Title: Early Detection of Public Health Threats from Twitter Data
Description: It allows you to automatically monitor trends of tweets by time, place and topic aiming at detecting public health threats early through the detection of signals (e.g. an unusual increase in the number of tweets). It was designed to focus on infectious diseases, and it can be extended to all hazards or other fields of study by modifying the topics and keywords.
Author: Francisco Orchard [aut, ctr] (<https://orcid.org/0000-0001-5793-3301>,
Author of the package and original code),
Laura Espinosa [aut, cre, fnd]
(<https://orcid.org/0000-0003-0748-9657>, Project manager, author
of the design and concept of the package, and package maintainer),
Ariana Wijermans [ctb] (Contributor to the design and concept of the
package),
Thomas Mollet [ctb, fnd] (Business owner of the project, and
contributor to the design and concept of the package),
Adrian Prodan [ctb],
Thomas Czernichow [ctb],
Maria Prieto Gonzalez [ctb],
Esther Kissling [ctb],
Michael Höhle [ctb]
Maintainer: Laura Espinosa <laura.espinosa@ecdc.europa.eu>
Diff between epitweetr versions 0.1.24 dated 2020-10-23 and 0.1.28 dated 2021-04-08
DESCRIPTION | 7 MD5 | 16 R/config.R | 2 build/vignette.rds |binary inst/doc/epitweetr-vignette.Rmd | 12 inst/doc/epitweetr-vignette.html | 1745 +++++++++++++-------------- inst/extdata/topics.xlsx |binary java/ecdc-twitter-bundle_2.12-1.0-source.zip |binary vignettes/epitweetr-vignette.Rmd | 12 9 files changed, 868 insertions(+), 926 deletions(-)
Title: Variable Table for Variable Documentation
Description: Automatically generates HTML variable documentation including variable names, labels, classes, value labels (if applicable), value ranges, and summary statistics. See the vignette "vtable" for a package overview.
Author: Nick Huntington-Klein [aut, cre]
Maintainer: Nick Huntington-Klein <nhuntington-klein@seattleu.edu>
Diff between vtable versions 1.2.7 dated 2021-03-01 and 1.3.1 dated 2021-04-08
DESCRIPTION | 9 MD5 | 45 +- NAMESPACE | 1 R/dftotable.R | 8 R/helpers.R | 59 +++ R/independencetest.R | 53 ++- R/sumtable.R | 123 ++++++- R/vtable.R | 5 build/vignette.rds |binary inst/doc/dftotable.html | 299 +++-------------- inst/doc/labeltable.html | 468 +--------------------------- inst/doc/sumtable.R | 2 inst/doc/sumtable.Rmd | 10 inst/doc/sumtable.html | 649 +++++++-------------------------------- inst/doc/vtable.html | 200 ------------ inst/doc/vtablefunction.html | 715 +++++++++---------------------------------- inst/doc/vtablehelpers.R | 9 inst/doc/vtablehelpers.Rmd | 22 + inst/doc/vtablehelpers.html | 286 +++-------------- man/independence.test.Rd | 5 man/sumtable.Rd | 8 man/weighted.sd.Rd |only vignettes/sumtable.Rmd | 10 vignettes/vtablehelpers.Rmd | 22 + 24 files changed, 737 insertions(+), 2271 deletions(-)
Title: Thresholded Partial Least Squares Model for Neuroimaging Data
Description: Uses thresholded partial least squares algorithm to create a regression or classification model. For more information, see Lee, Bradlow, and Kable <doi:10.1101/2021.02.09.430524>.
Author: Sangil Lee [aut, cre]
Maintainer: Sangil Lee <sangillee3rd@gmail.com>
Diff between TPLSr versions 1.0.1 dated 2020-11-02 and 1.0.3 dated 2021-04-08
DESCRIPTION | 11 ++++++----- MD5 | 6 +++--- NEWS.md | 12 ++++++++++++ README.md | 10 ++++++++-- 4 files changed, 29 insertions(+), 10 deletions(-)
Title: Computation of Variance-Based Sensitivity Indices
Description: It allows to rapidly compute, bootstrap and plot up to third-order Sobol'-based sensitivity indices using several state-of-the-art first and total-order estimators. Sobol' indices can be computed either for models that yield a scalar as a model output or for systems of differential equations. The package also provides a suit of benchmark tests functions and several options to obtain publication-ready figures of the model output uncertainty and sensitivity-related analysis. An overview of Sobol'-based sensitivity indices can be found in Saltelli et al. (2008, ISBN:9780470059975) and in Puy, Lo Piano, Saltelli, and Levin (2021) <arXiv:2101.10103>.
Author: Arnald Puy [aut, cre] (<https://orcid.org/0000-0001-9469-2156>),
Bertrand Ioos [ctb] (Author of included 'sensitivity' fragments),
Gilles Pujol [ctb] (Author of included 'sensitivity' fragments),
RStudio [cph] (Copyright holder of included 'sensitivity' fragments)
Maintainer: Arnald Puy <arnald.puy@pm.me>
Diff between sensobol versions 1.0.0 dated 2021-01-26 and 1.0.1 dated 2021-04-08
DESCRIPTION | 9 +- MD5 | 37 ++++++----- NAMESPACE | 3 NEWS.md | 8 ++ R/plot_sobol.R | 132 +++++++++++++++++++++++++++++++++++++++- R/sobol_indices.R | 67 ++++++++++++++------ R/sobol_matrices.R | 24 +++---- R/sobol_ode.R | 2 R/test_functions.R | 35 ++++++---- R/vars_matrices.R | 10 +++ R/vars_to.R | 50 ++++++++++++--- README.md | 18 +++-- build/partial.rdb |binary inst/doc/sensobol.pdf |binary man/plot.sensobol.Rd |only man/plot_sobol.Rd | 21 ------ man/print.sensobol.Rd |only man/print.vars.Rd |only man/sobol_indices.Rd | 2 man/vars_to.Rd | 1 vignettes/sensobol_vignette.pdf |binary 21 files changed, 312 insertions(+), 107 deletions(-)
Title: Select and Download Climate Data from 'DWD' (German Weather
Service)
Description: Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see
<https://www.dwd.de/EN/climate_environment/cdc/cdc_node_en.html> for more information).
Choose observational time series from meteorological stations with 'selectDWD()'.
Find raster data from radar and interpolation according to <https://bookdown.org/brry/rdwd/raster-data.html>.
Download (multiple) data sets with progress bars and no re-downloads through 'dataDWD()'.
Read both tabular observational data and binary gridded datasets with 'readDWD()'.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between rdwd versions 1.4.0 dated 2020-08-01 and 1.5.0 dated 2021-04-08
DESCRIPTION | 12 - MD5 | 115 ++++++------- NAMESPACE | 1 NEWS | 37 ++++ R/addBorders.R | 23 +- R/createIndex.R | 5 R/dataDWD.R | 13 - R/dirDWD.R | 2 R/fileType.R | 10 - R/index.R | 2 R/indexFTP.R | 7 R/nearbyStations.R | 3 R/plotRadar.R | 7 R/projectRasterDWD.R | 9 - R/rdwd-package.R | 3 R/readDWD.R | 156 +++++++++++++---- R/readVars.R | 417 +++++++++++++++++------------------------------- R/runLocalTests.R | 42 ++-- R/selectDWD.R | 4 R/updateIndexes.R | 23 +- R/updateRdwd.R | 9 - R/zzz.R | 8 README.md | 8 build/vignette.rds |binary data/fileIndex.rda |binary data/formatIndex.rda |binary data/geoIndex.rda |binary data/gridIndex.rda |binary data/metaIndex.rda |binary inst/doc/rdwd.html | 222 +------------------------ inst/extdata/DEU.rda |binary inst/extdata/EUR.rda |binary man/DEU.Rd | 17 + man/EUR.Rd | 3 man/addBorders.Rd | 3 man/createIndex.Rd | 3 man/dataDWD.Rd | 11 - man/dwdbase.Rd | 8 man/dwdparams.Rd | 2 man/fileType.Rd | 3 man/index.Rd | 2 man/indexFTP.Rd | 3 man/nearbyStations.Rd | 3 man/plotRadar.Rd | 6 man/projectRasterDWD.Rd | 7 man/rdwd.Rd | 3 man/readDWD.Rd | 2 man/readDWD.data.Rd | 8 man/readDWD.grib2.Rd |only man/readDWD.meta.Rd | 2 man/readDWD.multia.Rd | 2 man/readDWD.nc.Rd | 3 man/readDWD.radar.Rd | 13 - man/readDWD.raster.Rd | 2 man/readDWD.stand.Rd | 2 man/readVars.Rd | 9 - man/selectDWD.Rd | 2 man/updateIndexes.Rd | 8 man/updateRdwd.Rd | 2 59 files changed, 558 insertions(+), 709 deletions(-)
Title: Precision Based Sample Size Calculation
Description: Bland (2009) <doi:10.1136/bmj.b3985> recommended to
base study sizes on the width of the confidence interval rather the power of
a statistical test. The goal of 'presize' is to provide functions for such
precision based sample size calculations. For a given sample size, the
functions will return the precision (width of the confidence interval), and
vice versa.
Author: Armando Lenz [aut],
Alan G. Haynes [cre, aut],
Andreas Limacher [aut],
Odile Stalder [ctb]
Maintainer: Alan G. Haynes <alan.haynes@ctu.unibe.ch>
Diff between presize versions 0.1.3 dated 2020-09-02 and 0.2.3 dated 2021-04-08
presize-0.1.3/presize/inst/fig/scto_ctu_member_cmyk.jpg |only presize-0.2.3/presize/DESCRIPTION | 16 presize-0.2.3/presize/MD5 | 116 - presize-0.2.3/presize/NAMESPACE | 3 presize-0.2.3/presize/NEWS.md | 30 presize-0.2.3/presize/R/correlation_measures.R | 82 presize-0.2.3/presize/R/descriptive_stats.R | 99 - presize-0.2.3/presize/R/diagnostic.R | 59 presize-0.2.3/presize/R/differences.R | 180 +- presize-0.2.3/presize/R/helper_functions.R | 10 presize-0.2.3/presize/R/presize-package.R |only presize-0.2.3/presize/R/shinyApp.R | 19 presize-0.2.3/presize/build |only presize-0.2.3/presize/inst/extdata/baplotdata | 66 presize-0.2.3/presize/inst/fig/SCTO_Platform_Logo_2020_RZ_SM.jpg |only presize-0.2.3/presize/inst/fig/SCTO_Platform_Logo_2020_RZ_SM.png |only presize-0.2.3/presize/inst/shinyApp/app.R | 174 ++ presize-0.2.3/presize/inst/shinyApp/ui/00_helppage.R | 22 presize-0.2.3/presize/inst/shinyApp/ui/01_mean.R | 87 - presize-0.2.3/presize/inst/shinyApp/ui/02_proportion.R | 103 - presize-0.2.3/presize/inst/shinyApp/ui/03_rate.R | 115 - presize-0.2.3/presize/inst/shinyApp/ui/04_meandiff.R | 113 - presize-0.2.3/presize/inst/shinyApp/ui/05_riskdiff.R | 127 - presize-0.2.3/presize/inst/shinyApp/ui/06_oddsratio.R | 113 - presize-0.2.3/presize/inst/shinyApp/ui/07_riskratio.R | 113 - presize-0.2.3/presize/inst/shinyApp/ui/08_rateratio.R | 98 - presize-0.2.3/presize/inst/shinyApp/ui/09_corcoef.R | 96 - presize-0.2.3/presize/inst/shinyApp/ui/10_icc.R | 86 - presize-0.2.3/presize/inst/shinyApp/ui/11_limitagreement.R | 85 - presize-0.2.3/presize/inst/shinyApp/ui/12_cohenskappa.R | 103 - presize-0.2.3/presize/inst/shinyApp/ui/13_sensitivity.R | 16 presize-0.2.3/presize/inst/shinyApp/ui/14_specificity.R | 16 presize-0.2.3/presize/inst/shinyApp/ui/15_auc.R | 93 - presize-0.2.3/presize/inst/shinyApp/ui/16_lr.R | 115 - presize-0.2.3/presize/inst/shinyApp/ui/17_lrpos.R | 105 - presize-0.2.3/presize/inst/shinyApp/ui/18_lrneg.R | 105 - presize-0.2.3/presize/inst/shinyApp/ui/99_helpers.R | 118 - presize-0.2.3/presize/inst/shinyApp/www/SCTO_Platform_Logo_2020_RZ_SM.jpg |only presize-0.2.3/presize/man/figures |only presize-0.2.3/presize/man/launch_presize_app.Rd | 14 presize-0.2.3/presize/man/prec_auc.Rd | 96 - presize-0.2.3/presize/man/prec_cor.Rd | 18 presize-0.2.3/presize/man/prec_icc.Rd | 2 presize-0.2.3/presize/man/prec_kappa.Rd | 3 presize-0.2.3/presize/man/prec_lim_agree.Rd | 10 presize-0.2.3/presize/man/prec_lr.Rd | 2 presize-0.2.3/presize/man/prec_mean.Rd | 6 presize-0.2.3/presize/man/prec_meandiff.Rd | 3 presize-0.2.3/presize/man/prec_or.Rd | 20 presize-0.2.3/presize/man/prec_prop.Rd | 10 presize-0.2.3/presize/man/prec_rate.Rd | 14 presize-0.2.3/presize/man/prec_rateratio.Rd | 5 presize-0.2.3/presize/man/prec_riskdiff.Rd | 8 presize-0.2.3/presize/man/prec_riskratio.Rd | 156 - presize-0.2.3/presize/man/presize-package.Rd |only presize-0.2.3/presize/man/sensspec.Rd | 2 presize-0.2.3/presize/tests/presize.R | 8 presize-0.2.3/presize/tests/testthat/test-correlation_measures.R | 214 +- presize-0.2.3/presize/tests/testthat/test-descriptive_stats.R | 2 presize-0.2.3/presize/tests/testthat/test-diagnostic.R | 372 ++-- presize-0.2.3/presize/tests/testthat/test-differences.R | 848 +++++----- presize-0.2.3/presize/tests/testthat/test-helpers.R | 68 presize-0.2.3/presize/tests/testthat/test-vectorized.R |only 63 files changed, 2579 insertions(+), 1985 deletions(-)
Title: Dirichlet Process Bayesian Clustering, Profile Regression
Description: Bayesian clustering using a Dirichlet process mixture model. This model is an alternative to regression models, non-parametrically linking a response vector to covariate data through cluster membership. The package allows Bernoulli, Binomial, Poisson, Normal, survival and categorical response, as well as Normal and discrete covariates. It also allows for fixed effects in the response model, where a spatial CAR (conditional autoregressive) term can be also included. Additionally, predictions may be made for the response, and missing values for the covariates are handled. Several samplers and label switching moves are implemented along with diagnostic tools to assess convergence. A number of R functions for post-processing of the output are also provided. In addition to fitting mixtures, it may additionally be of interest to determine which covariates actively drive the mixture components. This is implemented in the package as variable selection. The main reference for the package is Liverani, Hastie, Azizi, Papathomas and Richardson (2015) <doi:10.18637/jss.v064.i07>.
Author: David I. Hastie, Silvia Liverani <liveranis@gmail.com> and Sylvia Richardson with contributions from Aurore J. Lavigne, Lucy Leigh, Lamiae Azizi, Xi Liu, Ruizhu Huang, Austin Gratton, Wei Jing
Maintainer: Silvia Liverani <liveranis@gmail.com>
Diff between PReMiuM versions 3.2.3 dated 2019-11-02 and 3.2.5 dated 2021-04-08
ChangeLog | 7 ++++++- DESCRIPTION | 14 +++++++------- MD5 | 11 ++++++----- NAMESPACE | 1 - R/generateData.R | 42 ++++++++++++++++++++++++++++++++++++++++++ inst/CITATION | 2 +- man/rALD.Rd |only 7 files changed, 62 insertions(+), 15 deletions(-)
Title: Calculate (Stratified) Percentiles
Description: Calculate (stratified) percentiles on a data.frame
Stratification will split the data.frame into subgroups and calculate percentiles for each independently.
Author: J. Peter Marquardt <peter@kmarquardt.de> [aut, cre]
Maintainer: J. Peter Marquardt <peter@kmarquardt.de>
Diff between percentiles versions 0.2.1 dated 2021-02-15 and 0.2.2 dated 2021-04-08
DESCRIPTION | 9 ++++----- MD5 | 10 +++++----- NAMESPACE | 1 + R/Stratified_percentile_calculator.R | 1 + R/calculate_percentiles.R | 8 ++++++-- man/calculate_stratified_percentiles.Rd | 7 +++++-- 6 files changed, 22 insertions(+), 14 deletions(-)
Title: Processing of Model Parameters
Description: Utilities for processing the parameters of various
statistical models. Beyond computing p values, CIs, and other indices
for a wide variety of models (see support list of insight; Lüdecke,
Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), this package
implements features like bootstrapping or simulating of parameters and
models, feature reduction (feature extraction and variable selection)
as well as functions to describe data and variable characteristics
(e.g. skewness, kurtosis, smoothness or distribution).
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>,
@strengejacke),
Dominique Makowski [aut] (<https://orcid.org/0000-0001-5375-9967>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [aut] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Søren Højsgaard [aut],
Zen J. Lau [ctb],
Vincent Arel-Bundock [ctb] (<https://orcid.org/0000-0003-1995-6531>,
@vincentab),
Jeffrey Girard [ctb] (<https://orcid.org/0000-0002-7359-3746>,
@jeffreymgirard)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between parameters versions 0.12.0 dated 2021-02-21 and 0.13.0 dated 2021-04-08
parameters-0.12.0/parameters/R/standardize_names.R |only parameters-0.13.0/parameters/DESCRIPTION | 37 parameters-0.13.0/parameters/MD5 | 388 ++-- parameters-0.13.0/parameters/NAMESPACE | 42 parameters-0.13.0/parameters/NEWS.md | 157 + parameters-0.13.0/parameters/R/1_model_parameters.R | 77 parameters-0.13.0/parameters/R/2_ci.R | 1 parameters-0.13.0/parameters/R/3_p_value.R | 1 parameters-0.13.0/parameters/R/5_simulate_model.R | 7 parameters-0.13.0/parameters/R/bootstrap_model-emmeans.R | 15 parameters-0.13.0/parameters/R/bootstrap_model.R | 38 parameters-0.13.0/parameters/R/bootstrap_parameters.R | 7 parameters-0.13.0/parameters/R/center.R | 6 parameters-0.13.0/parameters/R/check_factorstructure.R | 79 parameters-0.13.0/parameters/R/ci_kenward.R | 20 parameters-0.13.0/parameters/R/ci_ml1.R | 9 parameters-0.13.0/parameters/R/ci_profile_boot.R | 3 parameters-0.13.0/parameters/R/ci_wald.R | 1 parameters-0.13.0/parameters/R/compare_parameters.R | 32 parameters-0.13.0/parameters/R/describe_distribution.R | 45 parameters-0.13.0/parameters/R/display.R | 9 parameters-0.13.0/parameters/R/dof.R | 4 parameters-0.13.0/parameters/R/equivalence_test.R | 113 - 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Title: Datasets, Functions and Scripts for Semiparametric Regression
Supporting Harezlak, Ruppert & Wand (2018)
Description: The book "Semiparametric Regression with R" by J. Harezlak, D. Ruppert & M.P. Wand (2018, Springer; ISBN: 978-1-4939-8851-8) makes use of datasets and scripts to explain semiparametric regression concepts. Each of the book's scripts are contained in this package as well as datasets that are not within other R packages. Functions that aid semiparametric regression analysis are also included.
Author: Jaroslaw Harezlak [aut],
David Ruppert [aut],
Matt P. Wand [aut, cre]
Maintainer: Matt P. Wand <matt.wand@uts.edu.au>
Diff between HRW versions 1.0-3 dated 2019-02-11 and 1.0-4 dated 2021-04-08
HRW-1.0-3/HRW/data/datalist |only HRW-1.0-4/HRW/DESCRIPTION | 12 ++-- HRW-1.0-4/HRW/MD5 | 69 +++++++++++++--------------- HRW-1.0-4/HRW/data/BCR.rda |binary HRW-1.0-4/HRW/data/BanglaContrac.rda |binary HRW-1.0-4/HRW/data/BostonMortgages.rda |binary HRW-1.0-4/HRW/data/CHD.rda |binary HRW-1.0-4/HRW/data/SydneyRealEstate.rda |binary HRW-1.0-4/HRW/data/SydneyRealEstateBdry.rda |binary HRW-1.0-4/HRW/data/TreasuryRate.rda |binary HRW-1.0-4/HRW/data/UtahPEF.rda |binary HRW-1.0-4/HRW/data/WarsawApts.rda |binary HRW-1.0-4/HRW/data/brainImage.rda |binary HRW-1.0-4/HRW/data/capm.rda |binary HRW-1.0-4/HRW/data/carAuction.rda |binary HRW-1.0-4/HRW/data/coral.rda |binary HRW-1.0-4/HRW/data/femSBMD.rda |binary HRW-1.0-4/HRW/data/growthIndiana.rda |binary HRW-1.0-4/HRW/data/indonRespir.rda |binary HRW-1.0-4/HRW/data/lidar.rda |binary HRW-1.0-4/HRW/data/ozoneSub.rda |binary HRW-1.0-4/HRW/data/plankton.rda |binary HRW-1.0-4/HRW/data/protein.rda |binary HRW-1.0-4/HRW/data/ragweed.rda |binary HRW-1.0-4/HRW/data/scallop.rda |binary HRW-1.0-4/HRW/data/schoolResults.rda |binary HRW-1.0-4/HRW/data/yields.rda |binary HRW-1.0-4/HRW/demo/BostMortFacByCurv.R | 11 ++-- HRW-1.0-4/HRW/demo/BostMortGAMfit.R | 9 ++- HRW-1.0-4/HRW/demo/carAucRadialSVM.R | 4 - HRW-1.0-4/HRW/demo/ozoneAna.R | 2 HRW-1.0-4/HRW/man/BostonMortgages.Rd | 5 +- HRW-1.0-4/HRW/man/WarsawApts.Rd | 4 - HRW-1.0-4/HRW/man/carAuction.Rd | 4 - HRW-1.0-4/HRW/man/plankton.Rd | 2 HRW-1.0-4/HRW/man/ragweed.Rd | 2 36 files changed, 64 insertions(+), 60 deletions(-)
Title: Residual Diagnostics for Hierarchical (Multi-Level / Mixed)
Regression Models
Description: The 'DHARMa' package uses a simulation-based approach to create
readily interpretable scaled (quantile) residuals for fitted (generalized) linear mixed
models. Currently supported are linear and generalized linear (mixed) models from 'lme4'
(classes 'lmerMod', 'glmerMod'), 'glmmTMB' 'GLMMadaptive' and 'spaMM', generalized additive models
('gam' from 'mgcv'), 'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and
'lm' model classes. Moreover, externally created simulations, e.g. posterior predictive simulations
from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well.
The resulting residuals are standardized to values between 0 and 1 and can be interpreted
as intuitively as residuals from a linear regression. The package also provides a number of
plot and test functions for typical model misspecification problems, such as
over/underdispersion, zero-inflation, and residual spatial and temporal autocorrelation.
Author: Florian Hartig [aut, cre] (<https://orcid.org/0000-0002-6255-9059>),
Lukas Lohse [ctb]
Maintainer: Florian Hartig <florian.hartig@biologie.uni-regensburg.de>
Diff between DHARMa versions 0.4.0 dated 2021-03-28 and 0.4.1 dated 2021-04-08
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 8 ++++++++ R/simulateResiduals.R | 9 ++++++--- R/tests.R | 6 +++++- inst/doc/DHARMa.html | 8 ++++---- inst/doc/DHARMaForBayesians.html | 4 ++-- man/simulateResiduals.Rd | 2 +- 8 files changed, 37 insertions(+), 22 deletions(-)
Title: R Interface to 'FishBase'
Description: A programmatic interface to 'FishBase', re-written
based on an accompanying 'RESTful' API. Access tables describing over 30,000
species of fish, their biology, ecology, morphology, and more. This package also
supports experimental access to 'SeaLifeBase' data, which contains
nearly 200,000 species records for all types of aquatic life not covered by
'FishBase.'
Author: Carl Boettiger [cre, aut] (<https://orcid.org/0000-0002-1642-628X>),
Scott Chamberlain [aut] (<https://orcid.org/0000-0003-1444-9135>),
Duncan Temple Lang [aut],
Peter Wainwright [aut],
Kevin Cazelles [ctb] (<https://orcid.org/0000-0001-6619-9874>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between rfishbase versions 3.1.6 dated 2021-02-10 and 3.1.7 dated 2021-04-08
DESCRIPTION | 9 +++++---- MD5 | 22 +++++++++++----------- NAMESPACE | 2 +- NEWS.md | 5 +++++ R/00-endpoint.R | 4 ++-- R/load_taxa.R | 7 +++---- R/refs.R | 15 +++++---------- R/species.R | 3 --- R/synonyms.R | 14 +++++++++----- inst/doc/rfishbase.html | 9 ++++++++- tests/testthat/test-db_create.R | 2 +- tests/testthat/test_endpoint.R | 3 +++ 12 files changed, 53 insertions(+), 42 deletions(-)
Title: Learn Computer and Data Science using Algorithmic Trading
Description: Provide sets of functions and methods to learn and practice data science using idea of algorithmic trading.
Main goal is to process information within "Decision Support System" to come up with analysis or predictions.
There are several utilities such as dynamic and adaptive risk management using reinforcement learning
and even functions to generate predictions of price changes using pattern recognition deep regression learning.
Summary of Methods used: Awesome H2O tutorials: <https://github.com/h2oai/awesome-h2o>,
Market Type research of Van Tharp Institute: <https://www.vantharp.com/>,
Reinforcement Learning R package: <https://CRAN.R-project.org/package=ReinforcementLearning>.
Author: Vladimir Zhbanko
Maintainer: Vladimir Zhbanko <vladimir.zhbanko@gmail.com>
Diff between lazytrade versions 0.4.5 dated 2021-03-15 and 0.5.1 dated 2021-04-08
lazytrade-0.4.5/lazytrade/R/load_asset_data.R |only lazytrade-0.4.5/lazytrade/man/load_asset_data.Rd |only lazytrade-0.5.1/lazytrade/DESCRIPTION | 6 lazytrade-0.5.1/lazytrade/MD5 | 56 - lazytrade-0.5.1/lazytrade/NAMESPACE | 2 lazytrade-0.5.1/lazytrade/NEWS.md | 30 - lazytrade-0.5.1/lazytrade/R/aml_collect_data.R | 47 + lazytrade-0.5.1/lazytrade/R/aml_consolidate_results.R | 10 lazytrade-0.5.1/lazytrade/R/aml_make_model.R | 297 +++++++--- lazytrade-0.5.1/lazytrade/R/aml_score_data.R | 10 lazytrade-0.5.1/lazytrade/R/aml_simulation.R |only lazytrade-0.5.1/lazytrade/R/create_transposed_data.R | 2 lazytrade-0.5.1/lazytrade/R/mt_import_data.R | 2 lazytrade-0.5.1/lazytrade/R/mt_make_model.R | 2 lazytrade-0.5.1/lazytrade/R/mt_stat_evaluate.R | 2 lazytrade-0.5.1/lazytrade/R/opt_aggregate_results.R | 12 lazytrade-0.5.1/lazytrade/R/to_m.R | 3 lazytrade-0.5.1/lazytrade/README.md | 50 + lazytrade-0.5.1/lazytrade/inst/extdata/AI_RSIADXCADCHF60.csv |only lazytrade-0.5.1/lazytrade/inst/extdata/AI_RSIADXEURNZD60.csv |only lazytrade-0.5.1/lazytrade/man/aml_collect_data.Rd | 15 lazytrade-0.5.1/lazytrade/man/aml_consolidate_results.Rd | 1 lazytrade-0.5.1/lazytrade/man/aml_make_model.Rd | 98 ++- lazytrade-0.5.1/lazytrade/man/aml_score_data.Rd | 10 lazytrade-0.5.1/lazytrade/man/aml_simulation.Rd |only lazytrade-0.5.1/lazytrade/man/create_transposed_data.Rd | 2 lazytrade-0.5.1/lazytrade/man/mt_import_data.Rd | 2 lazytrade-0.5.1/lazytrade/man/mt_make_model.Rd | 2 lazytrade-0.5.1/lazytrade/man/mt_stat_evaluate.Rd | 4 lazytrade-0.5.1/lazytrade/man/opt_aggregate_results.Rd | 6 lazytrade-0.5.1/lazytrade/man/to_m.Rd | 3 lazytrade-0.5.1/lazytrade/tests/testthat/test-aml_collect_data.R | 8 32 files changed, 508 insertions(+), 174 deletions(-)
Title: Sub-National Geospatial Data Archive: Geoprocessing Toolkit
Description: Tools for integrating spatially-misaligned GIS datasets. Part of the Sub-National Geospatial Data Archive System (<https://www.nsf.gov/awardsearch/showAward?AWD_ID=1925693&HistoricalAwards=false>).
Author: Jason Byers, Marty Davidson, Yuri M. Zhukov
Maintainer: Yuri M. Zhukov <zhukov@umich.edu>
Diff between SUNGEO versions 0.2.1 dated 2021-02-10 and 0.2.22 dated 2021-04-08
DESCRIPTION | 12 ++--- MD5 | 36 +++++++++-------- NAMESPACE | 7 +++ R/data.R | 2 R/point2poly_krige.R |only R/point2poly_simp.R | 5 +- R/point2poly_tess.R | 16 +++---- R/poly2poly_ap.R | 6 +- R/utm_select.R | 85 +++++++++++++++++++++++++++++++----------- README.md | 93 ++++++++++++++++++++++++++++++++-------------- data/clea_deu2009.rda |binary data/clea_deu2009_df.rda |binary data/clea_deu2009_pt.rda |binary data/gpw4_deu2010.rda |binary data/hex_05_deu.rda |binary data/highways_deu1992.rda |binary man/highways_deu1992.Rd | 2 man/point2poly_krige.Rd |only man/point2poly_simp.Rd | 3 + man/utm_select.Rd | 4 - 20 files changed, 182 insertions(+), 89 deletions(-)
Title: Reproducible Retrieval of Pew Research Center Datasets
Description: Reproducible, programmatic retrieval of survey datasets from the
Pew Research Center.
Author: Frederick Solt [aut, cre],
Yue Hu [aut],
Eric Persson [ctb]
Maintainer: Frederick Solt <frederick-solt@uiowa.edu>
Diff between pewdata versions 0.3.1 dated 2020-02-05 and 0.3.2 dated 2021-04-08
DESCRIPTION | 12 +- MD5 | 18 +-- NEWS.md | 3 R/pew_download.R | 14 -- README.md | 4 build/vignette.rds |binary inst/doc/pewdata-vignette.Rmd | 4 inst/doc/pewdata-vignette.html | 231 +++++------------------------------------ man/pew_download.Rd | 15 +- vignettes/pewdata-vignette.Rmd | 4 10 files changed, 68 insertions(+), 237 deletions(-)
Title: Power and Sample Size for Health Researchers via Shiny
Description: Power and Sample Size for Health Researchers is a Shiny application that brings together a series of functions related to sample size and power calculations for common analysis in the healthcare field. There are functionalities to calculate the power, sample size to estimate or test hypotheses for means and proportions (including test for correlated groups, equivalence, non-inferiority and superiority), association, Pearson's correlation coefficient, regression coefficients (linear, logistic and Cox), linear mixed model, Cronbach's alpha, interobserver agreement, intraclass correlation coefficients, limit of agreement on Bland-Altman plots, area under the curve, sensitivity and specificity incorporating the prevalence of disease. You can also use the online version at <https://hcpa-unidade-bioestatistica.shinyapps.io/PSS_Health/>.
Author: Rogério Boff Borges [aut, cre]
(<https://orcid.org/0000-0002-2548-1889>),
Guilherme Serpa Azambuja [aut]
(<https://orcid.org/0000-0001-6246-4538>),
Aline Castello Branco Mancuso [aut]
(<https://orcid.org/0000-0001-6033-8335>),
Vanessa Bielefeldt Leotti [aut]
(<https://orcid.org/0000-0003-3860-9367>),
Vânia Naomi Hirakata [aut] (<https://orcid.org/0000-0003-4645-2080>),
Suzi Alves Camey [aut] (<https://orcid.org/0000-0002-5564-081X>),
Stela Maris de Jezus Castro [aut]
(<https://orcid.org/0000-0001-5862-6709>),
Hospital de Clínicas de Porto Alegre [fnd]
Maintainer: Rogério Boff Borges <roborges@hcpa.edu.br>
Diff between PSS.Health versions 0.1.5 dated 2020-11-30 and 0.1.6 dated 2021-04-08
PSS.Health-0.1.5/PSS.Health/R/help_buttom.R |only PSS.Health-0.1.5/PSS.Health/inst/PSS.Health/Markdown |only PSS.Health-0.1.5/PSS.Health/man/help_buttom.Rd |only PSS.Health-0.1.6/PSS.Health/DESCRIPTION | 28 PSS.Health-0.1.6/PSS.Health/MD5 | 25 PSS.Health-0.1.6/PSS.Health/NAMESPACE | 15 PSS.Health-0.1.6/PSS.Health/R/PSS_Health.R | 6 PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/global.R | 214 PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/server.R | 6123 +++++++++++++------ PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/ui.R | 3021 +++------ PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/www |only 11 files changed, 5910 insertions(+), 3522 deletions(-)
Title: NEON Data Store
Description: The National Ecological Observatory Network (NEON) provides access
to its numerous data products through its REST API,
<https://data.neonscience.org/data-api/>. This package provides a
high-level user interface for downloading and storing NEON data products.
While each of NEON data products consist of hundreds or thousands of individual
files. Unlike 'neonUtilities', this package will avoid repeated downloading,
provides persistent storage, and improves performance. 'neonstore' can also
construct a local 'duckdb' database of stacked tables, making it possible
to work with tables that are far to big to fit into memory.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Quinn Thomas [aut] (<https://orcid.org/0000-0003-1282-7825>),
Christine Laney [aut] (<https://orcid.org/0000-0002-4944-2083>),
Claire Lunch [aut] (<https://orcid.org/0000-0001-8753-6593>),
Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between neonstore versions 0.4.0 dated 2021-03-08 and 0.4.2 dated 2021-04-08
DESCRIPTION | 16 +++---- MD5 | 24 +++++------ NAMESPACE | 2 NEWS.md | 9 ++++ R/neon_data.R | 1 R/neon_download.R | 4 - R/neon_filename_parser.R | 6 +- R/neon_sites.R | 2 R/neon_store.R | 79 ++++++++++++++++++++++++------------- R/utilities.R | 5 +- README.md | 83 +++++++++++++++++++++++++++++++++++++++ inst/WORDLIST | 1 tests/testthat/test-additional.R | 10 ++-- 13 files changed, 179 insertions(+), 63 deletions(-)
Title: Genomic Annotation in Livestock for Positional Candidate LOci
Description: The accurate annotation of genes and Quantitative Trait Loci (QTLs) located within candidate markers and/or regions (haplotypes, windows, CNVs, etc) is a crucial step the most common genomic analyses performed in livestock, such as Genome-Wide Association Studies or transcriptomics. The Genomic Annotation in Livestock for positional candidate LOci (GALLO) is an R package designed to provide an intuitive and straightforward environment to annotate positional candidate genes and QTLs from high-throughput genetic studies in livestock. Moreover, GALLO allows the graphical visualization of gene and QTL annotation results, data comparison among different grouping factors (e.g., methods, breeds, tissues, statistical models, studies, etc.), and QTL enrichment in different livestock species including cattle, pigs, sheep, and chicken, among others.
Author: Pablo Fonseca [aut, cre],
Aroa Suarez-Vega [aut],
Gabriele Marras [aut],
Angela Cánovas [aut]
Maintainer: Pablo Fonseca <pfonseca@uoguelph.ca>
Diff between GALLO versions 1.1 dated 2020-11-06 and 1.2 dated 2021-04-08
DESCRIPTION | 15 +++++++-------- MD5 | 18 ++++++++++-------- NEWS | 10 +++++++++- R/QTLmarkers.R | 2 +- R/QTLwindows.R | 2 +- R/splitQTL_comment.R | 4 ++-- build/partial.rdb |only inst/CITATION |only inst/doc/GALLO.html | 32 ++++++++++++++++---------------- man/QTLmarkers.Rd | 2 +- man/QTLwindows.Rd | 2 +- 11 files changed, 48 insertions(+), 39 deletions(-)
Title: Boxplots for Directional Data
Description: Functions for drawing boxplots for data on (the boundary of) a unit circle (i.e., circular and axial data), from Buttarazzi D., Pandolfo G., Porzio G.C. (2018) <doi:10.1111/biom.12889>.
Author: Davide Buttarazzi [aut, cre]
Maintainer: Davide Buttarazzi <davidebuttarazzi@outlook.com>
Diff between bpDir versions 0.1.1 dated 2020-05-06 and 0.1.2 dated 2021-04-08
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- R/CircularBoxplot.R | 15 +++++++++++++-- man/CircularBoxplot.Rd | 2 ++ 4 files changed, 22 insertions(+), 10 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut] (<https://orcid.org/0000-0001-8538-6691>),
Melissa Hallow [aut],
Wenping Wang [aut, cre],
Zufar Mulyukov [ctb],
Alan Hindmarsh [ctb],
Awad H. Al-Mohy [ctb],
Matt Dowle [ctb],
Cleve Moler [ctb],
David Cooley [ctb],
Daniel C. Dillon [ctb],
Drew Schmidt [ctb],
Arun Srinivasan [ctb],
Ernst Hairer [ctb],
Gerhard Wanner [ctb],
Goro Fuji [ctb],
Hadley Wickham [ctb],
Jack Dongarra [ctb],
Linda Petzold [ctb],
Martin Maechler [ctb],
Matteo Fasiolo [ctb],
Morwenn [ctb],
Nicholas J. Higham [ctb],
Roger B. Sidje [ctb],
Simon Frost [ctb],
Kevin Ushey [ctb],
Yu Feng [ctb]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between RxODE versions 1.0.6 dated 2021-03-21 and 1.0.7 dated 2021-04-08
RxODE-1.0.6/RxODE/inst/doc/RxODE-syntax.R |only RxODE-1.0.7/RxODE/DESCRIPTION | 14 RxODE-1.0.7/RxODE/MD5 | 21 RxODE-1.0.7/RxODE/NEWS.md | 8 RxODE-1.0.7/RxODE/R/RxODE_md5.R | 2 RxODE-1.0.7/RxODE/R/rxode-options.R | 13 RxODE-1.0.7/RxODE/build/partial.rdb |binary RxODE-1.0.7/RxODE/build/vignette.rds |binary RxODE-1.0.7/RxODE/inst/doc/RxODE-syntax.Rmd | 6 RxODE-1.0.7/RxODE/inst/doc/RxODE-syntax.html | 3181 --------------------------- RxODE-1.0.7/RxODE/src/ode.h | 4 RxODE-1.0.7/RxODE/vignettes/RxODE-syntax.Rmd | 6 12 files changed, 56 insertions(+), 3199 deletions(-)
Title: R Speaks 'Simulx'
Description: Provide useful tools which supplement the use of Simulx software and R connectors (Monolix Suite). 'Simulx' is an easy, efficient and flexible application for clinical trial simulations. You need 'Simulx' software to be installed in order to use 'RsSimulx' package. Among others tasks, 'RsSimulx' provides the same functions as package 'mlxR' does with a compatibility with 'Simulx' software.
Author: Clemence Pinaud [aut, cre],
Jonathan Chauvin [aut],
Marc Lavielle [ctb]
Maintainer: Clemence Pinaud <clemence.pinaud@lixoft.com>
Diff between RsSimulx versions 1.0.0 dated 2021-01-21 and 1.0.1 dated 2021-04-08
RsSimulx-1.0.0/RsSimulx/R/smlx-connectors.R |only RsSimulx-1.0.0/RsSimulx/R/smlx-init.R |only RsSimulx-1.0.0/RsSimulx/man/initRssimulx.Rd |only RsSimulx-1.0.1/RsSimulx/DESCRIPTION | 12 RsSimulx-1.0.1/RsSimulx/MD5 | 50 RsSimulx-1.0.1/RsSimulx/NAMESPACE | 2 RsSimulx-1.0.1/RsSimulx/R/apiManager.R |only RsSimulx-1.0.1/RsSimulx/R/apiTools.R |only RsSimulx-1.0.1/RsSimulx/R/exposure.R | 13 RsSimulx-1.0.1/RsSimulx/R/prctilemlx.R | 13 RsSimulx-1.0.1/RsSimulx/R/simpop.R | 115 + RsSimulx-1.0.1/RsSimulx/R/simulxR.R | 310 ++-- RsSimulx-1.0.1/RsSimulx/R/smlx-checks.R | 140 +- RsSimulx-1.0.1/RsSimulx/R/smlx-data.R |only RsSimulx-1.0.1/RsSimulx/R/smlx-project.R |only RsSimulx-1.0.1/RsSimulx/R/smlx-tools.R | 838 +++++++------ RsSimulx-1.0.1/RsSimulx/R/statmlx.R | 14 RsSimulx-1.0.1/RsSimulx/R/utils.R | 154 -- RsSimulx-1.0.1/RsSimulx/R/writeData.R | 76 - RsSimulx-1.0.1/RsSimulx/R/zzz.R | 20 RsSimulx-1.0.1/RsSimulx/man/initRsSimulx.Rd |only RsSimulx-1.0.1/RsSimulx/man/lixoft.read.table.Rd | 2 RsSimulx-1.0.1/RsSimulx/man/read.vector.Rd | 2 RsSimulx-1.0.1/RsSimulx/man/simpopmlx.Rd | 5 RsSimulx-1.0.1/RsSimulx/man/simulx.Rd | 1 RsSimulx-1.0.1/RsSimulx/tests/testthat/test-demos.R | 52 RsSimulx-1.0.1/RsSimulx/tests/testthat/test-initRssimulx.R |only RsSimulx-1.0.1/RsSimulx/tests/testthat/test-prcilemlx.R |only RsSimulx-1.0.1/RsSimulx/tests/testthat/test-simpop.R | 238 ++- RsSimulx-1.0.1/RsSimulx/tests/testthat/test-simulation.R | 578 ++++++++ RsSimulx-1.0.1/RsSimulx/tests/testthat/test-writedata.R | 252 +++ 31 files changed, 1950 insertions(+), 937 deletions(-)
Title: Rare Variant Analysis and Genetic Simulations
Description: Rare variant association tests: burden tests (Bocher et al. 2019 <doi:10.1002/gepi.22210>) and the Sequence Kernel Association Test (Bocher et al. 2021 <doi:10.1038/s41431-020-00792-8>); and genetic simulations.
Author: Ozvan Bocher and Hervé Perdry
Maintainer: Ozvan Bocher <bocherozvan@gmail.com>
Diff between Ravages versions 0.1.2 dated 2021-03-16 and 0.1.3 dated 2021-04-08
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- R/burden_mlogit.r | 2 +- inst/doc/Ravages_Simulations_vignette.html | 2 +- inst/doc/Ravages_vignette.html | 10 +++++----- 5 files changed, 17 insertions(+), 16 deletions(-)
Title: Template Model Builder: A General Random Effect Tool Inspired by
'ADMB'
Description: With this tool, a user should be able to quickly implement
complex random effect models through simple C++ templates. The package combines
'CppAD' (C++ automatic differentiation), 'Eigen' (templated matrix-vector
library) and 'CHOLMOD' (sparse matrix routines available from R) to obtain
an efficient implementation of the applied Laplace approximation with exact
derivatives. Key features are: Automatic sparseness detection, parallelism
through 'BLAS' and parallel user templates.
Author: Kasper Kristensen [aut, cre, cph],
Brad Bell [cph],
Hans Skaug [ctb],
Arni Magnusson [ctb],
Casper Berg [ctb],
Anders Nielsen [ctb],
Martin Maechler [ctb],
Theo Michelot [ctb],
Mollie Brooks [ctb],
Alex Forrence [ctb],
Christoffer Moesgaard Albertsen [ctb],
Cole Monnahan [ctb]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between TMB versions 1.7.19 dated 2021-02-05 and 1.7.20 dated 2021-04-08
DESCRIPTION | 8 ++-- MD5 | 10 ++--- NEWS | 10 +++++ R/TMB.R | 16 +++++--- inst/include/tiny_ad/tiny_ad/tiny_ad.hpp | 56 ++++++++++++++----------------- src/solve_subset.c | 2 - 6 files changed, 57 insertions(+), 45 deletions(-)
Title: Computer Algebra
Description: Computer algebra via the 'SymPy' library (<https://www.sympy.org/>).
This makes it possible to solve equations symbolically,
find symbolic integrals, symbolic sums and other important quantities.
Author: Mikkel Meyer Andersen [aut, cre, cph],
Søren Højsgaard [aut, cph]
Maintainer: Mikkel Meyer Andersen <mikl@math.aau.dk>
Diff between caracas versions 1.0.0 dated 2020-05-21 and 1.1.0 dated 2021-04-08
caracas-1.0.0/caracas/R/as_symbol.R |only caracas-1.0.0/caracas/inst/doc/naive-bayes.R |only caracas-1.0.0/caracas/inst/doc/naive-bayes.Rmd |only caracas-1.0.0/caracas/inst/doc/naive-bayes.html |only caracas-1.0.0/caracas/man/as_r.Rd |only caracas-1.0.0/caracas/man/as_symbol.Rd |only caracas-1.0.0/caracas/man/determinant.caracas_symbol.Rd |only caracas-1.0.0/caracas/man/eigen_val.Rd |only caracas-1.0.0/caracas/man/eigen_vec.Rd |only caracas-1.0.0/caracas/man/grapes-times-grapes-.caracas_symbol.Rd |only caracas-1.0.0/caracas/man/grapes-times-grapes.Rd |only caracas-1.0.0/caracas/man/have_sympy.Rd |only caracas-1.0.0/caracas/man/intf.Rd |only caracas-1.0.0/caracas/man/inv.Rd |only caracas-1.0.0/caracas/man/limf.Rd |only caracas-1.0.0/caracas/man/prodf.Rd |only caracas-1.0.0/caracas/man/sumf.Rd |only caracas-1.0.0/caracas/tests/testthat/test-as_r.R |only caracas-1.0.0/caracas/tests/testthat/test-as_symbol.R |only caracas-1.0.0/caracas/vignettes/naive-bayes.Rmd |only caracas-1.1.0/caracas/DESCRIPTION | 14 caracas-1.1.0/caracas/MD5 | 191 +- caracas-1.1.0/caracas/NAMESPACE | 57 caracas-1.1.0/caracas/NEWS.md | 23 caracas-1.1.0/caracas/R/Ops-math.R | 132 + caracas-1.1.0/caracas/R/as_sym.R |only caracas-1.1.0/caracas/R/assumptions.R |only caracas-1.1.0/caracas/R/calculus.R | 150 + caracas-1.1.0/caracas/R/coerce.R |only caracas-1.1.0/caracas/R/def_sym.R |only caracas-1.1.0/caracas/R/init.R | 65 caracas-1.1.0/caracas/R/lin-alg-advanced.R |only caracas-1.1.0/caracas/R/lin-alg.R | 381 ++-- caracas-1.1.0/caracas/R/matrix-symbol.R |only caracas-1.1.0/caracas/R/numeric_eval.R |only caracas-1.1.0/caracas/R/output.R | 30 caracas-1.1.0/caracas/R/parse_python.R | 29 caracas-1.1.0/caracas/R/simplify.R | 2 caracas-1.1.0/caracas/R/solve.R | 43 caracas-1.1.0/caracas/R/subset.R | 22 caracas-1.1.0/caracas/R/symbol.R | 348 +++ caracas-1.1.0/caracas/R/vector.R | 8 caracas-1.1.0/caracas/R/zzz.R |only caracas-1.1.0/caracas/README.md | 25 caracas-1.1.0/caracas/build/vignette.rds |binary caracas-1.1.0/caracas/inst/define_printers.py |only caracas-1.1.0/caracas/inst/doc/ar-ssm.R |only caracas-1.1.0/caracas/inst/doc/ar-ssm.Rmd |only caracas-1.1.0/caracas/inst/doc/ar-ssm.html |only caracas-1.1.0/caracas/inst/doc/arbitrary-precision-arithmetic.R |only caracas-1.1.0/caracas/inst/doc/arbitrary-precision-arithmetic.Rmd |only caracas-1.1.0/caracas/inst/doc/arbitrary-precision-arithmetic.html |only caracas-1.1.0/caracas/inst/doc/fastest-route.R | 20 caracas-1.1.0/caracas/inst/doc/fastest-route.Rmd | 28 caracas-1.1.0/caracas/inst/doc/fastest-route.html | 33 caracas-1.1.0/caracas/inst/doc/introduction.R | 11 caracas-1.1.0/caracas/inst/doc/introduction.Rmd | 11 caracas-1.1.0/caracas/inst/doc/introduction.html | 54 caracas-1.1.0/caracas/inst/doc/linear-algebra.R |only caracas-1.1.0/caracas/inst/doc/linear-algebra.Rmd |only caracas-1.1.0/caracas/inst/doc/linear-algebra.html |only caracas-1.1.0/caracas/inst/doc/reference.R | 136 - caracas-1.1.0/caracas/inst/doc/reference.Rmd | 162 + caracas-1.1.0/caracas/inst/doc/reference.html | 948 +++++----- caracas-1.1.0/caracas/inst/doc/sympy-object.R | 4 caracas-1.1.0/caracas/inst/doc/sympy-object.Rmd | 4 caracas-1.1.0/caracas/inst/doc/sympy-object.html | 75 caracas-1.1.0/caracas/man/N.Rd |only caracas-1.1.0/caracas/man/as.character.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/as_character_matrix.Rd | 8 caracas-1.1.0/caracas/man/as_diag.Rd |only caracas-1.1.0/caracas/man/as_expr.Rd |only caracas-1.1.0/caracas/man/as_sym.Rd |only caracas-1.1.0/caracas/man/ask.Rd |only caracas-1.1.0/caracas/man/def_sym.Rd |only caracas-1.1.0/caracas/man/der.Rd | 25 caracas-1.1.0/caracas/man/der2.Rd | 12 caracas-1.1.0/caracas/man/diag-set-.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/diag-set.Rd | 3 caracas-1.1.0/caracas/man/diag_.Rd |only caracas-1.1.0/caracas/man/do_la.Rd |only caracas-1.1.0/caracas/man/doit.Rd | 4 caracas-1.1.0/caracas/man/drop_remainder.Rd |only caracas-1.1.0/caracas/man/eval_to_symbol.Rd | 4 caracas-1.1.0/caracas/man/expand_log.Rd | 2 caracas-1.1.0/caracas/man/fraction_parts.Rd |only caracas-1.1.0/caracas/man/get_py.Rd |only caracas-1.1.0/caracas/man/get_sympy.Rd | 2 caracas-1.1.0/caracas/man/has_sympy.Rd |only caracas-1.1.0/caracas/man/int.Rd |only caracas-1.1.0/caracas/man/lim.Rd |only caracas-1.1.0/caracas/man/linalg.Rd |only caracas-1.1.0/caracas/man/listify.Rd |only caracas-1.1.0/caracas/man/matrify.Rd |only caracas-1.1.0/caracas/man/matrix-products.Rd |only caracas-1.1.0/caracas/man/matrix_.Rd |only caracas-1.1.0/caracas/man/pipe.Rd |only caracas-1.1.0/caracas/man/prod_.Rd |only caracas-1.1.0/caracas/man/reciprocal_matrix.Rd |only caracas-1.1.0/caracas/man/solve_sys.Rd | 16 caracas-1.1.0/caracas/man/sub-.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/subs.Rd | 8 caracas-1.1.0/caracas/man/subs_lst.Rd | 12 caracas-1.1.0/caracas/man/subs_vec.Rd |only caracas-1.1.0/caracas/man/subset-.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/sum_.Rd |only caracas-1.1.0/caracas/man/symbol.Rd | 20 caracas-1.1.0/caracas/man/sympy_func.Rd |only caracas-1.1.0/caracas/man/sympy_version.Rd | 2 caracas-1.1.0/caracas/man/taylor.Rd |only caracas-1.1.0/caracas/man/tuplify.Rd |only caracas-1.1.0/caracas/man/unbracket.Rd |only caracas-1.1.0/caracas/man/vec.Rd |only caracas-1.1.0/caracas/tests/testthat.R | 9 caracas-1.1.0/caracas/tests/testthat/helper-skip.R | 2 caracas-1.1.0/caracas/tests/testthat/test-as_expr.R |only caracas-1.1.0/caracas/tests/testthat/test-as_sym.R |only caracas-1.1.0/caracas/tests/testthat/test-assumptions.R |only caracas-1.1.0/caracas/tests/testthat/test-calculus.R | 100 - caracas-1.1.0/caracas/tests/testthat/test-def_sym.R |only caracas-1.1.0/caracas/tests/testthat/test-linalg.R | 151 + caracas-1.1.0/caracas/tests/testthat/test-numeric_eval.R |only caracas-1.1.0/caracas/tests/testthat/test-output.R | 55 caracas-1.1.0/caracas/tests/testthat/test-solve.R | 81 caracas-1.1.0/caracas/tests/testthat/test-subset.R | 44 caracas-1.1.0/caracas/tests/testthat/test-symbol.R | 102 + caracas-1.1.0/caracas/tests/testthat/test-vector.R | 16 caracas-1.1.0/caracas/vignettes/ar-ssm.Rmd |only caracas-1.1.0/caracas/vignettes/arbitrary-precision-arithmetic.Rmd |only caracas-1.1.0/caracas/vignettes/fastest-route.Rmd | 28 caracas-1.1.0/caracas/vignettes/introduction.Rmd | 11 caracas-1.1.0/caracas/vignettes/linear-algebra.Rmd |only caracas-1.1.0/caracas/vignettes/reference.Rmd | 162 + caracas-1.1.0/caracas/vignettes/sympy-object.Rmd | 4 134 files changed, 2707 insertions(+), 1198 deletions(-)
Title: Compute Wasserstein Barycenters, Geodesics, PCA and Distances
Description: Includes a variety of methods to compute objects related to the 'Wasserstein distance' (also known as 'Kantorovich distance' or 'Earth-Mover distance'). The main effort of this package is to allow for computations of 'Wasserstein barycenter' using regularised, unregularised and stochastic methods. It also provides convenient wrappers to call the 'transport' package with more general inputs. Handy visual tools are provided to showcase, barycenters, animations of optimal transport geodesics and animations of principal components in the 'Wasserstein space'.
Author: Florian Heinemann [aut, cre], Nicholas Bonneel [ctb]
Maintainer: Florian Heinemann <florian.heinemann@uni-goettingen.de>
Diff between WSGeometry versions 1.0 dated 2021-01-05 and 1.1 dated 2021-04-08
DESCRIPTION | 15 +++++++-------- MD5 | 14 +++++++------- NAMESPACE | 1 - R/barycenter_lp.R | 15 ++++++++++++++- R/import_packages.R | 4 ++-- R/multimarginal_LP.R | 14 +++++++++++++- src/RcppExports.cpp | 4 ++-- src/iterative_bary.cpp | 5 ++++- 8 files changed, 49 insertions(+), 23 deletions(-)
Title: Difference Benchmarking for Multivariate Small Area Estimation
Description: Implements Benchmarking Method for Multivariate Small Area Estimation under Fay Herriot Model. Multivariate Small Area Estimation (MSAE) is a development of Univariate Small Area Estimation that considering the correlation among response variables and borrowing the strength from related areas and auxiliary variables to increase the effectiveness of sample size, the multivariate model in this package is based on multivariate model 1 proposed by Roberto Benavent and Domingo Morales (2016) <doi:10.1016/j.csda.2015.07.013>. Benchmarking in Small Area Estimation is a modification of Small Area Estimation model to guarantee that the aggregate weighted mean of the county predictors equals the corresponding weighted mean of survey estimates. Difference Benchmarking is the simplest benchmarking method but widely used by multiplying empirical best linear unbiased prediction (EBLUP) estimator by the common adjustment factors (J.N.K Rao and Isabel Molina, 2015).
Author: Zaza Yuda Perwira, Azka Ubaidillah
Maintainer: Zaza Yuda Perwira <221710086@stis.ac.id>
Diff between msaeDB versions 0.2.0 dated 2021-03-30 and 0.2.1 dated 2021-04-08
DESCRIPTION | 6 ++--- MD5 | 32 ++++++++++++++--------------- R/datamsaeDBns.R | 3 +- R/msaedbns.R | 23 +++++++-------------- R/msaefhns.R | 2 + R/saedb.R | 8 +++++++ R/saedbns.R | 48 ++++++++++++++++++++++++++------------------ R/saefh.R | 3 ++ R/saefhns.R | 7 ++++++ inst/doc/Zaza_vignette.html | 9 +++++++- man/datamsaeDBns.Rd | 3 +- man/msaedbns.Rd | 3 ++ man/msaefhns.Rd | 2 + man/saedb.Rd | 8 +++++++ man/saedbns.Rd | 7 ++++++ man/saefh.Rd | 3 ++ man/saefhns.Rd | 7 ++++++ 17 files changed, 118 insertions(+), 56 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-21 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-10 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-14 0.99.3
2016-11-21 0.99.2
2016-08-31 0.99.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-31 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-14 1.0.2
2016-03-28 1.0.1
2016-01-25 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-27 3.1.0
2016-06-16 3.0
2015-03-08 2.0
2014-12-02 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-04 0.1.1
2020-06-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-13 0.0.2
Title: Population and Evolutionary Genetics Analysis System
Description: Functions for reading, writing, plotting, analysing, and manipulating allelic and haplotypic data, including from VCF files, and for the analysis of population nucleotide sequences and micro-satellites including coalescent analyses, linkage disequilibrium, population structure (Fst, Amova) and equilibrium (HWE), haplotype networks, minimum spanning tree and network, and median-joining networks.
Author: Emmanuel Paradis [aut, cre, cph]
(<https://orcid.org/0000-0003-3092-2199>),
Thibaut Jombart [aut, cph] (<https://orcid.org/0000-0003-2226-8692>),
Zhian N. Kamvar [aut, cph] (<https://orcid.org/0000-0003-1458-7108>),
Brian Knaus [aut, cph] (<https://orcid.org/0000-0003-1665-4343>),
Klaus Schliep [aut, cph] (<https://orcid.org/0000-0003-2941-0161>),
Alastair Potts [aut, cph] (<https://orcid.org/0000-0003-0919-7279>),
David Winter [aut, cph] (<https://orcid.org/0000-0002-6165-0029>)
Maintainer: Emmanuel Paradis <Emmanuel.Paradis@ird.fr>
Diff between pegas versions 0.14 dated 2020-09-16 and 1.0 dated 2021-04-08
DESCRIPTION | 16 MD5 | 84 ++--- NAMESPACE | 36 +- NEWS | 74 ++++ R/Fst.R | 12 R/IO.R | 71 ++++ R/allelicrichness.R | 18 - R/conversion.R | 10 R/dist.asd.R | 10 R/geo.R | 6 R/haplotype.R | 684 ++++++++++++++++++++++++++++++++++------- R/mjn.R | 78 ++-- R/options_themes_haploNet.R |only R/zzz.R | 34 +- build/partial.rdb |only build/vignette.rds |binary inst/doc/PlotHaploNet.R |only inst/doc/PlotHaploNet.Rnw |only inst/doc/PlotHaploNet.pdf |only inst/doc/ReadingFiles.R | 24 - inst/doc/ReadingFiles.Rnw | 17 - inst/doc/ReadingFiles.pdf |binary man/F234.Rd | 6 man/Fst.Rd | 4 man/LDscan.Rd | 2 man/allelicrichness.Rd | 6 man/by.loci.Rd | 2 man/conversion.Rd | 1 man/cophenetic.haploNet.Rd |only man/diffHaplo.Rd | 13 man/dist.asd.Rd | 6 man/haploNet.Rd | 13 man/haplotype.Rd | 2 man/haplotype.loci.Rd | 4 man/heterozygosity.Rd | 2 man/jaguar.Rd | 2 man/mjn.Rd | 42 +- man/mst.Rd | 20 + man/mutations.Rd |only man/options_themes_haploNet.Rd |only man/read.vcf.Rd | 14 man/replot.Rd | 8 man/theta.msat.Rd | 7 src/pegas.c | 184 ++++++++++- vignettes/PlotHaploNet.Rnw |only vignettes/ReadingFiles.Rnw | 17 - vignettes/ape.sty |only vignettes/pegas.bib | 53 +++ 48 files changed, 1257 insertions(+), 325 deletions(-)
Title: Importing and Analysing SNP and Silicodart Data Generated by
Genome-Wide Restriction Fragment Analysis
Description: Functions are provided that facilitate the import and analysis of
SNP (single nucleotide polymorphism) and silicodart (presence/absence) data. The main focus is on data generated
by DarT (Diversity Arrays Technology). However, once SNP or related fragment
presence/absence data from any source is imported into a genlight object many
of the functions can be used. Functions are available for input and output of
SNP and silicodart data, for reporting on and filtering on various criteria
(e.g. CallRate, Heterozygosity, Reproducibility, maximum allele frequency).
Advanced filtering is based on Linkage Disequilibrium and HWE (Hardy-Weinberg equilibrium). Other functions
are available for visualization after PCoA (Principle Coordinate Analysis), or to facilitate transfer of data
between genlight/genind objects and newhybrids, related, phylip, structure, faststructure packages.
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb],
Lindsay V. Clark [ctb],
Floriaan Devloo-Delva [ctb]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR versions 1.9.1 dated 2021-04-03 and 1.9.4 dated 2021-04-08
DESCRIPTION | 14 ++--- MD5 | 37 +++++++------ NAMESPACE | 10 ++- R/datasets.r | 2 R/gi2gl.R | 9 ++- R/gl.genleastcost.r | 1 R/gl.grm.network.r | 2 R/gl.install.vanilla.dartR.r |only R/gl.pcoa.plot.3d.r | 6 +- R/gl.percent.freq.r | 81 ++++++++++++++++------------- R/gl.report.ld.r | 15 ++--- R/zzz.r |only inst/doc/IntroTutorial_dartR.pdf |binary inst/doc/dartRTutorials.pdf |binary man/gi2gl.Rd | 4 - man/gl.filter.locmetric.Rd | 106 +++++++++++++++++++------------------- man/gl.install.vanilla.dartR.Rd |only man/gl.report.ld.Rd | 3 + man/gl.report.locmetric.Rd | 108 +++++++++++++++++++-------------------- man/gl2hiphop.Rd | 60 ++++++++++----------- man/platy.Rd | 2 21 files changed, 245 insertions(+), 215 deletions(-)
Title: Understand and Describe Bayesian Models and Posterior
Distributions
Description: Provides utilities to describe posterior
distributions and Bayesian models. It includes point-estimates such as
Maximum A Posteriori (MAP), measures of dispersion (Highest Density
Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and
indices used for null-hypothesis testing (such as ROPE percentage, pd
and Bayes factors).
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 [aut] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [aut] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Michael D. Wilson [aut] (<https://orcid.org/0000-0003-4143-7308>),
Paul-Christian Bürkner [rev],
Tristan Mahr [rev] (<https://orcid.org/0000-0002-8890-5116>),
Henrik Singmann [ctb] (<https://orcid.org/0000-0002-4842-3657>),
Quentin F. Gronau [ctb] (<https://orcid.org/0000-0001-5510-6943>),
Sam Crawley [ctb] (<https://orcid.org/0000-0002-7847-0411>)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between bayestestR versions 0.8.2 dated 2021-01-26 and 0.9.0 dated 2021-04-08
bayestestR-0.8.2/bayestestR/R/mhdior.R |only bayestestR-0.8.2/bayestestR/R/print.bayesfactor_inclusion.R |only bayestestR-0.8.2/bayestestR/R/print.bayesfactor_parameters.R |only bayestestR-0.8.2/bayestestR/R/print.bayesfactor_restricted.R |only bayestestR-0.8.2/bayestestR/R/print.ci.R |only bayestestR-0.8.2/bayestestR/R/print.describe_posterior.R |only bayestestR-0.8.2/bayestestR/R/print.map_estimate.R |only bayestestR-0.8.2/bayestestR/R/print.mhdior.R |only bayestestR-0.8.2/bayestestR/R/print.p_direction.R |only bayestestR-0.8.2/bayestestR/R/print.p_map.R |only bayestestR-0.8.2/bayestestR/R/print.p_rope.R |only bayestestR-0.8.2/bayestestR/R/print.p_significance.R |only bayestestR-0.8.2/bayestestR/R/print.point_estimate.R |only bayestestR-0.8.2/bayestestR/R/reshape_ci.R |only bayestestR-0.8.2/bayestestR/R/utils_get_parameter_names.R |only bayestestR-0.8.2/bayestestR/inst/doc/indicesEstimationComparison.R |only bayestestR-0.8.2/bayestestR/inst/doc/indicesEstimationComparison.Rmd |only bayestestR-0.8.2/bayestestR/inst/doc/indicesEstimationComparison.html |only bayestestR-0.8.2/bayestestR/man/mhdior.Rd |only bayestestR-0.8.2/bayestestR/man/reshape_ci.Rd |only bayestestR-0.8.2/bayestestR/tests/testthat/test-mhdior.R |only bayestestR-0.8.2/bayestestR/vignettes/indicesEstimationComparison.Rmd |only bayestestR-0.9.0/bayestestR/DESCRIPTION | 134 bayestestR-0.9.0/bayestestR/MD5 | 307 bayestestR-0.9.0/bayestestR/NAMESPACE | 164 bayestestR-0.9.0/bayestestR/NEWS.md | 24 bayestestR-0.9.0/bayestestR/R/area_under_curve.R | 3 bayestestR-0.9.0/bayestestR/R/as.list.R |only bayestestR-0.9.0/bayestestR/R/bayesfactor_models.R | 231 bayestestR-0.9.0/bayestestR/R/bayesfactor_parameters.R | 32 bayestestR-0.9.0/bayestestR/R/bayesfactor_restricted.R | 19 bayestestR-0.9.0/bayestestR/R/bic_to_bf.R |only bayestestR-0.9.0/bayestestR/R/check_prior.R | 149 bayestestR-0.9.0/bayestestR/R/ci.R | 51 bayestestR-0.9.0/bayestestR/R/describe_posterior.R | 415 bayestestR-0.9.0/bayestestR/R/describe_prior.R | 44 bayestestR-0.9.0/bayestestR/R/diagnostic_posterior.R | 55 bayestestR-0.9.0/bayestestR/R/distribution.R | 20 bayestestR-0.9.0/bayestestR/R/effective_sample.R | 17 bayestestR-0.9.0/bayestestR/R/equivalence_test.R | 51 bayestestR-0.9.0/bayestestR/R/estimate_density.R | 180 bayestestR-0.9.0/bayestestR/R/eti.R | 48 bayestestR-0.9.0/bayestestR/R/format.R |only bayestestR-0.9.0/bayestestR/R/hdi.R | 101 bayestestR-0.9.0/bayestestR/R/map_estimate.R | 66 bayestestR-0.9.0/bayestestR/R/mcse.R | 3 bayestestR-0.9.0/bayestestR/R/mediation.R | 9 bayestestR-0.9.0/bayestestR/R/p_direction.R | 104 bayestestR-0.9.0/bayestestR/R/p_map.R | 18 bayestestR-0.9.0/bayestestR/R/p_rope.R | 12 bayestestR-0.9.0/bayestestR/R/p_significance.R | 28 bayestestR-0.9.0/bayestestR/R/point_estimate.R | 46 bayestestR-0.9.0/bayestestR/R/print.R |only bayestestR-0.9.0/bayestestR/R/print.bayesfactor_models.R | 83 bayestestR-0.9.0/bayestestR/R/print.equivalence_test.R | 2 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bayestestR-0.9.0/bayestestR/build/partial.rdb |binary bayestestR-0.9.0/bayestestR/build/vignette.rds |binary bayestestR-0.9.0/bayestestR/inst/WORDLIST |only bayestestR-0.9.0/bayestestR/inst/doc/bayes_factors.R | 317 bayestestR-0.9.0/bayestestR/inst/doc/bayes_factors.Rmd | 756 bayestestR-0.9.0/bayestestR/inst/doc/bayes_factors.html | 943 bayestestR-0.9.0/bayestestR/inst/doc/bayestestR.R | 41 bayestestR-0.9.0/bayestestR/inst/doc/bayestestR.Rmd | 142 bayestestR-0.9.0/bayestestR/inst/doc/bayestestR.html | 382 bayestestR-0.9.0/bayestestR/inst/doc/credible_interval.Rmd | 111 bayestestR-0.9.0/bayestestR/inst/doc/credible_interval.html | 246 bayestestR-0.9.0/bayestestR/inst/doc/example1.R | 146 bayestestR-0.9.0/bayestestR/inst/doc/example1.Rmd | 350 bayestestR-0.9.0/bayestestR/inst/doc/example1.html | 499 bayestestR-0.9.0/bayestestR/inst/doc/example2.R | 81 bayestestR-0.9.0/bayestestR/inst/doc/example2.Rmd | 227 bayestestR-0.9.0/bayestestR/inst/doc/example2.html | 355 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bayestestR-0.9.0/bayestestR/tests/testthat/test-point_estimate.R | 4 bayestestR-0.9.0/bayestestR/tests/testthat/test-rope.R | 84 bayestestR-0.9.0/bayestestR/tests/testthat/test-rope_range.R |only bayestestR-0.9.0/bayestestR/tests/testthat/test-rstanarm.R | 41 bayestestR-0.9.0/bayestestR/tests/testthat/test-si.R | 21 bayestestR-0.9.0/bayestestR/tests/testthat/test-simulate_data.R | 10 bayestestR-0.9.0/bayestestR/tests/testthat/test-weighted_posteriors.R | 28 bayestestR-0.9.0/bayestestR/vignettes/bayes_factors.Rmd | 756 bayestestR-0.9.0/bayestestR/vignettes/bayestestR.Rmd | 142 bayestestR-0.9.0/bayestestR/vignettes/credible_interval.Rmd | 111 bayestestR-0.9.0/bayestestR/vignettes/example1.Rmd | 350 bayestestR-0.9.0/bayestestR/vignettes/example2.Rmd | 227 bayestestR-0.9.0/bayestestR/vignettes/example3.Rmd | 20 bayestestR-0.9.0/bayestestR/vignettes/guidelines.Rmd | 119 bayestestR-0.9.0/bayestestR/vignettes/indicesExistenceComparison.Rmd | 34 bayestestR-0.9.0/bayestestR/vignettes/mediation.Rmd | 52 bayestestR-0.9.0/bayestestR/vignettes/probability_of_direction.Rmd | 208 bayestestR-0.9.0/bayestestR/vignettes/region_of_practical_equivalence.Rmd | 126 bayestestR-0.9.0/bayestestR/vignettes/web_only |only 175 files changed, 8864 insertions(+), 28106 deletions(-)
Title: Seeded-LDA for Topic Modeling
Description: Implements the seeded-LDA model (Lu, Ott, Cardie & Tsou 2010) <doi:10.1109/ICDMW.2011.125> using the quanteda package and the GibbsLDA++ library for semisupervised topic modeling.
Seeded-LDA allows users to pre-define topics with keywords to perform theory-driven analysis of textual data in social sciences and humanities (Watanabe & Zhou 2020) <doi:10.1177/0894439320907027>.
Author: Kohei Watanabe [aut, cre, cph],
Phan Xuan-Hieu [aut, cph] (GibbsLDA++)
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between seededlda versions 0.5.1 dated 2020-12-17 and 0.6.0 dated 2021-04-08
DESCRIPTION | 7 - MD5 | 26 +++--- NAMESPACE | 1 NEWS.md | 5 + R/RcppExports.R | 4 R/lda.R | 13 +-- R/predict.R |only R/seededlda.R | 97 ++++++++++++----------- man/predict.textmodel_lda.Rd |only man/textmodel_seededlda.Rd | 44 ++++++---- src/RcppExports.cpp | 11 +- src/lda.cpp | 16 ++- src/lda.h | 26 ++++-- tests/testthat/test-internal.R |only tests/testthat/test-textmodel_lda.R |only tests/testthat/test-textmodel_seededlda.R | 123 +++++++++++++----------------- 16 files changed, 203 insertions(+), 170 deletions(-)
Title: Australia Maps
Description: Maps of Australian coastline and administrative regions. Data
can be drawn or accessed directly as simple features objects. Includes
simple functions for country or state maps of Australia and in-built data
sets of administrative regions from the Australian Bureau of Statistics
<https://www.abs.gov.au/>. Layers include electoral divisions and local
government areas, simplified from the original sources but with sufficient
detail to allow mapping of a local municipality.
Author: Michael Sumner [aut, cre],
Dianne Cook [ctb],
Dario Herenu [ctb]
Maintainer: Michael Sumner <mdsumner@gmail.com>
Diff between ozmaps versions 0.3.6 dated 2020-04-02 and 0.4.0 dated 2021-04-08
ozmaps-0.3.6/ozmaps/data/datalist |only ozmaps-0.4.0/ozmaps/DESCRIPTION | 9 ++--- ozmaps-0.4.0/ozmaps/MD5 | 17 ++++------ ozmaps-0.4.0/ozmaps/NEWS.md | 6 +++ ozmaps-0.4.0/ozmaps/build/vignette.rds |binary ozmaps-0.4.0/ozmaps/data/abs_ced.rda |binary ozmaps-0.4.0/ozmaps/data/abs_lga.rda |binary ozmaps-0.4.0/ozmaps/data/abs_ste.rda |binary ozmaps-0.4.0/ozmaps/inst/doc/ozmaps.html | 52 ++++++++++++++++++++++++++----- ozmaps-0.4.0/ozmaps/man/oz.Rd | 6 +-- 10 files changed, 67 insertions(+), 23 deletions(-)
Title: Data Science for Psychologists
Description: All datasets and functions required for the examples and exercises of the book "Data Science for Psychologists" (by Hansjoerg Neth, Konstanz University, 2021), available at <https://bookdown.org/hneth/ds4psy/>. The book and course introduce principles and methods of data science to students of psychology and other biological or social sciences. The 'ds4psy' package primarily provides datasets, but also functions for data generation and manipulation (e.g., of text and time data) and graphics that are used in the book and its exercises. All functions included in 'ds4psy' are designed to be explicit and instructive, rather than elegant or efficient.
Author: Hansjoerg Neth [aut, cre] (<https://orcid.org/0000-0001-5427-3141>)
Maintainer: Hansjoerg Neth <h.neth@uni.kn>
Diff between ds4psy versions 0.5.0 dated 2020-09-01 and 0.6.0 dated 2021-04-08
DESCRIPTION | 12 - MD5 | 88 ++++++------- NAMESPACE | 4 NEWS.md | 91 +++++++++---- R/color_fun.R | 10 - R/data.R | 34 ++--- R/data_fun.R | 265 +++++++++++++++++++++++++++++----------- R/plot_fun.R | 52 +++---- R/start.R | 5 R/text_fun.R | 56 ++++---- R/theme_fun.R | 201 +++++++++++++++++++++++++++--- R/time_util_fun.R | 41 +++++- R/util_fun.R | 104 +++++++++++++++ README.md | 217 ++++++++++++++++---------------- build/partial.rdb |only data/Trumpisms.rda |binary data/fame.rda |binary inst/CITATION | 8 - inst/WORDLIST | 5 inst/doc/ds4psy.R | 4 inst/doc/ds4psy.Rmd | 10 - inst/doc/ds4psy.html | 324 +++++++++++++++++++++++++++++++++++++++++-------- man/Trumpisms.Rd | 13 - man/dice_2.Rd | 1 man/falsePosPsy_all.Rd | 4 man/fame.Rd | 2 man/get_set.Rd |only man/is_equal.Rd | 1 man/is_vector.Rd |only man/is_wholenumber.Rd | 1 man/make_grid.Rd | 4 man/num_as_char.Rd | 1 man/num_as_ordinal.Rd | 1 man/num_equal.Rd | 1 man/plot_fn.Rd | 3 man/plot_fun.Rd | 3 man/plot_n.Rd | 3 man/plot_text.Rd | 5 man/plot_tiles.Rd | 3 man/posPsy_AHI_CESD.Rd | 2 man/posPsy_long.Rd | 2 man/posPsy_p_info.Rd | 2 man/posPsy_wide.Rd | 2 man/theme_clean.Rd | 6 man/theme_ds4psy.Rd | 14 +- man/theme_empty.Rd |only vignettes/ds4psy.Rmd | 10 - 47 files changed, 1168 insertions(+), 447 deletions(-)