inst/doc/Pediatric_Cov_Sim.Rmd | 11 - inst/doc/Pediatric_Cov_Sim.html | 98 +++++++++-- inst/shiny/server.R | 41 ++-- inst/shiny/text/howto.md | 48 ++--- inst/shiny/ui.R | 36 +++- man/forest_plot.Rd | 17 + man/prezista.Rd | 62 +++--- vignettes/Exposure_Response_Example.Rmd | 11 - vignettes/Introduction_to_coveffectsplot.Rmd | 9 - vignettes/PKPD_Example.Rmd |only vignettes/PK_Example.Rmd |only vignettes/Pediatric_Cov_Sim.Rmd | 11 - 33 files changed, 649 insertions(+), 225 deletions(-)
More information about coveffectsplot at CRAN
Permanent link
Title: Wilcoxon Rank Tests for Clustered Data
Description: Non-parametric tests (Wilcoxon rank sum test and Wilcoxon signed rank test) for clustered data documented in Jiang et. al (2020) <doi:10.18637/jss.v096.i06>.
Author: Yujing Jiang [aut],
Mei-Ling Ting Lee [ctb],
Jun Yan [ctb, cre]
Maintainer: Jun Yan <jun.yan@uconn.edu>
Diff between clusrank versions 0.6-2 dated 2018-08-11 and 1.0-0 dated 2020-12-10
clusrank-0.6-2/clusrank/R/clusrank.R |only clusrank-0.6-2/clusrank/man/clusrank-package.Rd |only clusrank-1.0-0/clusrank/DESCRIPTION | 29 +++-- clusrank-1.0-0/clusrank/MD5 | 45 ++++----- clusrank-1.0-0/clusrank/R/RcppExports.R | 32 +++--- clusrank-1.0-0/clusrank/R/amd.R | 29 ++--- clusrank-1.0-0/clusrank/R/clusWilcox.R | 27 ++--- clusrank-1.0-0/clusrank/R/clusranksum.R | 34 +++--- clusrank-1.0-0/clusrank/R/clussignrank.R | 27 ++--- clusrank-1.0-0/clusrank/R/crd.R | 27 ++--- clusrank-1.0-0/clusrank/R/crdstr.R | 27 ++--- clusrank-1.0-0/clusrank/R/crsd.R | 27 ++--- clusrank-1.0-0/clusrank/R/crsdunb.R | 27 ++--- clusrank-1.0-0/clusrank/R/print.R | 27 ++--- clusrank-1.0-0/clusrank/R/recodeFun.R | 27 ++--- clusrank-1.0-0/clusrank/R/special.R | 27 ++--- clusrank-1.0-0/clusrank/inst |only clusrank-1.0-0/clusrank/man/amd.Rd | 8 + clusrank-1.0-0/clusrank/man/clusWilcox.test.Rd | 36 +++++-- clusrank-1.0-0/clusrank/man/crd.Rd | 6 - clusrank-1.0-0/clusrank/man/crdStr.Rd | 6 - clusrank-1.0-0/clusrank/man/crsd.Rd | 6 - clusrank-1.0-0/clusrank/man/crsdUnb.Rd | 6 - clusrank-1.0-0/clusrank/src/RcppExports.cpp | 120 ++++++++++++------------ clusrank-1.0-0/clusrank/src/exact.cpp | 5 - 25 files changed, 299 insertions(+), 306 deletions(-)
Title: Compile and Preview Snippets of 'LaTeX'
Description: Compile snippets of 'LaTeX' directly into images
from the R console to view in the 'RStudio' viewer pane, Shiny apps
and 'RMarkdown' documents.
Author: Jonathan Sidi [aut, cre],
Daniel Polhamus [aut]
Maintainer: Jonathan Sidi <yonicd@gmail.com>
Diff between texPreview versions 1.4.6 dated 2020-09-18 and 1.5 dated 2020-12-10
texPreview-1.4.6/texPreview/inst/doc/slickr.R |only texPreview-1.4.6/texPreview/inst/doc/slickr.Rmd |only texPreview-1.4.6/texPreview/inst/doc/slickr.html |only texPreview-1.4.6/texPreview/vignettes/slickr.Rmd |only texPreview-1.5/texPreview/DESCRIPTION | 12 texPreview-1.5/texPreview/MD5 | 28 texPreview-1.5/texPreview/README.md | 2 texPreview-1.5/texPreview/build/texPreview.pdf |binary texPreview-1.5/texPreview/build/vignette.rds |binary texPreview-1.5/texPreview/inst/doc/classes.html | 156 +++-- texPreview-1.5/texPreview/inst/doc/engine.html | 166 +++-- texPreview-1.5/texPreview/inst/doc/kable.html | 120 ++-- texPreview-1.5/texPreview/inst/doc/rmarkdown.html | 116 ++- texPreview-1.5/texPreview/inst/doc/tests_and_coverage.html | 78 +- texPreview-1.5/texPreview/inst/doc/tex_packages.html | 88 ++- texPreview-1.5/texPreview/inst/doc/tikz.html | 378 +++++++------ texPreview-1.5/texPreview/tests/README.md | 101 +-- 17 files changed, 741 insertions(+), 504 deletions(-)
Title: Plot Publication-Grade Gene and Genome Maps
Description: Draws gene or genome maps and comparisons between these, in a
publication-grade manner. Starting from simple, common files, it will
draw postscript or PDF files that can be sent as such to journals.
Author: Lionel Guy <lionel.guy@imbim.uu.se>
Maintainer: Lionel Guy <lionel.guy@imbim.uu.se>
Diff between genoPlotR versions 0.8.9 dated 2019-01-25 and 0.8.10 dated 2020-12-10
DESCRIPTION | 13 ++++++++----- MD5 | 30 +++++++++++++++--------------- NEWS | 5 +++++ build/partial.rdb |binary build/vignette.rds |binary data/barto.RData |binary data/chrY_subseg.RData |binary data/mauve_bbone.RData |binary data/three_genes.RData |binary inst/CITATION | 4 ++-- inst/doc/genoPlotR.R | 11 +++-------- inst/doc/genoPlotR.Rnw | 6 +----- inst/doc/genoPlotR.pdf |binary man/apply_color_scheme.Rd | 2 +- man/plot_gene_map.Rd | 2 +- vignettes/genoPlotR.Rnw | 6 +----- 16 files changed, 37 insertions(+), 42 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-09 1.0.1
Title: Robust Bayesian Meta-Analyses
Description: A framework for estimating ensembles of meta-analytic models
(assuming either presence or absence of the effect, heterogeneity, and
publication bias) and using Bayesian model averaging to combine them. The
ensembles use Bayes factors to test for the presence or absence of the
individual components (e.g., effect vs. no effect) and model-averages
parameter estimates based on posterior model probabilities
(Maier, Bartoš & Wagenmakers, 2020, <doi:10.31234/osf.io/u4cns>). The user can
define a wide range of non-informative or informative priors for the
effect size, heterogeneity, and weight functions. The package provides
convenient functions for summary, visualizations, and fit diagnostics.
Author: František Bartoš [aut, cre] (<https://orcid.org/0000-0002-0018-5573>),
Maximilian Maier [aut] (<https://orcid.org/0000-0002-9873-6096>),
Eric-Jan Wagenmakers [ths] (<https://orcid.org/0000-0003-1596-1034>),
Joris Goosen [ctb]
Maintainer: František Bartoš <f.bartos96@gmail.com>
Diff between RoBMA versions 1.1.1 dated 2020-11-10 and 1.1.2 dated 2020-12-10
DESCRIPTION | 6 MD5 | 28 - NEWS.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/CustomEnsembles.html | 52 +++ inst/doc/ReproducingBMA.html | 52 +++ inst/doc/WarningsAndErrors.html | 52 +++ man/Anderson2010.Rd | 46 +-- man/RoBMA.Rd | 548 ++++++++++++++++++------------------ man/check_setup.Rd | 126 ++++---- man/update.RoBMA.Rd | 368 ++++++++++++------------ tests/testthat/test-3-priors.R | 1 tests/testthat/test-6-plots.R | 2 tests/testthat/test-7-diagnostics.R | 2 15 files changed, 718 insertions(+), 569 deletions(-)
Title: Survey Standard Error Estimation for Cumulated Estimates and
their Differences in Complex Panel Designs
Description: Calculate point estimates and their standard errors in complex household surveys using bootstrap replicates. Bootstrapping considers survey design with a rotating panel. A comprehensive description of the methodology can be found under <https://statistikat.github.io/surveysd/articles/methodology.html>.
Author: Johannes Gussenbauer [aut, cre],
Alexander Kowarik [aut] (<https://orcid.org/0000-0001-8598-4130>),
Gregor de Cillia [aut],
Matthias Till [ctb]
Maintainer: Johannes Gussenbauer <Johannes.Gussenbauer@statistik.gv.at>
Diff between surveysd versions 1.2.0 dated 2020-02-05 and 1.3.0 dated 2020-12-10
DESCRIPTION | 11 - MD5 | 68 +++--- NAMESPACE | 2 NEWS.md | 55 ++--- R/calc.stError.R | 2 R/demo.eusilc.R | 8 R/draw.bootstrap.R | 23 +- R/helpers.R | 10 R/ipf.r | 253 +++++++++++++---------- R/kishFactor.R |only R/recalib.R | 16 + R/rescaled.bootstrap.R | 84 ++++--- README.md | 4 build/vignette.rds |binary inst/doc/error_estimation.R | 24 +- inst/doc/error_estimation.Rmd | 12 - inst/doc/error_estimation.html | 438 +++++++++++++++++++++-------------------- inst/doc/ipf.R | 28 +- inst/doc/ipf.Rmd | 6 inst/doc/ipf.html | 305 +++++++++++++++------------- inst/doc/methodology.R | 2 inst/doc/methodology.Rmd | 6 inst/doc/methodology.html | 49 +++- inst/doc/surveysd.R | 14 - inst/doc/surveysd.Rmd | 4 man/ipf.Rd | 7 man/kishFactor.Rd | 8 man/rescaled.bootstrap.Rd | 5 tests/testthat/Rplots.pdf |only tests/testthat/test_ipf.R | 71 ++++-- vignettes/error_estimation.Rmd | 12 - vignettes/ipf.Rmd | 6 vignettes/lib.bib | 9 vignettes/methodology.Rmd | 6 vignettes/surveysd.Rmd | 4 vignettes/surveysd.html | 175 ++++++++-------- 36 files changed, 936 insertions(+), 791 deletions(-)
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
Author: José Pinheiro [aut] (S version),
Douglas Bates [aut] (up to 2007),
Saikat DebRoy [ctb] (up to 2002),
Deepayan Sarkar [ctb] (up to 2005),
EISPACK authors [ctb] (src/rs.f),
Siem Heisterkamp [ctb] (Author fixed sigma),
Bert Van Willigen [ctb] (Programmer fixed sigma),
Johannes Ranke [ctb] (varConstProp()),
R-core [aut, cre]
Maintainer: R-core <R-core@R-project.org>
Diff between nlme versions 3.1-150 dated 2020-10-24 and 3.1-151 dated 2020-12-10
ChangeLog | 12 + DESCRIPTION | 10 - MD5 | 27 +-- NAMESPACE | 11 + R/corStruct.R | 26 ++- R/lme.R | 21 +- R/varFunc.R | 357 +++++++++++++++++++++++++++++++++++++++------- build |only man/Initialize.varFunc.Rd | 1 man/coef.varFunc.Rd | 2 man/corCompSymm.Rd | 3 man/summary.varFunc.Rd | 33 ++-- man/update.varFunc.Rd | 1 man/varClasses.Rd | 2 man/varConstProp.Rd |only tests/varConstProp.R |only 16 files changed, 405 insertions(+), 101 deletions(-)
Title: Model-Based Boosting
Description: Functional gradient descent algorithm
(boosting) for optimizing general risk functions utilizing
component-wise (penalised) least squares estimates or regression
trees as base-learners for fitting generalized linear, additive
and interaction models to potentially high-dimensional data.
Models and algorithms are described in \doi{10.1214/07-STS242},
a hands-on tutorial is available from \doi{10.1007/s00180-012-0382-5}.
The package allows user-specified loss functions and base-learners.
Author: Torsten Hothorn [cre, aut] (<https://orcid.org/0000-0001-8301-0471>),
Peter Buehlmann [aut] (<https://orcid.org/0000-0002-1782-6015>),
Thomas Kneib [aut] (<https://orcid.org/0000-0003-3390-0972>),
Matthias Schmid [aut] (<https://orcid.org/0000-0002-0788-0317>),
Benjamin Hofner [aut] (<https://orcid.org/0000-0003-2810-3186>),
Fabian Otto-Sobotka [ctb] (<https://orcid.org/0000-0002-9874-1311>),
Fabian Scheipl [ctb] (<https://orcid.org/0000-0001-8172-3603>),
Andreas Mayr [ctb] (<https://orcid.org/0000-0001-7106-9732>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mboost versions 2.9-3 dated 2020-08-06 and 2.9-4 dated 2020-12-10
mboost-2.9-3/mboost/README.md |only mboost-2.9-4/mboost/DESCRIPTION | 53 ++++++----- mboost-2.9-4/mboost/MD5 | 35 +++---- mboost-2.9-4/mboost/R/AAA.R | 24 ++-- mboost-2.9-4/mboost/R/btree.R | 42 +++++++- mboost-2.9-4/mboost/R/crossvalidation.R | 4 mboost-2.9-4/mboost/R/family.R | 1 mboost-2.9-4/mboost/build/partial.rdb |binary mboost-2.9-4/mboost/build/vignette.rds |binary mboost-2.9-4/mboost/inst/NEWS.Rd | 23 ++++ mboost-2.9-4/mboost/inst/doc/SurvivalEnsembles.pdf |binary mboost-2.9-4/mboost/inst/doc/mboost.pdf |binary mboost-2.9-4/mboost/inst/doc/mboost_illustrations.pdf |binary mboost-2.9-4/mboost/inst/doc/mboost_tutorial.R | 1 mboost-2.9-4/mboost/inst/doc/mboost_tutorial.pdf |binary mboost-2.9-4/mboost/man/baselearners.Rd | 5 - mboost-2.9-4/mboost/man/mboost_package.Rd | 13 +- mboost-2.9-4/mboost/vignettes/SurvivalEnsembles.Rout.save |only mboost-2.9-4/mboost/vignettes/mboost.Rout.save |only mboost-2.9-4/mboost/vignettes/mboost_illustrations.Rout.save |only mboost-2.9-4/mboost/vignettes/mboost_tutorial.Rout.save |only 21 files changed, 136 insertions(+), 65 deletions(-)
Title: Graphical Models with Latent Variables
Description: Three methods are provided to estimate graphical models with latent variables: (1) Jin, Y., Ning, Y., and Tan, K. M. (2020) (preprint available); (2) Chandrasekaran, V., Parrilo, P. A. & Willsky, A. S. (2012) <doi:10.1214/11-AOS949>; (3) Tan, K. M., Ning, Y., Witten, D. M. & Liu, H. (2016) <doi:10.1093/biomet/asw050>.
Author: Yanxin Jin, Samantha Yang, Kean Ming Tan
Maintainer: Yanxin Jin <yanxinj@umich.edu>
Diff between latentgraph versions 1.0 dated 2020-12-02 and 1.1 dated 2020-12-10
DESCRIPTION | 10 ++++---- MD5 | 20 ++++++++-------- R/corlatent.R | 20 ++++++++++++++-- R/generate_Gaussian.R | 2 - R/lvglasso.R | 6 ++-- R/semilatent.R | 9 ++++--- R/theta_squarematrix.R | 13 ---------- man/corlatent.Rd | 56 ++++++++++++++++++++-------------------------- man/generate_Gaussian.Rd | 57 +++++++++++++++++++---------------------------- man/lvglasso.Rd | 38 ++++++++++++------------------- man/semilatent.Rd | 38 ++++++++++++++----------------- 11 files changed, 125 insertions(+), 144 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 1.6.3 dated 2020-09-17 and 2.0.0 dated 2020-12-10
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Title: Statistics and Metrics for Seismic Data
Description: Classes and functions for metrics calculation as part of the
'IRIS DMC MUSTANG' project. The functionality in this package
builds upon the base classes of the 'IRISSeismic' package.
Metrics include basic statistics as well as higher level
'health' metrics that can help identify problematic seismometers.
Author: Jonathan Callahan [aut],
Rob Casey [aut],
Mary Templeton [aut],
Gillian Sharer [aut, cre]
Maintainer: Gillian Sharer <gillian@iris.washington.edu>
Diff between IRISMustangMetrics versions 2.4.2 dated 2020-10-01 and 2.4.3 dated 2020-12-10
DESCRIPTION | 6 MD5 | 18 +- R/BSSUtils.R | 277 ++++++++++++++++++++------------------ R/sampleRateRespMetric.R | 13 + man/IRISMustangMetrics-package.Rd | 18 +- man/dailyDCOffsetMetric.Rd | 4 man/getGeneralValueMetrics.Rd | 2 man/getMetricsXml.Rd | 5 man/getMustangMetrics.Rd | 9 - man/getSingleValueMetrics.Rd | 3 10 files changed, 199 insertions(+), 156 deletions(-)
More information about IRISMustangMetrics at CRAN
Permanent link
Title: Draw Gene Arrow Maps in 'ggplot2'
Description: Provides a 'ggplot2' geom and helper functions for drawing gene
arrow maps.
Author: David Wilkins [aut, cre],
Zachary Kurtz [ctb]
Maintainer: David Wilkins <david@wilkox.org>
Diff between gggenes versions 0.4.0 dated 2019-06-24 and 0.4.1 dated 2020-12-10
DESCRIPTION | 17 MD5 | 69 +- NEWS.md | 23 R/data.R | 9 R/expect_doppelganger.R |only R/geom_subgene_arrow.R | 11 README.md | 35 - build/vignette.rds |binary data/example_genes.rda |binary data/example_subgenes.rda |binary inst/WORDLIST |only inst/doc/introduction-to-gggenes.R | 25 - inst/doc/introduction-to-gggenes.Rmd | 31 - inst/doc/introduction-to-gggenes.html | 234 ++++++---- man/example_genes.Rd | 15 man/figures/README-geom_gene_arrow-1.png |binary man/figures/README-labelled_genes-1.png |binary man/figures/README-make_alignment_dummies-1.png |binary man/figures/README-reversing_direction-1.png |binary man/figures/README-subgene_labels-1.png |binary man/figures/README-subgenes-1.png |binary man/figures/README-theme_genes-1.png |binary man/geom_gene_arrow.Rd | 16 man/geom_gene_label.Rd | 23 man/geom_subgene_arrow.Rd | 16 man/geom_subgene_label.Rd | 23 man/gggenes.Rd | 1 tests/figs/deps.txt | 2 tests/figs/visual-tests-of-plots/plot-using-forward-aesthetic.svg | 22 tests/figs/visual-tests-of-plots/plot-with-geom-gene-label.svg | 170 +++---- tests/figs/visual-tests-of-plots/plot-with-labelled-subgenes.svg | 10 tests/figs/visual-tests-of-plots/plot-with-make-alignment-dummies.svg | 40 - tests/figs/visual-tests-of-plots/plot-with-subgenes.svg | 40 - tests/figs/visual-tests-of-plots/plot-with-theme-genes.svg | 40 - tests/spelling.R |only tests/testthat/test-plots.R | 14 vignettes/introduction-to-gggenes.Rmd | 31 - 37 files changed, 510 insertions(+), 407 deletions(-)
Title: Unified Parallel and Distributed Processing in R for Everyone
Description: The purpose of this package is to provide a lightweight and
unified Future API for sequential and parallel processing of R
expression via futures. The simplest way to evaluate an expression
in parallel is to use `x %<-% { expression }` with `plan(multiprocess)`.
This package implements sequential, multicore, multisession, and
cluster futures. With these, R expressions can be evaluated on the
local machine, in parallel a set of local machines, or distributed
on a mix of local and remote machines.
Extensions to this package implement additional backends for
processing futures via compute cluster schedulers etc.
Because of its unified API, there is no need to modify any code in order
switch from sequential on the local machine to, say, distributed
processing on a remote compute cluster.
Another strength of this package is that global variables and functions
are automatically identified and exported as needed, making it
straightforward to tweak existing code to make use of futures.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between future versions 1.20.1 dated 2020-11-03 and 1.21.0 dated 2020-12-10
DESCRIPTION | 6 MD5 | 95 +++---- NAMESPACE | 11 NEWS | 43 +++ R/000.re-exports.R | 13 R/ClusterFuture-class.R | 10 R/Future-class.R | 12 R/FutureCondition-class.R | 51 +++ R/MulticoreFuture-class.R | 4 R/UniprocessFuture-class.R | 21 + R/nbrOfWorkers.R | 115 ++++++++ R/rng.R | 80 ++++- R/signalEarly.R | 2 R/utils-immediateCondition.R | 15 - R/utils.R | 38 -- R/value.R | 21 + R/zzz.R | 1 build/vignette.rds |binary inst/doc/future-1-overview.html | 82 +++--- inst/doc/future-1-overview.md.rsp | 82 +++--- inst/doc/future-3-topologies.html | 12 inst/doc/future-3-topologies.md.rsp | 13 inst/doc/future-4-non-exportable-objects.html | 66 ++++ inst/doc/future-4-non-exportable-objects.md.rsp | 64 ++++ inst/doc/future-6-future-api-backend-specification.html | 14 - inst/doc/future-6-future-api-backend-specification.md.rsp | 14 - inst/vignettes-static/future-1-overview.md.rsp.rsp | 4 man/Future-class.Rd | 3 man/FutureCondition.Rd | 9 man/as_lecyer_cmrg_seed.Rd |only man/cluster.Rd | 2 man/future.Rd | 3 man/grapes-seed-grapes.Rd | 3 man/nbrOfWorkers.Rd | 16 + man/remote.Rd | 4 tests/backtrace.R | 2 tests/futureAssign.R | 4 tests/futures.R | 2 tests/immediateCondition.R | 176 +++++++++---- tests/incl/start,load-only.R | 20 - tests/nbrOfWorkers.R | 2 tests/resolved-non-blocking-test.R | 2 tests/rng.R | 50 +++ tests/startup.R | 2 tests/tweak.R | 14 - vignettes/future-1-overview.md.rsp | 82 +++--- vignettes/future-3-topologies.md.rsp | 13 vignettes/future-4-non-exportable-objects.md.rsp | 64 ++++ vignettes/future-6-future-api-backend-specification.md.rsp | 14 - 49 files changed, 990 insertions(+), 386 deletions(-)
More information about EstimDiagnostics at CRAN
Permanent link
Title: Collection of Rudimentary Bioinformatics Tools
Description: Provides a bundle of basic and fundamental bioinformatics tools,
such as network querying and alignment, subnetwork extraction and search,
network biomarker identification.
Author: Ling-Yun Wu [aut, cre],
Qiang Huang [aut],
Duanchen Sun [aut]
Maintainer: Ling-Yun Wu <wulingyun@gmail.com>
Diff between Corbi versions 0.6-0 dated 2020-06-13 and 0.6-1 dated 2020-12-10
DESCRIPTION | 18 +++++++++--------- MD5 | 8 ++++---- R/markrank.R | 14 +++++++++++--- build/vignette.rds |binary inst/doc/MarkRank.pdf |binary 5 files changed, 24 insertions(+), 16 deletions(-)
Title: Statistical Methods for Composite Material Data
Description: An implementation of the statistical methods commonly
used for advanced composite materials in aerospace applications.
This package focuses on calculating basis values (lower tolerance
bounds) for material strength properties, as well as performing the
associated diagnostic tests. This package provides functions for
calculating basis values assuming several different distributions,
as well as providing functions for non-parametric methods of computing
basis values. Functions are also provided for testing the hypothesis
that there is no difference between strength and modulus data from an
alternate sample and that from a "qualification" or "baseline" sample.
For a discussion of these statistical methods and their use, see the
Composite Materials Handbook, Volume 1 (2012, ISBN: 978-0-7680-7811-4).
Additional details about this package are available in the paper by
Kloppenborg (2020, <doi:10.21105/joss.02265>).
Author: Stefan Kloppenborg [aut, cre],
Billy Cheng [ctb],
Ally Fraser [ctb]
Maintainer: Stefan Kloppenborg <stefan@kloppenborg.ca>
Diff between cmstatr versions 0.7.0 dated 2020-07-13 and 0.7.1 dated 2020-12-10
DESCRIPTION | 16 MD5 | 168 NAMESPACE | 166 NEWS.md | 145 R/adk.R | 420 - R/adtest.R | 612 +- R/basis.R | 3156 +++++------ R/checks.R | 146 R/cmstatr.R | 12 R/cv.R | 76 R/data.R | 30 R/equiv.R | 1877 +++--- R/generics.R | 28 R/levene.R | 458 - R/mnr.R | 600 +- R/norm.R | 790 +- R/plotting.R | 212 R/util.R | 78 R/verifytidy.R | 54 README.md | 268 build/vignette.rds |binary inst/CITATION | 34 inst/WORDLIST | 78 inst/doc/adktest.R | 12 inst/doc/adktest.Rmd | 160 inst/doc/adktest.html | 658 +- inst/doc/cmstatr_Graphing.R | 353 - inst/doc/cmstatr_Graphing.Rmd | 667 +- inst/doc/cmstatr_Graphing.html | 1203 ++-- inst/doc/cmstatr_Tutorial.R | 411 - inst/doc/cmstatr_Tutorial.Rmd | 893 +-- inst/doc/cmstatr_Tutorial.html | 1340 ++-- inst/extdata/k1.vangel.csv | 32 inst/extdata/k2.vangel.csv | 32 man/ad_ksample.Rd | 170 man/anderson_darling.Rd | 244 man/basis.Rd | 818 +- man/calc_cv_star.Rd | 88 man/carbon.fabric.Rd | 48 man/cmstatr-package.Rd | 62 man/cv.Rd | 82 man/equiv_change_mean.Rd | 314 - man/equiv_mean_extremum.Rd | 342 - man/glance.adk.Rd | 100 man/glance.anderson_darling.Rd | 104 man/glance.basis.Rd | 164 man/glance.equiv_change_mean.Rd | 166 man/glance.equiv_mean_extremum.Rd | 136 man/glance.levene.Rd | 106 man/glance.mnr.Rd | 92 man/hk_ext.Rd | 198 man/k_equiv.Rd | 178 man/k_factor_normal.Rd | 182 man/levene_test.Rd | 158 man/maximum_normed_residual.Rd | 182 man/nonpara_binomial_rank.Rd | 154 man/normalize_group_mean.Rd | 102 man/normalize_ply_thickness.Rd | 140 man/stat_esf.Rd | 94 man/stat_normal_surv_func.Rd | 96 man/transform_mod_cv.Rd | 254 tests/figs/deps.txt | 6 tests/figs/plotting/stat-esf.svg | 190 tests/figs/plotting/stat-normal-surv-func-and-stat-esf.svg | 2538 ++++---- tests/figs/plotting/stat-normal-surv-func.svg | 120 tests/spelling.R | 4 tests/testthat.R | 8 tests/testthat/test-adk.R | 431 - tests/testthat/test-adtest.R | 516 - tests/testthat/test-basis.R | 3700 ++++++------- tests/testthat/test-checks.R | 134 tests/testthat/test-cv.R | 18 tests/testthat/test-equiv.R | 904 +-- tests/testthat/test-levene.R | 426 - tests/testthat/test-lintr.R | 18 tests/testthat/test-mnr.R | 804 +- tests/testthat/test-normalize.R | 312 - tests/testthat/test-plotting.R | 82 tests/testthat/test-verifytidy.R | 98 tests/testthat/test-workflow.R | 1416 ++-- vignettes/adktest.Rmd | 160 vignettes/bibliography.json | 90 vignettes/cmstatr_Graphing.Rmd | 667 +- vignettes/cmstatr_Tutorial.Rmd | 893 +-- vignettes/ieee.csl | 706 +- 85 files changed, 17182 insertions(+), 17018 deletions(-)
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