Title: Simple Variable Treatment
Description: Prepares variables so that data has fewer exceptional cases, making it easier to safely use models in production. Common problems 'vtreat' defends against: Inf, NA, too many categorical values, rare categorical values, new categorical values (levels seen during application, but not during training). 'vtreat::prepare' should be used as you would use 'model.matrix'.
Author: John Mount, Nina Zumel
Maintainer: John Mount <jmount@win-vector.com>
Diff between vtreat versions 0.5.14 dated 2015-09-06 and 0.5.16 dated 2015-09-13
DESCRIPTION | 8 - MD5 | 27 +++--- NAMESPACE | 2 R/vtreat.R | 170 ++++++++++++++++++++++++++++------------- README.md | 166 ++++++++++++++++++++++++++++------------ build/vignette.rds |binary inst/doc/vtreatOverfit.R |only inst/doc/vtreatOverfit.Rmd |only inst/doc/vtreatOverfit.html |only man/designTreatmentsC.Rd | 9 +- man/designTreatmentsN.Rd | 9 +- man/vtreat-package.Rd | 4 tests/testthat/testBO.R | 4 tests/testthat/testDataTable.R |only tests/testthat/testW1.R | 8 + vignettes/vtreat.Rmd | 14 ++- vignettes/vtreatOverfit.Rmd |only 17 files changed, 295 insertions(+), 126 deletions(-)
Title: Flexible Mediation Analysis Using Natural Effect Models
Description: Run flexible mediation analyses using natural
effect models as described in Lange, Vansteelandt and Bekaert (2012),
Vansteelandt, Bekaert and Lange (2012) and Loeys, Moerkerke, De Smet,
Buysse, Steen and Vansteelandt (2013).
Author: Johan Steen [aut, cre],
Tom Loeys [aut],
Beatrijs Moerkerke [aut],
Stijn Vansteelandt [aut],
Joris Meys [ctb] (technical support),
Theis Lange [ctb] (valuable suggestions)
Maintainer: Johan Steen <johan.steen@gmail.com>
Diff between medflex versions 0.5-1 dated 2015-07-01 and 0.6-0 dated 2015-09-13
medflex-0.5-1/medflex/man/weights.expData.Rd |only medflex-0.5-1/medflex/vignettes/medflex-fig2.pdf |only medflex-0.6-0/medflex/DESCRIPTION | 19 medflex-0.6-0/medflex/MD5 | 67 medflex-0.6-0/medflex/NAMESPACE | 9 medflex-0.6-0/medflex/NEWS | 9 medflex-0.6-0/medflex/R/neImpute.R | 3 medflex-0.6-0/medflex/R/neLht.R | 18 medflex-0.6-0/medflex/R/neModel.R | 184 +- medflex-0.6-0/medflex/R/neWeight.R | 7 medflex-0.6-0/medflex/R/terms-expand.R | 7 medflex-0.6-0/medflex/R/utils.R | 7 medflex-0.6-0/medflex/inst/doc/medflex.Rnw | 468 +++--- medflex-0.6-0/medflex/inst/doc/medflex.pdf |binary medflex-0.6-0/medflex/inst/doc/sandwich.Rnw | 27 medflex-0.6-0/medflex/inst/doc/sandwich.pdf |binary medflex-0.6-0/medflex/man/UPBdata.Rd | 2 medflex-0.6-0/medflex/man/expData-methods.Rd |only medflex-0.6-0/medflex/man/expData.Rd | 6 medflex-0.6-0/medflex/man/neImpute.Rd | 2 medflex-0.6-0/medflex/man/neImpute.default.Rd | 2 medflex-0.6-0/medflex/man/neImpute.formula.Rd | 2 medflex-0.6-0/medflex/man/neLht-methods.Rd | 2 medflex-0.6-0/medflex/man/neLht.Rd | 2 medflex-0.6-0/medflex/man/neModel-methods.Rd | 18 medflex-0.6-0/medflex/man/neModel.Rd | 2 medflex-0.6-0/medflex/man/neWeight.Rd | 4 medflex-0.6-0/medflex/man/neWeight.default.Rd | 2 medflex-0.6-0/medflex/man/neWeight.formula.Rd | 2 medflex-0.6-0/medflex/man/plot.neLht.Rd | 2 medflex-0.6-0/medflex/man/plot.neModel.Rd | 2 medflex-0.6-0/medflex/vignettes/bib.bib | 1656 +++++++++++++---------- medflex-0.6-0/medflex/vignettes/medflex.Rnw | 468 +++--- medflex-0.6-0/medflex/vignettes/medflex.pdf |binary medflex-0.6-0/medflex/vignettes/sandwich.Rnw | 27 medflex-0.6-0/medflex/vignettes/sandwich.pdf |binary 36 files changed, 1809 insertions(+), 1217 deletions(-)
Title: Visualizes Random Forests with Feature Contributions
Description: Enables users to form appropriate visualizations of high dimensional mapping curvatures of random forests.
Author: Soeren Havelund Welling
Maintainer: Soeren Havelund Welling <SOWE@DTU.DK>
Diff between forestFloor versions 1.8.5 dated 2015-08-12 and 1.8.6 dated 2015-09-13
DESCRIPTION | 8 - MD5 | 26 +++--- R/plot.forestFloor_multiClass.R | 5 - R/plot.forestFloor_regression.R | 4 R/show3d.R | 14 +-- man/convolute_grid.Rd | 2 man/forestFloor.Rd | 171 +++++++++++++++++++++++++++++++--------- man/ggPlotForestFloor.Rd | 2 man/plot.forestFloor.Rd | 171 +++++++++++++++++++++++++++++----------- man/plot_simplex3.Rd | 4 man/show3d.Rd | 10 +- tests/stdUsage.R | 10 +- tests/testBinaryClass.R | 28 ------ tests/testMultiClass.cpp.R | 7 - 14 files changed, 311 insertions(+), 151 deletions(-)
Title: Wrapper Algorithm for All-Relevant Feature Selection
Description: An all-relevant feature selection wrapper algorithm.
It finds relevant features by comparing original attributes'
importance with importance achievable at random, estimated
using their permuted copies.
Author: Miron Bartosz Kursa [aut, cre],
Witold Remigiusz Rudnicki [aut]
Maintainer: Miron Bartosz Kursa <M.Kursa@icm.edu.pl>
Diff between Boruta versions 4.0.0 dated 2014-12-07 and 5.0.0 dated 2015-09-13
Boruta-4.0.0/Boruta/R/TentativeRoughFix.R |only Boruta-4.0.0/Boruta/R/plot.Boruta.R |only Boruta-5.0.0/Boruta/DESCRIPTION | 24 +- Boruta-5.0.0/Boruta/MD5 | 31 +-- Boruta-5.0.0/Boruta/NAMESPACE | 8 Boruta-5.0.0/Boruta/R/Boruta.R | 198 ++++------------------- Boruta-5.0.0/Boruta/R/importance.R |only Boruta-5.0.0/Boruta/R/tools.R |only Boruta-5.0.0/Boruta/inst/NEWS | 11 + Boruta-5.0.0/Boruta/man/Boruta.Rd | 81 ++++----- Boruta-5.0.0/Boruta/man/TentativeRoughFix.Rd | 3 Boruta-5.0.0/Boruta/man/attStats.Rd | 18 -- Boruta-5.0.0/Boruta/man/getImpFerns.Rd | 5 Boruta-5.0.0/Boruta/man/getImpLegacyRf.Rd |only Boruta-5.0.0/Boruta/man/getImpRf.Rd | 20 +- Boruta-5.0.0/Boruta/man/getSelectedAttributes.Rd | 3 Boruta-5.0.0/Boruta/man/plot.Boruta.Rd | 12 - Boruta-5.0.0/Boruta/man/plotImpHistory.Rd | 9 - Boruta-5.0.0/Boruta/man/print.Boruta.Rd | 3 19 files changed, 170 insertions(+), 256 deletions(-)
Title: Statistical Methods for the Analysis of Case-Control Point Data
Description: Various statistical methods for analyzing case-control point data.
The methods available closely follow those in chapter 6 of Applied Spatial
Statistics for Public Health Data by Waller and Gotway (2004).
Author: Joshua French
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smacpod versions 1.2.3 dated 2015-08-29 and 1.3.0 dated 2015-09-13
smacpod-1.2.3/smacpod/man/tolenv.Rd |only smacpod-1.3.0/smacpod/DESCRIPTION | 11 - smacpod-1.3.0/smacpod/MD5 | 41 ++-- smacpod-1.3.0/smacpod/NAMESPACE | 5 smacpod-1.3.0/smacpod/R/circles.intersect.R |only smacpod-1.3.0/smacpod/R/kd.R | 2 smacpod-1.3.0/smacpod/R/kdest.R | 3 smacpod-1.3.0/smacpod/R/kdplus.test.R | 3 smacpod-1.3.0/smacpod/R/nn.R |only smacpod-1.3.0/smacpod/R/plot.kdenv.R | 21 +- smacpod-1.3.0/smacpod/R/plot.logrrenv.R | 9 - smacpod-1.3.0/smacpod/R/plot.scan.R |only smacpod-1.3.0/smacpod/R/spdensity.R | 3 smacpod-1.3.0/smacpod/R/spscan.test.R | 221 ++++++++++++++++--------- smacpod-1.3.0/smacpod/R/tolenv.R | 32 +-- smacpod-1.3.0/smacpod/man/circles.intersect.Rd |only smacpod-1.3.0/smacpod/man/kd.Rd | 2 smacpod-1.3.0/smacpod/man/kdest.Rd | 5 smacpod-1.3.0/smacpod/man/kdplus.test.Rd | 5 smacpod-1.3.0/smacpod/man/nn.Rd |only smacpod-1.3.0/smacpod/man/plot.kdenv.Rd | 10 + smacpod-1.3.0/smacpod/man/plot.logrrenv.Rd | 11 + smacpod-1.3.0/smacpod/man/plot.scan.Rd |only smacpod-1.3.0/smacpod/man/spdensity.Rd | 5 smacpod-1.3.0/smacpod/man/spscan.test.Rd | 25 +- 25 files changed, 266 insertions(+), 148 deletions(-)
Title: Bayesian Regression Models using Stan
Description: Fit Bayesian generalized linear mixed models using Stan for full Bayesian inference.
Author: Paul-Christian Buerkner [aut, cre]
Maintainer: Paul-Christian Buerkner <paul.buerkner@gmail.com>
Diff between brms versions 0.4.1 dated 2015-08-02 and 0.5.0 dated 2015-09-13
brms-0.4.1/brms/R/data.docu.R |only brms-0.4.1/brms/R/internal.postfit.R |only brms-0.4.1/brms/R/internal.prefit.R |only brms-0.4.1/brms/R/main.R |only brms-0.4.1/brms/R/parser.R |only brms-0.4.1/brms/R/s3.correlations.R |only brms-0.4.1/brms/R/s3.generics.R |only brms-0.4.1/brms/R/s3.methods.R |only brms-0.4.1/brms/R/support.export.R |only brms-0.4.1/brms/man/brm.data.Rd |only brms-0.4.1/brms/man/brm.pars.Rd |only brms-0.4.1/brms/man/cor.ar.Rd |only brms-0.4.1/brms/man/cor.arma.Rd |only brms-0.4.1/brms/man/cor.ma.Rd |only brms-0.4.1/brms/man/par.names.Rd |only brms-0.4.1/brms/man/posterior.samples.Rd |only brms-0.4.1/brms/tests/testthat/tests.internal.prefit.R |only brms-0.4.1/brms/tests/testthat/tests.main.R |only brms-0.4.1/brms/tests/testthat/tests.parser.R |only brms-0.4.1/brms/tests/testthat/tests.support.export.R |only brms-0.5.0/brms/DESCRIPTION | 18 brms-0.5.0/brms/MD5 | 114 + brms-0.5.0/brms/NAMESPACE | 38 brms-0.5.0/brms/R/brm.R |only brms-0.5.0/brms/R/brmsfit-helpers.R |only brms-0.5.0/brms/R/brmsfit-methods.R |only brms-0.5.0/brms/R/correlations.R |only brms-0.5.0/brms/R/data.R |only brms-0.5.0/brms/R/datasets.R |only brms-0.5.0/brms/R/deprecated.R |only brms-0.5.0/brms/R/distributions.R |only brms-0.5.0/brms/R/generics.R |only brms-0.5.0/brms/R/loglik.R |only brms-0.5.0/brms/R/misc.R | 122 + brms-0.5.0/brms/R/predict.R |only brms-0.5.0/brms/R/rename.R |only brms-0.5.0/brms/R/stan.R | 1110 ++++++++++------- brms-0.5.0/brms/R/validate.R |only brms-0.5.0/brms/README.md | 57 brms-0.5.0/brms/build |only brms-0.5.0/brms/data/kidney.rda |binary brms-0.5.0/brms/inst |only brms-0.5.0/brms/man/LOO.Rd |only brms-0.5.0/brms/man/VarCorr.Rd | 2 brms-0.5.0/brms/man/WAIC.Rd | 19 brms-0.5.0/brms/man/brm.Rd | 169 -- brms-0.5.0/brms/man/brmdata.Rd |only brms-0.5.0/brms/man/brmpars.Rd |only brms-0.5.0/brms/man/brms-package.Rd | 26 brms-0.5.0/brms/man/brmsfit-class.Rd | 10 brms-0.5.0/brms/man/cor.brms.Rd | 14 brms-0.5.0/brms/man/cor_ar.Rd |only brms-0.5.0/brms/man/cor_arma.Rd |only brms-0.5.0/brms/man/cor_ma.Rd |only brms-0.5.0/brms/man/epilepsy.Rd | 4 brms-0.5.0/brms/man/fitted.brmsfit.Rd |only brms-0.5.0/brms/man/fixef.Rd | 4 brms-0.5.0/brms/man/get_prior.Rd |only brms-0.5.0/brms/man/hypothesis.Rd | 21 brms-0.5.0/brms/man/inhaler.Rd | 6 brms-0.5.0/brms/man/kidney.Rd | 4 brms-0.5.0/brms/man/launch_shiny.Rd |only brms-0.5.0/brms/man/logLik.brmsfit.Rd |only brms-0.5.0/brms/man/macf.Rd |only brms-0.5.0/brms/man/ngrps.Rd | 2 brms-0.5.0/brms/man/parnames.Rd |only brms-0.5.0/brms/man/plot.brmsfit.Rd | 11 brms-0.5.0/brms/man/posterior_samples.Rd |only brms-0.5.0/brms/man/predict.brmsfit.Rd |only brms-0.5.0/brms/man/print.brmsfit.Rd | 2 brms-0.5.0/brms/man/prior_samples.Rd |only brms-0.5.0/brms/man/ranef.Rd | 2 brms-0.5.0/brms/man/residuals.brmsfit.Rd |only brms-0.5.0/brms/man/set_prior.Rd |only brms-0.5.0/brms/man/stancode.Rd |only brms-0.5.0/brms/man/standata.Rd |only brms-0.5.0/brms/man/summary.brmsfit.Rd | 2 brms-0.5.0/brms/man/vcov.brmsfit.Rd |only brms-0.5.0/brms/tests/testthat/tests.brm.R |only brms-0.5.0/brms/tests/testthat/tests.brmsfit-helpers.R |only brms-0.5.0/brms/tests/testthat/tests.data.R |only brms-0.5.0/brms/tests/testthat/tests.deprecated.R |only brms-0.5.0/brms/tests/testthat/tests.distributions.R |only brms-0.5.0/brms/tests/testthat/tests.misc.R |only brms-0.5.0/brms/tests/testthat/tests.rename.R |only brms-0.5.0/brms/tests/testthat/tests.stan.R | 228 +-- brms-0.5.0/brms/tests/testthat/tests.validate.R |only brms-0.5.0/brms/vignettes |only 88 files changed, 1162 insertions(+), 823 deletions(-)