Title: Bayesian Applied Regression Modeling via Stan
Description: Estimates previously compiled regression models using the 'rstan'
package, which provides the R interface to the Stan C++ library for Bayesian
estimation. Users specify models via the customary R syntax with a formula and
data.frame plus some additional arguments for priors.
Author: Jonah Gabry [aut],
Imad Ali [ctb],
Sam Brilleman [ctb],
Jacqueline Buros Novik [ctb] (R/stan_jm.R),
AstraZeneca [ctb] (R/stan_jm.R),
Trustees of Columbia University [cph],
Simon Wood [cph] (R/stan_gamm4.R),
R Core Deveopment Team [cph] (R/stan_aov.R),
Douglas Bates [cph] (R/pp_data.R),
Martin Maechler [cph] (R/pp_data.R),
Ben Bolker [cph] (R/pp_data.R),
Steve Walker [cph] (R/pp_data.R),
Brian Ripley [cph] (R/stan_aov.R, R/stan_polr.R),
William Venables [cph] (R/stan_polr.R),
Paul-Christian Burkner [cph] (R/misc.R),
Ben Goodrich [cre, aut]
Maintainer: Ben Goodrich <benjamin.goodrich@columbia.edu>
Diff between rstanarm versions 2.17.4 dated 2018-04-13 and 2.18.1 dated 2018-10-21
rstanarm-2.17.4/rstanarm/R/shinystan.R |only rstanarm-2.17.4/rstanarm/inst/NEWS |only rstanarm-2.18.1/rstanarm/DESCRIPTION | 16 rstanarm-2.18.1/rstanarm/MD5 | 347 ++++----- rstanarm-2.18.1/rstanarm/NEWS.md |only rstanarm-2.18.1/rstanarm/R/doc-example_jm.R | 2 rstanarm-2.18.1/rstanarm/R/doc-example_model.R | 2 rstanarm-2.18.1/rstanarm/R/doc-modeling-functions.R | 5 rstanarm-2.18.1/rstanarm/R/jm_data_block.R | 37 rstanarm-2.18.1/rstanarm/R/launch_shinystan.R |only rstanarm-2.18.1/rstanarm/R/log_lik.R | 36 rstanarm-2.18.1/rstanarm/R/loo.R | 34 rstanarm-2.18.1/rstanarm/R/misc.R | 74 + rstanarm-2.18.1/rstanarm/R/posterior_linpred.R | 30 rstanarm-2.18.1/rstanarm/R/posterior_predict.R | 34 rstanarm-2.18.1/rstanarm/R/posterior_traj.R | 2 rstanarm-2.18.1/rstanarm/R/pp_data.R | 19 rstanarm-2.18.1/rstanarm/R/predict.R | 14 rstanarm-2.18.1/rstanarm/R/print-and-summary.R | 170 ++-- rstanarm-2.18.1/rstanarm/R/prior_summary.R | 45 - rstanarm-2.18.1/rstanarm/R/stan_aov.R | 7 rstanarm-2.18.1/rstanarm/R/stan_betareg.R | 6 rstanarm-2.18.1/rstanarm/R/stan_betareg.fit.R | 6 rstanarm-2.18.1/rstanarm/R/stan_biglm.R | 7 rstanarm-2.18.1/rstanarm/R/stan_biglm.fit.R | 3 rstanarm-2.18.1/rstanarm/R/stan_clogit.R | 6 rstanarm-2.18.1/rstanarm/R/stan_gamm4.R | 1 rstanarm-2.18.1/rstanarm/R/stan_glm.R | 118 ++- rstanarm-2.18.1/rstanarm/R/stan_glm.fit.R | 8 rstanarm-2.18.1/rstanarm/R/stan_glmer.R | 1 rstanarm-2.18.1/rstanarm/R/stan_jm.R | 3 rstanarm-2.18.1/rstanarm/R/stan_jm.fit.R | 8 rstanarm-2.18.1/rstanarm/R/stan_lm.R | 32 rstanarm-2.18.1/rstanarm/R/stan_mvmer.R | 2 rstanarm-2.18.1/rstanarm/R/stan_nlmer.R | 2 rstanarm-2.18.1/rstanarm/R/stan_polr.R | 16 rstanarm-2.18.1/rstanarm/R/stan_polr.fit.R | 3 rstanarm-2.18.1/rstanarm/R/stanmodels.R | 4 rstanarm-2.18.1/rstanarm/cleanup | 2 rstanarm-2.18.1/rstanarm/cleanup.win | 2 rstanarm-2.18.1/rstanarm/inst/CITATION | 33 rstanarm-2.18.1/rstanarm/inst/doc/aov.Rmd | 2 rstanarm-2.18.1/rstanarm/inst/doc/aov.html | 47 - rstanarm-2.18.1/rstanarm/inst/doc/betareg.Rmd | 2 rstanarm-2.18.1/rstanarm/inst/doc/betareg.html | 40 - rstanarm-2.18.1/rstanarm/inst/doc/binomial.Rmd | 4 rstanarm-2.18.1/rstanarm/inst/doc/binomial.html | 81 +- rstanarm-2.18.1/rstanarm/inst/doc/continuous.Rmd | 14 rstanarm-2.18.1/rstanarm/inst/doc/continuous.html | 144 ++- rstanarm-2.18.1/rstanarm/inst/doc/count.Rmd | 4 rstanarm-2.18.1/rstanarm/inst/doc/count.html | 30 rstanarm-2.18.1/rstanarm/inst/doc/glmer.Rmd | 12 rstanarm-2.18.1/rstanarm/inst/doc/glmer.html | 66 - rstanarm-2.18.1/rstanarm/inst/doc/jm.Rmd | 8 rstanarm-2.18.1/rstanarm/inst/doc/jm.html | 378 ++++------ rstanarm-2.18.1/rstanarm/inst/doc/lm.Rmd | 12 rstanarm-2.18.1/rstanarm/inst/doc/lm.html | 46 - rstanarm-2.18.1/rstanarm/inst/doc/polr.html | 53 - rstanarm-2.18.1/rstanarm/inst/doc/pooling.R | 2 rstanarm-2.18.1/rstanarm/inst/doc/pooling.Rmd | 26 rstanarm-2.18.1/rstanarm/inst/doc/pooling.html | 310 ++++---- rstanarm-2.18.1/rstanarm/inst/doc/priors.html | 28 rstanarm-2.18.1/rstanarm/inst/doc/rstanarm.R | 2 rstanarm-2.18.1/rstanarm/inst/doc/rstanarm.Rmd | 20 rstanarm-2.18.1/rstanarm/inst/doc/rstanarm.html | 102 +- rstanarm-2.18.1/rstanarm/inst/include/csr_matrix_times_vector2.hpp | 1 rstanarm-2.18.1/rstanarm/man/available-models.Rd | 5 rstanarm-2.18.1/rstanarm/man/example_jm.Rd | 2 rstanarm-2.18.1/rstanarm/man/example_model.Rd | 2 rstanarm-2.18.1/rstanarm/man/launch_shinystan.stanreg.Rd | 2 rstanarm-2.18.1/rstanarm/man/log_lik.stanreg.Rd | 4 rstanarm-2.18.1/rstanarm/man/loo.stanreg.Rd | 21 rstanarm-2.18.1/rstanarm/man/loo_predict.stanreg.Rd | 9 rstanarm-2.18.1/rstanarm/man/model.frame.stanmvreg.Rd | 3 rstanarm-2.18.1/rstanarm/man/plot.predict.stanjm.Rd | 7 rstanarm-2.18.1/rstanarm/man/plot.survfit.stanjm.Rd | 4 rstanarm-2.18.1/rstanarm/man/posterior_interval.stanreg.Rd | 4 rstanarm-2.18.1/rstanarm/man/posterior_predict.stanreg.Rd | 5 rstanarm-2.18.1/rstanarm/man/posterior_survfit.Rd | 5 rstanarm-2.18.1/rstanarm/man/posterior_traj.Rd | 5 rstanarm-2.18.1/rstanarm/man/posterior_vs_prior.Rd | 6 rstanarm-2.18.1/rstanarm/man/pp_check.stanreg.Rd | 4 rstanarm-2.18.1/rstanarm/man/predictive_error.stanreg.Rd | 4 rstanarm-2.18.1/rstanarm/man/predictive_interval.stanreg.Rd | 6 rstanarm-2.18.1/rstanarm/man/print.stanreg.Rd | 37 rstanarm-2.18.1/rstanarm/man/rstanarm-package.Rd | 5 rstanarm-2.18.1/rstanarm/man/stan_betareg.Rd | 19 rstanarm-2.18.1/rstanarm/man/stan_biglm.Rd | 38 - rstanarm-2.18.1/rstanarm/man/stan_gamm4.Rd | 19 rstanarm-2.18.1/rstanarm/man/stan_glm.Rd | 125 ++- rstanarm-2.18.1/rstanarm/man/stan_glmer.Rd | 44 - rstanarm-2.18.1/rstanarm/man/stan_jm.Rd | 17 rstanarm-2.18.1/rstanarm/man/stan_lm.Rd | 56 - rstanarm-2.18.1/rstanarm/man/stan_mvmer.Rd | 7 rstanarm-2.18.1/rstanarm/man/stan_nlmer.Rd | 6 rstanarm-2.18.1/rstanarm/man/summary.stanreg.Rd | 8 rstanarm-2.18.1/rstanarm/src/Makevars | 4 rstanarm-2.18.1/rstanarm/src/Makevars.win | 7 rstanarm-2.18.1/rstanarm/src/stan_files/bernoulli.stan | 42 - rstanarm-2.18.1/rstanarm/src/stan_files/binomial.stan | 29 rstanarm-2.18.1/rstanarm/src/stan_files/continuous.stan | 89 +- rstanarm-2.18.1/rstanarm/src/stan_files/count.stan | 54 - rstanarm-2.18.1/rstanarm/src/stan_files/data/data_glm.stan | 1 rstanarm-2.18.1/rstanarm/src/stan_files/functions/SSfunctions.stan | 2 rstanarm-2.18.1/rstanarm/src/stan_files/functions/bernoulli_likelihoods.stan | 4 rstanarm-2.18.1/rstanarm/src/stan_files/functions/common_functions.stan | 39 - rstanarm-2.18.1/rstanarm/src/stan_files/functions/continuous_likelihoods.stan | 6 rstanarm-2.18.1/rstanarm/src/stan_files/functions/jm_functions.stan | 16 rstanarm-2.18.1/rstanarm/src/stan_files/functions/mvmer_functions.stan | 40 - rstanarm-2.18.1/rstanarm/src/stan_files/gqs/gen_quantities_mvmer.stan | 28 rstanarm-2.18.1/rstanarm/src/stan_files/model/assoc_evaluate.stan | 70 - rstanarm-2.18.1/rstanarm/src/stan_files/model/eta_add_Zb.stan | 4 rstanarm-2.18.1/rstanarm/src/stan_files/model/eta_no_intercept.stan | 2 rstanarm-2.18.1/rstanarm/src/stan_files/model/eta_z_no_intercept.stan | 4 rstanarm-2.18.1/rstanarm/src/stan_files/model/make_eta.stan | 4 rstanarm-2.18.1/rstanarm/src/stan_files/model/make_eta_bern.stan | 23 rstanarm-2.18.1/rstanarm/src/stan_files/model/priors_mvmer.stan | 4 rstanarm-2.18.1/rstanarm/src/stan_files/polr.stan | 28 rstanarm-2.18.1/rstanarm/src/stan_files/tdata/tdata_glm.stan | 5 rstanarm-2.18.1/rstanarm/src/stan_files/tdata/tdata_mvmer.stan | 4 rstanarm-2.18.1/rstanarm/src/stan_files/tparameters/tparameters_betareg.stan | 12 rstanarm-2.18.1/rstanarm/src/stan_files/tparameters/tparameters_glm.stan | 11 rstanarm-2.18.1/rstanarm/tests/testthat.R | 4 rstanarm-2.18.1/rstanarm/tests/testthat/Rplots.pdf |only rstanarm-2.18.1/rstanarm/tests/testthat/include/csr_matrix_times_vector2.hpp | 1 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/bernoulli.stan | 42 - rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/binomial.stan | 29 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/continuous.stan | 89 +- rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/count.stan | 54 - rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/data/data_glm.stan | 1 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/functions/SSfunctions.stan | 2 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/functions/bernoulli_likelihoods.stan | 4 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/functions/common_functions.stan | 39 - rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/functions/continuous_likelihoods.stan | 6 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/functions/jm_functions.stan | 16 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/functions/mvmer_functions.stan | 40 - rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/gqs/gen_quantities_mvmer.stan | 28 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/assoc_evaluate.stan | 70 - rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/eta_add_Zb.stan | 4 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/eta_no_intercept.stan | 2 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/eta_z_no_intercept.stan | 4 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/make_eta.stan | 4 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/make_eta_bern.stan | 23 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/model/priors_mvmer.stan | 4 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/polr.stan | 28 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/tdata/tdata_glm.stan | 5 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/tdata/tdata_mvmer.stan | 4 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/tparameters/tparameters_betareg.stan | 12 rstanarm-2.18.1/rstanarm/tests/testthat/stan_files/tparameters/tparameters_glm.stan | 11 rstanarm-2.18.1/rstanarm/tests/testthat/test_loo.R | 23 rstanarm-2.18.1/rstanarm/tests/testthat/test_methods.R | 40 - rstanarm-2.18.1/rstanarm/tests/testthat/test_misc.R | 23 rstanarm-2.18.1/rstanarm/tests/testthat/test_plots.R | 4 rstanarm-2.18.1/rstanarm/tests/testthat/test_posterior_predict.R | 18 rstanarm-2.18.1/rstanarm/tests/testthat/test_pp_check.R | 11 rstanarm-2.18.1/rstanarm/tests/testthat/test_pp_validate.R | 2 rstanarm-2.18.1/rstanarm/tests/testthat/test_predict.R | 12 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_betareg.R | 47 - rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_clogit.R | 2 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_functions.R | 1 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_glm.R | 115 +-- rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_glmer.R | 27 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_jm.R | 6 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_lm.R | 24 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_mvmer.R | 13 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_nlmer.R | 2 rstanarm-2.18.1/rstanarm/tests/testthat/test_stan_polr.R | 8 rstanarm-2.18.1/rstanarm/vignettes/aov.Rmd | 2 rstanarm-2.18.1/rstanarm/vignettes/betareg.Rmd | 2 rstanarm-2.18.1/rstanarm/vignettes/binomial.Rmd | 4 rstanarm-2.18.1/rstanarm/vignettes/continuous.Rmd | 14 rstanarm-2.18.1/rstanarm/vignettes/count.Rmd | 4 rstanarm-2.18.1/rstanarm/vignettes/glmer.Rmd | 12 rstanarm-2.18.1/rstanarm/vignettes/jm.Rmd | 8 rstanarm-2.18.1/rstanarm/vignettes/lm.Rmd | 12 rstanarm-2.18.1/rstanarm/vignettes/pooling.Rmd | 26 rstanarm-2.18.1/rstanarm/vignettes/rstanarm.Rmd | 20 177 files changed, 2543 insertions(+), 2047 deletions(-)
Title: Compute Krippendorff's Alpha
Description: Provides functions to compute and plot Krippendorff's inter-coder
reliability coefficient alpha and bootstrapped uncertainty estimates
(Krippendorff 2004, ISBN:0761915443). The bootstrap routines are set up to
make use of parallel threads where supported.
Author: Alexander Staudt [aut, cre], Pierre L'Ecuyer [ctb] (author of the C++ RNG code)
Maintainer: Alexander Staudt <staudtlex@live.de>
Diff between icr versions 0.5.7 dated 2018-10-12 and 0.5.8 dated 2018-10-21
DESCRIPTION | 10 +- MD5 | 10 +- NAMESPACE | 2 R/krippalpha.R | 231 +++++++++++++++++++++++++++--------------------------- R/plot_icr.R | 192 ++++++++++++++++++++++---------------------- man/krippalpha.Rd | 6 - 6 files changed, 228 insertions(+), 223 deletions(-)
Title: Alluvial Diagrams in 'ggplot2'
Description: Alluvial diagrams use x-splines, sometimes augmented with stacked
histograms, to visualize multi-dimensional or repeated-measures data with
categorical or ordinal variables. They can be viewed as simplified and
standardized Sankey diagrams; see Riehmann, Hanfler, and Froehlich (2005)
<doi:10.1109/INFVIS.2005.1532152> and Rosvall and Bergstrom (2010)
<doi:10.1371/journal.pone.0008694>. This package provides ggplot2 layers
to produce alluvial diagrams from tidy data.
Author: Jason Cory Brunson [aut, cre]
Maintainer: Jason Cory Brunson <cornelioid@gmail.com>
Diff between ggalluvial versions 0.9.0 dated 2018-07-06 and 0.9.1 dated 2018-10-21
ggalluvial |only 1 file changed
Title: Tidying Methods for Mixed Models
Description: Convert fitted objects from various R mixed-model packages
into tidy data frames along the lines of the 'broom' package.
The package provides three
S3 generics for each model: tidy(), which summarizes a model's statistical findings such as
coefficients of a regression; augment(), which adds columns to the original
data such as predictions, residuals and cluster assignments; and glance(), which
provides a one-row summary of model-level statistics.
Author: Ben Bolker [aut, cre] (<https://orcid.org/0000-0002-2127-0443>),
David Robinson [aut],
Dieter Menne [ctb],
Jonah Gabry [ctb],
Paul Buerkner [ctb],
Christopher Hua [ctb],
Will Petry [ctb],
Josh Wiley [ctb],
Patrick Kennedy [ctb]
Maintainer: Ben Bolker <bolker@mcmaster.ca>
Diff between broom.mixed versions 0.2.2 dated 2018-09-20 and 0.2.3 dated 2018-10-21
broom.mixed-0.2.2/broom.mixed/README.md |only broom.mixed-0.2.2/broom.mixed/inst/extdata/brms_example.rds |only broom.mixed-0.2.3/broom.mixed/DESCRIPTION | 19 - broom.mixed-0.2.3/broom.mixed/MD5 | 55 ++-- broom.mixed-0.2.3/broom.mixed/R/MCMCglmm_tidiers.R | 5 broom.mixed-0.2.3/broom.mixed/R/brms_tidiers.R | 128 +++++++--- broom.mixed-0.2.3/broom.mixed/R/glmmTMB_tidiers.R | 56 ++-- broom.mixed-0.2.3/broom.mixed/R/lme4_tidiers.R | 5 broom.mixed-0.2.3/broom.mixed/R/mcmc_tidiers.R | 13 - broom.mixed-0.2.3/broom.mixed/R/rstanarm_tidiers.R | 28 +- broom.mixed-0.2.3/broom.mixed/R/utilities.R | 6 broom.mixed-0.2.3/broom.mixed/build |only broom.mixed-0.2.3/broom.mixed/inst/NEWS.Rd | 25 + broom.mixed-0.2.3/broom.mixed/inst/capabilities.csv | 14 + broom.mixed-0.2.3/broom.mixed/inst/doc |only broom.mixed-0.2.3/broom.mixed/inst/extdata/MCMCglmm_example.rda |binary broom.mixed-0.2.3/broom.mixed/inst/extdata/brms_example.rda |only broom.mixed-0.2.3/broom.mixed/inst/extdata/efc.rds |only broom.mixed-0.2.3/broom.mixed/inst/extdata/glmmTMB_example.rda |binary broom.mixed-0.2.3/broom.mixed/inst/extdata/lme4_example.rda |binary broom.mixed-0.2.3/broom.mixed/inst/extdata/nlme_example.rda |binary broom.mixed-0.2.3/broom.mixed/inst/extdata/rstanarm_example.rds |binary broom.mixed-0.2.3/broom.mixed/man/brms_tidiers.Rd | 31 +- broom.mixed-0.2.3/broom.mixed/man/mcmc_tidiers.Rd | 12 broom.mixed-0.2.3/broom.mixed/man/rstanarm_tidiers.Rd | 12 broom.mixed-0.2.3/broom.mixed/tests/testthat/test-alltibbles.R | 14 - broom.mixed-0.2.3/broom.mixed/tests/testthat/test-glmmTMB.R | 38 ++ broom.mixed-0.2.3/broom.mixed/tests/testthat/test-lme4.R | 20 + broom.mixed-0.2.3/broom.mixed/tests/testthat/test-mcmc.R | 50 +++ broom.mixed-0.2.3/broom.mixed/tests/testthat/test-rstanarm.R | 3 broom.mixed-0.2.3/broom.mixed/vignettes |only 31 files changed, 381 insertions(+), 153 deletions(-)
Title: Bridge Sampling for Marginal Likelihoods and Bayes Factors
Description: Provides functions for estimating marginal likelihoods, Bayes
factors, posterior model probabilities, and normalizing constants in general,
via different versions of bridge sampling (Meng & Wong, 1996,
<http://www3.stat.sinica.edu.tw/statistica/j6n4/j6n43/j6n43.htm>).
Author: Quentin F. Gronau [aut, cre] (<https://orcid.org/0000-0001-5510-6943>),
Henrik Singmann [aut] (<https://orcid.org/0000-0002-4842-3657>),
Jonathan J. Forster [ctb],
Eric-Jan Wagenmakers [ths],
The JASP Team [ctb],
Jiqiang Guo [ctb],
Jonah Gabry [ctb],
Ben Goodrich [ctb],
Kees Mulder [ctb],
Perry de Valpine [ctb]
Maintainer: Quentin F. Gronau <Quentin.F.Gronau@gmail.com>
Diff between bridgesampling versions 0.5-2 dated 2018-08-19 and 0.6-0 dated 2018-10-21
DESCRIPTION | 12 ++-- MD5 | 45 ++++++++++------- NEWS | 22 ++++++++ R/ier-data.R | 2 build/vignette.rds |binary inst/doc/bridgesampling_example_jags.html | 58 +++++++++++------------ inst/doc/bridgesampling_example_nimble.R |only inst/doc/bridgesampling_example_nimble.Rmd |only inst/doc/bridgesampling_example_nimble.html |only inst/doc/bridgesampling_example_stan.html | 26 +++++----- inst/doc/bridgesampling_paper.pdf |binary inst/doc/bridgesampling_paper.pdf.asis | 2 inst/doc/bridgesampling_paper_extended.pdf |only inst/doc/bridgesampling_paper_extended.pdf.asis |only inst/doc/bridgesampling_stan_ttest.R | 12 +++- inst/doc/bridgesampling_stan_ttest.Rmd | 14 ++++- inst/doc/bridgesampling_stan_ttest.html | 49 +++++++------------ inst/extdata/vignette_example_nimble.RData |only inst/extdata/vignette_example_stan.RData |binary inst/extdata/vignette_stan_ttest.RData |binary man/bridge_sampler.Rd | 55 +++++++++++---------- man/ier.Rd | 2 man/post_prob.Rd | 6 +- tests/testthat/test-vignette_example_nimble.R |only vignettes/bridgesampling_example_nimble.Rmd |only vignettes/bridgesampling_paper.pdf.asis | 2 vignettes/bridgesampling_paper_extended.pdf.asis |only vignettes/bridgesampling_stan_ttest.Rmd | 14 ++++- 28 files changed, 184 insertions(+), 137 deletions(-)
More information about bridgesampling at CRAN
Permanent link
Title: Assertions to Check Properties of Strings
Description: A set of predicates and assertions for checking the properties of
UK-specific complex data types. This is mainly for use by other package
developers who want to include run-time testing features in their own
packages. End-users will usually want to use assertive directly.
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton <richierocks@gmail.com>
Diff between assertive.data.uk versions 0.0-1 dated 2015-10-06 and 0.0-2 dated 2018-10-21
DESCRIPTION | 11 MD5 | 28 - NAMESPACE | 50 - NEWS | 3 R/assert-is-data-uk.R | 278 +++++----- R/imports.R | 18 R/is-data-uk.R | 860 ++++++++++++++++----------------- README.md | 3 man/is_uk_car_licence.Rd | 179 +++--- man/is_uk_national_insurance_number.Rd | 131 ++--- man/is_uk_postcode.Rd | 107 ++-- man/is_uk_telephone_number.Rd | 103 +-- po/R-assertive.data.uk.pot | 72 +- tests/testthat.R | 12 tests/testthat/test-is-data-uk.R | 538 ++++++++++---------- 15 files changed, 1195 insertions(+), 1198 deletions(-)
More information about assertive.data.uk at CRAN
Permanent link
Title: Assertions to Check Properties of Strings
Description: A set of predicates and assertions for checking the properties of
US-specific complex data types. This is mainly for use by other package
developers who want to include run-time testing features in their own
packages. End-users will usually want to use assertive directly.
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton <richierocks@gmail.com>
Diff between assertive.data.us versions 0.0-1 dated 2015-10-06 and 0.0-2 dated 2018-10-21
DESCRIPTION | 9 +- MD5 | 22 +++--- NAMESPACE | 2 NEWS | 3 R/imports.R | 18 ++--- README.md | 3 man/is_us_social_security_number.Rd | 93 ++++++++++++------------- man/is_us_telephone_number.Rd | 129 +++++++++++++++++------------------- man/is_us_zip_code.Rd | 127 +++++++++++++++++------------------ po/R-assertive.data.us.pot | 48 ++++++------- tests/testthat.R | 12 +-- tests/testthat/test-is-data-us.R | 110 +++++++++++++++--------------- 12 files changed, 287 insertions(+), 289 deletions(-)
More information about assertive.data.us at CRAN
Permanent link
Title: Assertions to Check Properties of Models
Description: A set of predicates and assertions for checking the properties of
models. This is mainly for use by other package developers who want to
include run-time testing features in their own packages. End-users will
usually want to use assertive directly.
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton <richierocks@gmail.com>
Diff between assertive.models versions 0.0-1 dated 2015-10-06 and 0.0-2 dated 2018-10-21
DESCRIPTION | 11 +- MD5 | 30 +++---- NAMESPACE | 26 +++--- NEWS | 3 R/assert-has-terms.R | 28 +++--- R/assert-is-empty-model.R | 50 +++++------ R/has-terms.R | 64 +++++++-------- R/imports.R | 10 +- R/is-empty-model.R | 148 +++++++++++++++++++---------------- README.md | 80 ++++++++++-------- man/has_terms.Rd | 69 ++++++++-------- man/is_empty_model.Rd | 99 ++++++++++++----------- po/R-assertive.models.pot | 60 +++++++------- tests/testthat.R | 12 -- tests/testthat/test-has-terms.R | 74 ++++++++--------- tests/testthat/test-is-empty-model.R | 62 +++++++------- 16 files changed, 429 insertions(+), 397 deletions(-)
More information about assertive.models at CRAN
Permanent link
Title: Assertions to Check Properties of Code
Description: A set of predicates and assertions for checking the properties of
code. This is mainly for use by other package developers who want to include
run-time testing features in their own packages. End-users will usually want to
use assertive directly.
Author: Richard Cotton [aut, cre]
Maintainer: Richard Cotton <richierocks@gmail.com>
Diff between assertive.code versions 0.0-1 dated 2015-10-06 and 0.0-3 dated 2018-10-21
DESCRIPTION | 11 MD5 | 38 - NAMESPACE | 74 +- NEWS | 3 R/imports.R | 12 R/is-code.R | 868 +++++++++++++-------------- README.md | 109 +-- man/has_arg.Rd | 95 +- man/is_binding_locked.Rd | 109 +-- man/is_debugged.Rd | 61 - man/is_error_free.Rd | 45 - man/is_existing.Rd | 99 +-- man/is_if_condition.Rd | 86 +- man/is_loaded.Rd | 75 +- man/is_valid_r_code.Rd | 68 +- man/is_valid_variable_name.Rd | 123 +-- po/R-assertive.code.pot | 132 ++-- tests/testthat.R | 14 tests/testthat/test-is-code.R | 288 ++++---- tests/testthat/test-is-valid-variable-name.R | 186 ++--- 20 files changed, 1245 insertions(+), 1251 deletions(-)
More information about assertive.code at CRAN
Permanent link
Title: Convenience Functions for Education Data
Description: Collection of convenience functions to make working with
administrative records easier and more consistent. Includes functions to
clean strings, and identify cut points. Also includes three example data
sets of administrative education records for learning how to process records
with errors.
Author: Jason P. Becker [ctb],
Jared E. Knowles [aut, cre]
Maintainer: Jared E. Knowles <jknowles@gmail.com>
Diff between eeptools versions 1.2.0 dated 2018-05-30 and 1.2.1 dated 2018-10-21
DESCRIPTION | 9 MD5 | 24 +- NEWS.md | 11 + R/age_calc.R | 194 +++++++++--------- R/autoplot.lm.R | 206 +++++++++---------- R/max_mis.R | 2 R/moves_calc.R | 334 +++++++++++++++---------------- build/vignette.rds |binary inst/doc/intro.html | 8 tests/testthat/test-calculators.R | 390 +++++++++++++++++++----------------- tests/testthat/test-edutils.R | 323 +++++++++++++++--------------- tests/testthat/test-statamode.r | 272 ++++++++++++------------- tests/testthat/test-utils.R | 407 +++++++++++++++++++------------------- 13 files changed, 1114 insertions(+), 1066 deletions(-)
Title: Change R Package Name
Description: Changing the name of an existing R package is annoying but common task especially in the early stages of package development. This package (mostly) automates this task.
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between changer versions 0.0.2 dated 2018-10-19 and 0.0.3 dated 2018-10-21
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- R/changer.R | 9 +++++---- man/changer.Rd | 2 +- 4 files changed, 14 insertions(+), 12 deletions(-)
Title: Single Cell Genomics for Enhancing Cell Composition Inference
from Bulk Genomics Data
Description: Cellular population mapping (CPM) a deconvolution algorithm in which single-cell genomics is required in only one or a few samples, where in other samples of the same tissue, only bulk genomics is measured and the underlying fine resolution cellular heterogeneity is inferred.
Author: Amit Frishberg [aut, cre], Naama Peshes-Yaloz [aut], Irit Gat-Viks [aut]
Maintainer: Amit Frishberg <amfrishberg@gmail.com>
Diff between scBio versions 0.1.1 dated 2018-10-13 and 0.1.2 dated 2018-10-21
DESCRIPTION | 6 ++--- MD5 | 6 ++--- R/scBio.R | 69 ++++++++++++++++++++++++++++++++++++++++++++++++++---------- man/CPM.Rd | 14 +++++++----- 4 files changed, 73 insertions(+), 22 deletions(-)
Title: R API Datetime
Description: Access to the C-level R date and datetime code is provided for
C-level API use by other packages via registration of native functions.
Client packages simply include a single header 'RApiDatetime.h' provided
by this package, and also 'import' it. The R Core group is the original
author of the code made available with slight modifications by this package.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RApiDatetime versions 0.0.3 dated 2017-04-02 and 0.0.4 dated 2018-10-21
ChangeLog | 21 +++ DESCRIPTION | 10 - MD5 | 23 +-- NAMESPACE | 3 R/asDatePOSIXct.R |only README.md | 2 cleanup |only inst/NEWS.Rd | 7 + man/asDatePOSIXct.Rd |only src/Rstrptime.h | 10 - src/attrib.c | 14 +- src/datetime.c | 338 ++++++++++++++++++++++++++++++++------------------- src/init.c | 3 tests/test.R | 1 14 files changed, 283 insertions(+), 149 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-02 0.2.7
2017-02-28 0.2.6
2017-01-08 0.2.4
Title: Van Westendorp Price Sensitivity Meter Analysis
Description: An implementation of the van Westendorp Price
Sensitivity Meter in R, which is a survey-based approach
to analyze consumer price preferences and sensitivity
(van Westendorp 1976, isbn:9789283100386).
Author: Max Alletsee [aut, cre]
Maintainer: Max Alletsee <max.alletsee@gmail.com>
Diff between pricesensitivitymeter versions 0.3.3 dated 2018-10-14 and 0.4.1 dated 2018-10-21
DESCRIPTION | 8 +-- MD5 | 29 +++++------ NEWS | 10 +++ R/psm_functions.R | 66 ++++--------------------- R/psm_summary.r |only build/vignette.rds |binary inst/doc/interpolation-in-small-samples.html | 69 ++++++++++++++------------- inst/doc/visualizing-psm-results.R | 40 +++++++-------- inst/doc/visualizing-psm-results.Rmd | 46 +++++++++--------- inst/doc/visualizing-psm-results.html | 58 ++++++++++++---------- man/psm-class.Rd | 6 +- man/psm_analysis.rd | 16 +++--- man/summary.psm.Rd | 2 tests/testthat/test_data_input.R | 3 + tests/testthat/test_data_output.R | 4 - vignettes/visualizing-psm-results.Rmd | 46 +++++++++--------- 16 files changed, 194 insertions(+), 209 deletions(-)
More information about pricesensitivitymeter at CRAN
Permanent link
Title: Deep Learning with Metaheuristic
Description: Fits from simple regression to highly customizable deep neural networks
either with gradient descent or metaheuristic, using automatic hyper parameters
tuning and custom cost function.
A mix inspired by the common tricks on Deep Learning and Particle Swarm Optimization.
Author: Alex Boulangé <aboul@free.fr>
Maintainer: Alex Boulangé <alex@socialintelligence.fr>
Diff between automl versions 1.0.5 dated 2018-09-13 and 1.0.6 dated 2018-10-21
DESCRIPTION | 7 ++++--- MD5 | 17 +++++++++++++---- NEWS |only R/automl.R | 28 ++++++++++++++++++++++++---- build |only inst |only man/automl_train_manual.Rd | 9 +++++---- man/autopar.Rd | 7 ++++++- vignettes |only 9 files changed, 52 insertions(+), 16 deletions(-)
Title: Bayesian Ordination and Regression AnaLysis
Description: Bayesian approaches for analyzing multivariate data in ecology. Estimation is performed using Markov Chain Monte Carlo (MCMC) methods via Three. JAGS types of models may be fitted: 1) With explanatory variables only, boral fits independent column Generalized Linear Models (GLMs) to each column of the response matrix; 2) With latent variables only, boral fits a purely latent variable model for model-based unconstrained ordination; 3) With explanatory and latent variables, boral fits correlated column GLMs with latent variables to account for any residual correlation between the columns of the response matrix.
Author: Francis K.C. Hui <fhui28@gmail.com>, with contributions from Wade Blanchard <wade.blanchard@anu.edu.au>
Maintainer: Francis Hui <fhui28@gmail.com>
Diff between boral versions 1.6.1 dated 2018-05-15 and 1.7 dated 2018-10-21
DESCRIPTION | 10 MD5 | 75 - R/auxilaryfunctions.R | 1535 +++++++++++++----------------------- R/boral.jags.R | 1739 +++++++++++++++++++---------------------- R/calclogLfunctions.R | 726 ++++++++--------- R/getcorrelations.R |only R/getmeasures.R |only R/lvsplots.R |only R/makejagsboralmodel.R | 544 ++++++------ R/makejagsboralnullmodel.R | 478 +++++------ R/simdatafunctions.R | 433 +++++----- R/unseenfunctions.R | 836 ++++++++++--------- build |only inst/NEWS.Rd | 9 man/about.distributions.Rd | 21 man/about.lvs.Rd |only man/about.ssvs.Rd | 24 man/about.traits.Rd | 25 man/boral-package.Rd | 8 man/boral.Rd | 205 ++-- man/calc.condlogLik.Rd | 27 man/calc.logLik.lv0.Rd | 30 man/calc.marglogLik.Rd | 30 man/calc.varpart.Rd | 13 man/coefsplot.Rd | 10 man/create.life.Rd | 82 + man/ds.residuals.Rd | 8 man/fitted.boral.Rd | 8 man/get.dic.Rd | 11 man/get.enviro.cor.Rd | 6 man/get.hpdintervals.Rd | 36 man/get.mcmcsamples.Rd | 6 man/get.measures.Rd | 16 man/get.more.measures.Rd | 32 man/get.residual.cor.Rd | 11 man/lvsplot.Rd | 12 man/make.jagsboralmodel.Rd | 55 - man/make.jagsboralnullmodel.Rd | 26 man/plot.boral.Rd | 16 man/predict.boral.Rd | 59 + man/summary.boral.Rd | 14 41 files changed, 3511 insertions(+), 3665 deletions(-)
Title: Tools for Designing and Weighting Survey Samples
Description: Functions and datasets to support Valliant, Dever, and Kreuter, ``Practical Tools for Designing and Weighting Survey Samples'' (2nd edition, 2018). Contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs. Other functions compute variance components for multistage designs and sample sizes in two-phase designs. A number of example data sets are included.
Author: Richard Valliant, Jill A. Dever, Frauke Kreuter
Maintainer: Richard Valliant <rvallian@umd.edu>
Diff between PracTools versions 0.9 dated 2018-06-13 and 1.1 dated 2018-10-21
DESCRIPTION | 10 +++++----- MD5 | 28 +++++++++++++++------------- R/pclass.R | 3 ++- data/Domainy1y2.RData |binary data/MDarea.pop.RData |binary data/ThirdGrade.RData |only data/datalist | 1 + data/hospital.RData |binary data/labor.RData |binary data/mibrfss.RData |binary data/nhis.RData |binary data/nhis.large.RData |binary data/nhispart.RData |binary data/smho.N874.RData |binary data/smho98.RData |binary man/ThirdGrade.Rd |only 16 files changed, 23 insertions(+), 19 deletions(-)
Title: Deterministic Computation of Text Box Metrics
Description: Unlike other tools that dynamically link to the 'Cairo'
stack, 'freetypeharfbuzz' is statically linked to specific
versions of the 'FreeType' and 'harfbuzz' libraries (2.9 and 1.7.6
respectively). This ensures deterministic computation of text box
extents for situations where reproducible results are crucial (for
instance unit tests of graphics).
Author: Lionel Henry [aut, cre],
RStudio [cph],
David Turner [aut] (FreeType library),
Robert Wilhelm [aut] (FreeType library),
Werner Wilhelm [aut] (FreeType library),
Behdad Esfahbod [aut] (Harfbuzz library),
Simon Hausmann [aut] (Harfbuzz library),
Martin Hosken [aut] (Harfbuzz library),
Jonathan Kew [aut] (Harfbuzz library),
Lars Knoll [aut] (Harfbuzz library),
Werner Lemberg [aut] (Harfbuzz library),
Roozbeh Pournader [aut] (Harfbuzz library),
Owen Taylor [aut] (Harfbuzz library),
David Turner [aut] (Harfbuzz library),
Red Hat [cph] (Harfbuzz library)
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between freetypeharfbuzz versions 0.1.0 dated 2018-06-12 and 0.2.4 dated 2018-10-21
freetypeharfbuzz-0.1.0/freetypeharfbuzz/src/Makevars |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/DESCRIPTION | 12 +-- freetypeharfbuzz-0.2.4/freetypeharfbuzz/MD5 | 37 +++++++--- freetypeharfbuzz-0.2.4/freetypeharfbuzz/NAMESPACE | 3 freetypeharfbuzz-0.2.4/freetypeharfbuzz/NEWS.md | 18 ++++ freetypeharfbuzz-0.2.4/freetypeharfbuzz/R/freetypeharfbuzz.R | 30 +++++++- freetypeharfbuzz-0.2.4/freetypeharfbuzz/configure |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/configure.win |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/man |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/src/Makebuild |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/src/Makestatic |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/src/Makestatic.in |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/src/Makevars.in |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/src/Makevars.win | 13 ++- freetypeharfbuzz-0.2.4/freetypeharfbuzz/tests/testthat/helper-extents.R | 6 - freetypeharfbuzz-0.2.4/freetypeharfbuzz/tests/testthat/test-string-info.R | 16 ++-- freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/Makefile | 37 ++++++++-- freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0001-Undefine-HB_PRINTF_FUNC.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0002-Remove-unnecessary-trailing-semi-colon.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0003-Initialise-offsets.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0004-Cast-to-void-before-memset.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0005-Silence-gcc-warning.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0006-Remove-flags-causing-warnings-on-Solaris.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/0007-Silence-Solaris-warnings-about-symbol-hiding.patch |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/freetype |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/diffs/harfbuzz-flag.diff |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/include-windows.zip |only freetypeharfbuzz-0.2.4/freetypeharfbuzz/tools/winlibs.R | 18 +++- 28 files changed, 147 insertions(+), 43 deletions(-)
More information about freetypeharfbuzz at CRAN
Permanent link
Title: Fluid Data Transformations
Description: Supplies higher-order fluid data transform operators that include pivot and anti-pivot as special cases.
The methodology is describe in 'Zumel', 2018, "Fluid data reshaping with 'cdata'", <http://winvector.github.io/FluidData/FluidDataReshapingWithCdata.html> , doi:10.5281/zenodo.1173299 .
Based on the 'DBI' database interface.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between cdata versions 1.0.2 dated 2018-10-08 and 1.0.3 dated 2018-10-21
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++++----- NEWS.md | 5 +++++ R/LocalOps.R | 14 +++++++++++++- README.md | 2 +- inst/doc/cdata.html | 6 +++--- tests/testthat/chickw.RDS |only tests/testthat/seatbelts.RDS |only tests/testthat/test_chicks.R |only tests/testthat/test_seatbelts.R |only 10 files changed, 36 insertions(+), 15 deletions(-)