Title: A Toolbox for Writing 'swirl' Courses
Description: A set of tools for writing and sharing interactive courses
to be used with swirl.
Author: Sean Kross [aut, cre],
Nick Carchedi [aut],
Chih-Cheng Liang [ctb],
Wush Wu [ctb]
Maintainer: Sean Kross <sean@seankross.com>
Diff between swirlify versions 0.4.1 dated 2015-11-29 and 0.5.0 dated 2016-07-13
swirlify-0.4.1/swirlify/R/swirl2html.R |only swirlify-0.4.1/swirlify/R/yaml_writer.R |only swirlify-0.4.1/swirlify/man/lp.Rd |only swirlify-0.5.0/swirlify/DESCRIPTION | 11 swirlify-0.5.0/swirlify/LICENSE | 2 swirlify-0.5.0/swirlify/MD5 | 67 ++-- swirlify-0.5.0/swirlify/NAMESPACE | 12 swirlify-0.5.0/swirlify/NEWS.md |only swirlify-0.5.0/swirlify/R/demo_lesson.R | 54 +++ swirlify-0.5.0/swirlify/R/global.R |only swirlify-0.5.0/swirlify/R/google_form_decode.R |only swirlify-0.5.0/swirlify/R/lesson_to_html.R |only swirlify-0.5.0/swirlify/R/new_lesson.R |only swirlify-0.5.0/swirlify/R/pack.R | 1 swirlify-0.5.0/swirlify/R/set_lesson.R |only swirlify-0.5.0/swirlify/R/swirlify.R | 139 +++++----- swirlify-0.5.0/swirlify/R/test_lesson.R | 3 swirlify-0.5.0/swirlify/R/tools.R |only swirlify-0.5.0/swirlify/R/wq.R |only swirlify-0.5.0/swirlify/README.md | 15 - swirlify-0.5.0/swirlify/inst |only swirlify-0.5.0/swirlify/man/add_to_manifest.Rd | 2 swirlify-0.5.0/swirlify/man/count_questions.Rd | 2 swirlify-0.5.0/swirlify/man/demo_lesson.Rd |only swirlify-0.5.0/swirlify/man/find_questions.Rd | 2 swirlify-0.5.0/swirlify/man/get_current_lesson.Rd | 2 swirlify-0.5.0/swirlify/man/google_form_decode.Rd |only swirlify-0.5.0/swirlify/man/lesson_to_html.Rd | 2 swirlify-0.5.0/swirlify/man/new_lesson.Rd | 2 swirlify-0.5.0/swirlify/man/set_lesson.Rd | 2 swirlify-0.5.0/swirlify/man/swirlify.Rd |only swirlify-0.5.0/swirlify/man/testit.Rd | 19 - swirlify-0.5.0/swirlify/man/wq_command.Rd | 2 swirlify-0.5.0/swirlify/man/wq_figure.Rd | 2 swirlify-0.5.0/swirlify/man/wq_message.Rd | 2 swirlify-0.5.0/swirlify/man/wq_multiple.Rd | 2 swirlify-0.5.0/swirlify/man/wq_numerical.Rd | 2 swirlify-0.5.0/swirlify/man/wq_script.Rd | 2 swirlify-0.5.0/swirlify/man/wq_text.Rd | 2 swirlify-0.5.0/swirlify/man/wq_video.Rd | 2 swirlify-0.5.0/swirlify/tests/testthat/test_google_form_decode.R |only 41 files changed, 206 insertions(+), 147 deletions(-)
Title: Multiple Mediation Analysis
Description: Used for general multiple mediation analysis.
The analysis method is described in Yu et al. 2014, "General Multiple Mediation Analysis With an Application to Explore Racial Disparity in Breast Cancer Survival", published on Journal of Biometrics & Biostatistics, 5(2):189.
Author: Qingzhao Yu
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>
Diff between mma versions 2.0-4 dated 2016-03-17 and 3.0-0 dated 2016-07-13
mma-2.0-4/mma/man/boot.med.binx.Rd |only mma-2.0-4/mma/man/boot.med.contx.Rd |only mma-2.0-4/mma/man/med.binx.Rd |only mma-2.0-4/mma/man/med.contx.Rd |only mma-3.0-0/mma/DESCRIPTION | 10 mma-3.0-0/mma/MD5 | 27 mma-3.0-0/mma/NAMESPACE | 5 mma-3.0-0/mma/R/mma.r | 2054 +++++++++++++++++++++++++++------- mma-3.0-0/mma/man/boot.med.Rd |only mma-3.0-0/mma/man/data.org.Rd | 61 - mma-3.0-0/mma/man/med.Rd |only mma-3.0-0/mma/man/mma-package.Rd | 22 mma-3.0-0/mma/man/mma.Rd | 64 - mma-3.0-0/mma/man/plot.mma.Rd | 14 mma-3.0-0/mma/man/print.med.Rd |only mma-3.0-0/mma/man/print.mma.Rd | 8 mma-3.0-0/mma/man/summary.med_iden.Rd | 2 mma-3.0-0/mma/man/summary.mma.Rd | 20 18 files changed, 1803 insertions(+), 484 deletions(-)
Title: Multilevel Mediation Analysis
Description: Do multilevel mediation analysis with generalized additive multilevel models.
Author: Qingzhao Yu, Bin Li
Maintainer: Qingzhao Yu <qyu@lsuhsc.edu>
Diff between mlma versions 4.0-0 dated 2016-06-20 and 4.0-1 dated 2016-07-13
DESCRIPTION | 10 - MD5 | 12 - R/mlma.r | 323 ++++++++++++++++++++++++++++++++++------------------ man/boot.mlma.Rd | 17 -- man/data.org.Rd | 16 -- man/mlma-package.Rd | 13 +- man/mlma.Rd | 23 +-- 7 files changed, 261 insertions(+), 153 deletions(-)
Title: Multiple Comparisons Procedures Based on Studentized Midrange
and Range Distributions
Description: Apply tests of multiple comparisons based on studentized midrange
and range distributions. The tests are: Tukey Midrange test, Student-Newman-
Keuls Midrange test, Skott-Knott Midrange test and Skott-Knott Range test.
Author: Ben Deivide [aut, cre], Daniel Furtado [aut]
Maintainer: Ben Deivide <ben.deivide@gmail.com>
Diff between midrangeMCP versions 1.2 dated 2016-04-27 and 1.3 dated 2016-07-13
DESCRIPTION | 14 +-- MD5 | 12 +-- R/SKMtest.R | 172 ++++++++++++++++++++++---------------------- R/SKRtest.R | 151 +++++++++++++++++++-------------------- R/SNKMtest.R | 222 +++++++++++++++++++++++++++++----------------------------- R/TMtest.R | 222 +++++++++++++++++++++++++++++----------------------------- man/MRtest.Rd | 2 7 files changed, 400 insertions(+), 395 deletions(-)
Title: Estimate a Log-Concave Probability Density from Iid Observations
Description: Given independent and identically distributed observations X(1), ..., X(n), compute the maximum likelihood estimator (MLE) of a density as well as a smoothed version of it under the assumption that the density is log-concave, see Rufibach (2007) and Duembgen and Rufibach (2009). The main function of the package is 'logConDens' that allows computation of the log-concave MLE and its smoothed version. In addition, we provide functions to compute (1) the value of the density and distribution function estimates (MLE and smoothed) at a given point (2) the characterizing functions of the estimator, (3) to sample from the estimated distribution, (5) to compute a two-sample permutation test based on log-concave densities, (6) the ROC curve based on log-concave estimates within cases and controls, including confidence intervals for given values of false positive fractions (7) computation of a confidence interval for the value of the true density at a fixed point. Finally, three datasets that have been used to illustrate log-concave density estimation are made available.
Author: Kaspar Rufibach <kaspar.rufibach@gmail.com> and Lutz Duembgen <duembgen@stat.unibe.ch>
Maintainer: Kaspar Rufibach <kaspar.rufibach@gmail.com>
Diff between logcondens versions 2.1.4 dated 2015-07-02 and 2.1.5 dated 2016-07-13
DESCRIPTION | 12 +++--- MD5 | 78 +++++++++++++++++++-------------------- NAMESPACE | 4 +- NEWS | 4 ++ build/vignette.rds |binary data/brightstar.rda |binary data/pancreas.rda |binary data/reliability.rda |binary inst/doc/logcondens.pdf |binary man/Jfunctions.Rd | 2 - man/Lhat_eta.Rd | 2 - man/Local_LL.Rd | 2 - man/Local_LL_all.Rd | 2 - man/MLE.Rd | 2 - man/Q00.Rd | 2 - man/activeSetLogCon.Rd | 2 - man/activeSetRoutines.Rd | 2 - man/evaluateLogConDens.Rd | 2 - man/icmaLogCon.Rd | 2 - man/intECDF.Rd | 2 - man/intF.Rd | 2 - man/isoMean.Rd | 2 - man/logConDens.Rd | 2 - man/logconTwoSample.Rd | 2 - man/logcondens-package.Rd | 6 +-- man/maxDiffCDF.Rd | 2 - man/plot.dlc.Rd | 2 - man/preProcess.Rd | 2 - man/qloglin.Rd | 2 - man/quadDeriv.Rd | 2 - man/quantilesLogConDens.Rd | 2 - man/reparametrizations.Rd | 2 - man/rlogcon.Rd | 2 - man/robust.Rd | 2 - man/summary.dlc.Rd | 2 - vignettes/plots/-plot1.pdf |binary vignettes/plots/-plot2.pdf |binary vignettes/plots/-plot2sample.pdf |binary vignettes/plots/-plotSimul.pdf |binary vignettes/plots/-sim1.pdf |binary 40 files changed, 79 insertions(+), 75 deletions(-)
Title: Convert Data from and to 'geoJSON' or 'topoJSON'
Description: Convert data to 'geoJSON' or 'topoJSON' from various R classes,
including vectors, lists, data frames, shape files, and spatial classes.
'geojsonio' does not aim to replace packages like 'sp', 'rgdal', 'rgeos', but
rather aims to be a high level client to simplify conversions of data from and
to 'geoJSON' and 'topoJSON'.
Author: Scott Chamberlain [aut, cre],
Andy Teucher [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between geojsonio versions 0.1.8 dated 2016-04-10 and 0.2.0 dated 2016-07-13
geojsonio-0.1.8/geojsonio/R/globals.R |only geojsonio-0.1.8/geojsonio/R/projections.R |only geojsonio-0.1.8/geojsonio/R/startup.R |only geojsonio-0.1.8/geojsonio/inst/ignore/topojson_write.R |only geojsonio-0.2.0/geojsonio/DESCRIPTION | 11 - geojsonio-0.2.0/geojsonio/MD5 | 54 ++++---- geojsonio-0.2.0/geojsonio/NEWS.md | 28 ++++ geojsonio-0.2.0/geojsonio/R/file_to_geojson.r | 9 - geojsonio-0.2.0/geojsonio/R/geojson_json.R | 47 +++---- geojsonio-0.2.0/geojsonio/R/geojson_list.R | 36 ++--- geojsonio-0.2.0/geojsonio/R/geojsonio-package.r | 16 ++ geojsonio-0.2.0/geojsonio/R/globals.r |only geojsonio-0.2.0/geojsonio/R/lint.R | 80 ------------- geojsonio-0.2.0/geojsonio/R/projections.r |only geojsonio-0.2.0/geojsonio/R/validate.R | 6 geojsonio-0.2.0/geojsonio/R/zzz.r | 25 +++- geojsonio-0.2.0/geojsonio/README.md | 10 + geojsonio-0.2.0/geojsonio/build/vignette.rds |binary geojsonio-0.2.0/geojsonio/inst/doc/geojsonio_vignette.Rmd | 25 +++- geojsonio-0.2.0/geojsonio/inst/doc/geojsonio_vignette.html | 25 +++- geojsonio-0.2.0/geojsonio/inst/ignore/topojson_write.r |only geojsonio-0.2.0/geojsonio/inst/js/geojsonhint.js | 11 - geojsonio-0.2.0/geojsonio/inst/vign/geojsonio_vignette.md | 25 +++- geojsonio-0.2.0/geojsonio/man/geojson_json.Rd | 2 geojsonio-0.2.0/geojsonio/man/geojsonio-deprecated.Rd |only geojsonio-0.2.0/geojsonio/man/geojsonio.Rd | 4 geojsonio-0.2.0/geojsonio/man/lint.Rd | 4 geojsonio-0.2.0/geojsonio/man/projections.Rd | 2 geojsonio-0.2.0/geojsonio/man/validate.Rd | 3 geojsonio-0.2.0/geojsonio/tests/testthat/test-lint.R | 2 geojsonio-0.2.0/geojsonio/tests/testthat/test-onload.R | 9 - geojsonio-0.2.0/geojsonio/vignettes/geojsonio_vignette.Rmd | 25 +++- 32 files changed, 260 insertions(+), 199 deletions(-)
Title: ARTFIMA Model Estimation
Description: Fit and simulate ARTFIMA. Theoretical autocovariance function and spectral density function for stationary ARTFIMA.
Author: A. I. McLeod, Mark M. Meerschaert, Farzad Sabzikar
Maintainer: A.I. McLeod <aimcleod@uwo.ca>
Diff between artfima versions 1.4 dated 2016-06-02 and 1.5 dated 2016-07-13
artfima-1.4/artfima/R/informationMatrixARTFIMA.R |only artfima-1.4/artfima/man/informationMatrixARTFIMA.Rd |only artfima-1.4/artfima/man/seARTFIMA.Rd |only artfima-1.5/artfima/DESCRIPTION | 8 +-- artfima-1.5/artfima/MD5 | 41 +++++++++++--------- artfima-1.5/artfima/NAMESPACE | 10 ++-- artfima-1.5/artfima/NEWS | 7 ++- artfima-1.5/artfima/R/artfima.R | 34 ++++++++++------ artfima-1.5/artfima/R/artfimaSDF.R | 21 ++++++---- artfima-1.5/artfima/R/artfimaTACVF.R | 18 +++++++- artfima-1.5/artfima/R/bestmodels.R | 33 ++++++++-------- artfima-1.5/artfima/R/ifisher.R |only artfima-1.5/artfima/R/plot.artfima.R | 2 artfima-1.5/artfima/R/predict.artfima.R |only artfima-1.5/artfima/build/partial.rdb |binary artfima-1.5/artfima/data/bev.rda |only artfima-1.5/artfima/data/nilemin.rda |only artfima-1.5/artfima/man/artfima.Rd | 8 ++- artfima-1.5/artfima/man/artfimaTACVF.Rd | 3 - artfima-1.5/artfima/man/artsim.Rd | 6 ++ artfima-1.5/artfima/man/bestModels.Rd | 7 ++- artfima-1.5/artfima/man/best_glp_models.Rd | 5 +- artfima-1.5/artfima/man/bev.Rd |only artfima-1.5/artfima/man/eaglecol.Rd | 18 ++++++++ artfima-1.5/artfima/man/ifisher.Rd |only artfima-1.5/artfima/man/nilemin.Rd |only artfima-1.5/artfima/man/predict.artfima.Rd |only 27 files changed, 149 insertions(+), 72 deletions(-)
More information about SizeEstimation at CRAN
Permanent link
Title: Robust Ordinal Regression UTADIS
Description: Implementation of Robust Ordinal Regression for value-based sorting with some extensions and additional tools. It is a novel Multiple-Criteria Decision Aiding (MCDA) framework.
Author: Krzysztof Ciomek
Maintainer: Krzysztof Ciomek <k.ciomek@gmail.com>
Diff between rorutadis versions 0.3.1 dated 2015-11-04 and 0.4.1 dated 2016-07-13
DESCRIPTION | 8 ++++---- MD5 | 14 ++++++++------ NAMESPACE | 1 + R/explanations.R | 21 ++++++++++++++++++--- R/incomplete.R |only R/inconsistencies.R | 21 +++++++++++++++++---- R/model.R | 35 +++++++++++++++++++++++++++-------- man/findSolutionWithIncomplete.Rd |only man/rorutadis-package.Rd | 4 ++-- 9 files changed, 77 insertions(+), 27 deletions(-)
Title: Recommender System using Matrix Factorization
Description: R wrapper of the 'libmf' library
(http://www.csie.ntu.edu.tw/~cjlin/libmf/) for recommender
system using matrix factorization. It is typically used to
approximate an incomplete matrix using the product of two
matrices in a latent space. Other common names for this task
include "collaborative filtering", "matrix completion",
"matrix recovery", etc. High performance multi-core parallel
computing is supported in this package.
Author: Yixuan Qiu, Chih-Jen Lin, Yu-Chin Juan, Wei-Sheng Chin,
Yong Zhuang, Bo-Wen Yuan, Meng-Yuan Yang, and other
contributors. See file AUTHORS for details.
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between recosystem versions 0.3 dated 2015-05-30 and 0.4 dated 2016-07-13
DESCRIPTION | 20 LICENSE | 2 MD5 | 58 NAMESPACE | 2 R/DataSource.R |only R/Output.R |only R/RecoModel.R | 19 R/RecoSys.R | 532 - README.md | 284 build/vignette.rds |binary inst/AUTHORS | 4 inst/NEWS.Rd | 27 inst/dat/smalltest.txt |20000 ++++++++++++++++++++++----------------------- inst/doc/introduction.R | 27 inst/doc/introduction.Rmd | 191 inst/doc/introduction.html | 385 man/Reco.Rd | 12 man/data_source.Rd |only man/output.Rd | 71 man/output_format.Rd |only man/predict.Rd | 61 man/train.Rd | 75 man/tune.Rd | 65 src/mf.cpp | 3987 +++++++- src/mf.h | 70 src/reco-output.cpp | 227 src/reco-predict.cpp | 223 src/reco-read-data.cpp |only src/reco-read-data.h |only src/reco-train.cpp | 148 src/reco-tune.cpp | 113 src/reco-utils.h | 14 vignettes/introduction.Rmd | 191 33 files changed, 14957 insertions(+), 11851 deletions(-)
Title: Symbolic Computation and More with Multivariate Polynomials
Description: Symbolic computing with multivariate polynomials in R.
Author: David Kahle [aut, cre]
Maintainer: David Kahle <david.kahle@gmail.com>
Diff between mpoly versions 1.0.2 dated 2016-07-08 and 1.0.3 dated 2016-07-13
DESCRIPTION | 6 MD5 | 30 +-- NEWS | 21 ++ R/as.function.mpoly.R | 42 ++--- R/as.function.mpolyList.R | 6 R/as.mpoly.R | 70 +++++++- R/mp.R | 7 R/plug.R | 4 R/print.mpoly.R | 96 ++++++----- R/print.mpolyList.R | 26 ++- README.md | 375 ++++++++++++++++++++++++---------------------- man/as.function.mpoly.Rd | 4 man/as.mpoly.Rd | 9 - man/mp.Rd | 2 man/print.mpoly.Rd | 31 +-- man/print.mpolyList.Rd | 14 + 16 files changed, 426 insertions(+), 317 deletions(-)
Title: Compute the Rectangular Statistical Cartogram
Description: Provides an interface and a C++ implementation of the RecMap MP2
construction heuristic (see 'citation("recmap")' for details). This algorithm
draws maps according to a given statistical value (e.g. election results,
population or epidemiological data). The basic idea of the RecMap algorithm is
that each map region (e.g. different countries) is represented by a
rectangle. The area of each rectangle represents the statistical value given
as input (maintain zero cartographic error). Documentation about 'RecMap' is
provided by a vignette included in this package and a 'RecMap gallery' site at
<http://cartodraw.science/recmap/gallery>.
Author: Christian Panse
Maintainer: Christian Panse <Christian.Panse@gmail.com>
Diff between recmap versions 0.5.0 dated 2016-07-01 and 0.5.3 dated 2016-07-13
recmap-0.5.0/recmap/man/plot_recmap.Rd |only recmap-0.5.3/recmap/DESCRIPTION | 14 ++-- recmap-0.5.3/recmap/MD5 | 23 ++++--- recmap-0.5.3/recmap/NAMESPACE | 17 ++++- recmap-0.5.3/recmap/R/recmap.R | 96 ++++++++++++++++++++++++++++--- recmap-0.5.3/recmap/inst/NEWS.Rd | 45 +++++++++----- recmap-0.5.3/recmap/inst/doc/recmap.R | 20 +++--- recmap-0.5.3/recmap/inst/doc/recmap.Rmd | 25 +++----- recmap-0.5.3/recmap/inst/doc/recmap.html | 48 ++++++++------- recmap-0.5.3/recmap/man/checkerboard.Rd |only recmap-0.5.3/recmap/man/plot.recmap.Rd |only recmap-0.5.3/recmap/man/recmap.Rd | 45 +++++++------- recmap-0.5.3/recmap/man/recmap2sp.Rd |only recmap-0.5.3/recmap/man/recmapGA.Rd |only recmap-0.5.3/recmap/vignettes/recmap.Rmd | 25 +++----- 15 files changed, 233 insertions(+), 125 deletions(-)
Title: Actuarial Functions and Heavy Tailed Distributions
Description: Various actuarial science functionalities, mostly in the
fields of loss distributions, risk theory (including ruin theory),
simulation of compound hierarchical models and credibility theory.
The package also features 17 probability laws commonly used in
insurance, mostly heavy tailed distributions.
Author: Vincent Goulet, Sébastien Auclair, Christophe Dutang, Xavier Milhaud, Tommy Ouellet, Louis-Philippe Pouliot, Mathieu Pigeon
Maintainer: Vincent Goulet <vincent.goulet@act.ulaval.ca>
Diff between actuar versions 1.2-1 dated 2016-05-10 and 1.2-2 dated 2016-07-13
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- inst/NEWS.Rd | 8 ++++++++ inst/doc/actuar.pdf |binary inst/doc/coverage.pdf |binary inst/doc/credibility.pdf |binary inst/doc/lossdist.pdf |binary inst/doc/risk.pdf |binary inst/doc/simulation.pdf |binary src/pareto.c | 2 +- 10 files changed, 22 insertions(+), 14 deletions(-)
Title: An Implementation of Re-Sampling Approaches to Utility-Based
Learning for Both Classification and Regression Tasks
Description: Provides a set of functions that can be used to obtain better predictive performance on cost-sensitive and cost/benefits tasks (for both regression and classification). This includes re-sampling approaches that modify the original data set biasing it towards the user preferences.
Author: Paula Branco [aut, cre],
Rita Ribeiro [aut, ctb],
Luis Torgo [aut, ctb]
Maintainer: Paula Branco <paobranco@gmail.com>
Diff between UBL versions 0.0.4 dated 2016-04-29 and 0.0.5 dated 2016-07-13
CHANGES | 13 +++++++-- DESCRIPTION | 14 ++++----- MD5 | 63 ++++++++++++++++++++++++-------------------- R/ENNClassif.R | 2 - R/ImpSampRegress.R | 13 +++++++-- R/NCLClassif.R | 2 - R/Neighbours.R | 59 +++++++++++++++++++----------------------- R/TomekClassif.R | 2 - R/gaussNoiseRegress.R | 8 ++++- R/randOverClassif.R | 2 - R/randOverRegress.R | 14 +++++++-- R/randUnderClassif.R | 2 - R/randUnderRegress.R | 14 +++++++-- R/smoteRegress.R | 10 ++++--- data |only man/CNNClassif.Rd | 28 ++++++++++++------- man/ENNClassif.Rd | 20 ++++++++++++-- man/ImbC.Rd |only man/ImbR.Rd |only man/ImpSampClassif.Rd | 2 - man/ImpSampRegress.Rd | 7 ---- man/NCLClassif.Rd | 21 ++++++++++++-- man/OSSClassif.Rd | 19 ++++++++++++- man/TomekClassif.Rd | 66 ++++++++++++++++++++++++++++------------------- man/UBL-package.Rd |only man/gaussNoiseClassif.Rd | 2 - man/gaussNoiseRegress.Rd | 2 - man/randOverClassif.Rd | 2 - man/randOverRegress.Rd | 8 ++--- man/randUnderClassif.Rd | 2 - man/randUnderRegress.Rd | 7 ++-- man/smoteClassif.Rd | 24 ++++++++++++----- man/smoteRegress.Rd | 28 ++++++++++++++----- src/neighbours.f90 | 2 - 34 files changed, 290 insertions(+), 168 deletions(-)
Title: Analysis of Sensory and Consumer Data in a Mixed Model Framework
Description: Functions that facilitate analysis of
Sensory as well as Consumer data within a mixed effects model
framework. The so-called mixed assessor models,
that correct for the scaling effect are implemented.
The generation of the d-tilde plots forms part of the package.
The shiny application provides GUI for the functionalities.
Author: Alexandra Kuznetsova [aut, cre],
Per Bruun Brockhoff [aut, ths],
Rune Haubo Bojesen Christensen [aut]
Maintainer: Alexandra Kuznetsova <alku@dtu.dk>
Diff between SensMixed versions 2.0-9 dated 2016-02-21 and 2.0-10 dated 2016-07-13
SensMixed-2.0-10/SensMixed/DESCRIPTION | 19 SensMixed-2.0-10/SensMixed/MD5 | 77 SensMixed-2.0-10/SensMixed/NAMESPACE | 15 SensMixed-2.0-10/SensMixed/NEWS | 12 SensMixed-2.0-10/SensMixed/R/conjointFun.r |only SensMixed-2.0-10/SensMixed/R/createFormulaAllFixRand.r | 43 SensMixed-2.0-10/SensMixed/R/initSensCons.R | 103 SensMixed-2.0-10/SensMixed/R/outputTools.R | 197 + SensMixed-2.0-10/SensMixed/R/sensmixedControl.R |only SensMixed-2.0-10/SensMixed/R/sensmixedFun.R | 141 - SensMixed-2.0-10/SensMixed/R/sensmixedFunParallel.R | 11 SensMixed-2.0-10/SensMixed/R/texreg_SensMixed.R | 103 SensMixed-2.0-10/SensMixed/R/tools.R | 100 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/MAMutils.R | 10 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/global.R | 2 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/posthocUtils.R | 7 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/runAnalysis.R | 62 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/server.R | 19 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/serverUI.R | 60 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/stepUtils.R | 21 SensMixed-2.0-10/SensMixed/inst/sensmixedUI/ui.R | 78 SensMixed-2.0-10/SensMixed/inst/testdata/bb.RData |only SensMixed-2.0-10/SensMixed/inst/testdata/bugResiddat.RData |only SensMixed-2.0-10/SensMixed/inst/testdata/ost.RData |only SensMixed-2.0-10/SensMixed/man/SensMixedUI.Rd | 2 SensMixed-2.0-10/SensMixed/man/TVbo.Rd | 15 SensMixed-2.0-10/SensMixed/man/conjoint.Rd |only SensMixed-2.0-10/SensMixed/man/ham.Rd | 11 SensMixed-2.0-10/SensMixed/man/plot.conjoint.Rd |only SensMixed-2.0-10/SensMixed/man/plot.sensmixed.Rd | 26 SensMixed-2.0-10/SensMixed/man/saveToDoc.Rd | 10 SensMixed-2.0-10/SensMixed/man/sensmixed.Rd | 168 - SensMixed-2.0-10/SensMixed/man/sensmixedControl.Rd |only SensMixed-2.0-10/SensMixed/tests/Examples/SensMixed-Ex.Rout.save | 1297 +++++++++- SensMixed-2.0-10/SensMixed/tests/bugBO.R | 4 SensMixed-2.0-10/SensMixed/tests/bugKEEPdprime.R | 4 SensMixed-2.0-10/SensMixed/tests/testBugResiduals.R |only SensMixed-2.0-10/SensMixed/tests/testDprimes.R | 53 SensMixed-2.0-10/SensMixed/tests/testKEEPeffs.R | 10 SensMixed-2.0-10/SensMixed/tests/testMAM.R | 44 SensMixed-2.0-10/SensMixed/tests/testRep.R | 36 SensMixed-2.0-9/SensMixed/R/classDefinition_SensMixed.R |only SensMixed-2.0-9/SensMixed/R/consmixedFun.r |only SensMixed-2.0-9/SensMixed/R/plotSensMixed.R |only SensMixed-2.0-9/SensMixed/R/sensmixedParallel.R |only SensMixed-2.0-9/SensMixed/man/consmixed.Rd |only SensMixed-2.0-9/SensMixed/man/plot.consmixed.Rd |only 47 files changed, 2028 insertions(+), 732 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description:
Contains some auxiliary functions for multiple
imputation which complements existing functionality
in R.
In addition to some utility functions, main features
include plausible value imputation, multilevel
imputation functions, imputation using partial least
squares (PLS) for high dimensional predictors, nested
multiple imputation, and two-way imputation.
Author:
Alexander Robitzsch [aut, cre], Simon Grund [aut],
Thorsten Henke [aut]
Maintainer:
Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 1.8-0 dated 2016-05-31 and 1.9-0 dated 2016-07-13
miceadds-1.8-0/miceadds/R/mice.impute.2l.pls2_aux.R |only miceadds-1.8-0/miceadds/man/mice.impute.2l.binary.Rd |only miceadds-1.8-0/miceadds/man/mice.impute.2l.eap.Rd |only miceadds-1.8-0/miceadds/man/mice.impute.2l.plausible.values.Rd |only miceadds-1.8-0/miceadds/man/mice.impute.2l.pls.Rd |only miceadds-1.8-0/miceadds/man/mice.impute.2lonly.pmm2.Rd |only miceadds-1.9-0/miceadds/DESCRIPTION | 10 miceadds-1.9-0/miceadds/MD5 | 188 ++- miceadds-1.9-0/miceadds/NAMESPACE | 231 ++-- miceadds-1.9-0/miceadds/R/GroupMean.R | 72 - miceadds-1.9-0/miceadds/R/GroupSD.R |only miceadds-1.9-0/miceadds/R/GroupSum.R |only miceadds-1.9-0/miceadds/R/List2nestedList.R | 41 miceadds-1.9-0/miceadds/R/antilogit.R |only miceadds-1.9-0/miceadds/R/complete.miceadds.R | 14 miceadds-1.9-0/miceadds/R/cor2fisher.R | 6 miceadds-1.9-0/miceadds/R/covTest.R | 20 miceadds-1.9-0/miceadds/R/cppfunction.R | 33 miceadds-1.9-0/miceadds/R/create.designMatrices.waldtest.R | 14 miceadds-1.9-0/miceadds/R/datalist2mids.R | 92 - miceadds-1.9-0/miceadds/R/datlist_create.R | 45 miceadds-1.9-0/miceadds/R/draw.pv.ctt.R | 112 +- miceadds-1.9-0/miceadds/R/fast.groupmean.R |only miceadds-1.9-0/miceadds/R/fast.groupsum.R |only miceadds-1.9-0/miceadds/R/fisher2cor.R | 6 miceadds-1.9-0/miceadds/R/glm.cluster.R | 36 miceadds-1.9-0/miceadds/R/jomo2datlist.R | 10 miceadds-1.9-0/miceadds/R/kernelpls.fit2.R | 118 +- miceadds-1.9-0/miceadds/R/latent.regression.em.R | 10 miceadds-1.9-0/miceadds/R/library_install.R | 15 miceadds-1.9-0/miceadds/R/lm.cluster.R | 36 miceadds-1.9-0/miceadds/R/load.data.R | 40 miceadds-1.9-0/miceadds/R/ma.scale2.R | 16 miceadds-1.9-0/miceadds/R/ma.wtd.aux.data.R | 86 - miceadds-1.9-0/miceadds/R/mi.anova.R | 67 - miceadds-1.9-0/miceadds/R/mi_dstat.R | 28 miceadds-1.9-0/miceadds/R/mice.1chain.R | 98 - miceadds-1.9-0/miceadds/R/mice.impute.2l.binary.R | 133 -- miceadds-1.9-0/miceadds/R/mice.impute.2l.contextual.norm.R | 96 - miceadds-1.9-0/miceadds/R/mice.impute.2l.contextual.pmm.R | 25 miceadds-1.9-0/miceadds/R/mice.impute.2l.continuous.R |only miceadds-1.9-0/miceadds/R/mice.impute.2l.eap.R | 12 miceadds-1.9-0/miceadds/R/mice.impute.2l.groupmean.R | 17 miceadds-1.9-0/miceadds/R/mice.impute.2l.groupmean.elim.R | 22 miceadds-1.9-0/miceadds/R/mice.impute.2l.latentgroupmean.MCMC.R | 7 miceadds-1.9-0/miceadds/R/mice.impute.2l.latentgroupmean.ML.R | 57 - miceadds-1.9-0/miceadds/R/mice.impute.2l.lmer.R |only miceadds-1.9-0/miceadds/R/mice.impute.2l.plausible.values.R | 247 ---- miceadds-1.9-0/miceadds/R/mice.impute.2l.pls.R | 488 -------- miceadds-1.9-0/miceadds/R/mice.impute.2l.pls2.R | 560 ---------- miceadds-1.9-0/miceadds/R/mice.impute.2l.pmm.R |only miceadds-1.9-0/miceadds/R/mice.impute.2lonly.function.R |only miceadds-1.9-0/miceadds/R/mice.impute.2lonly.norm2.R |only miceadds-1.9-0/miceadds/R/mice.impute.2lonly.pmm2.R | 49 miceadds-1.9-0/miceadds/R/mice.impute.bygroup.R |only miceadds-1.9-0/miceadds/R/mice.impute.eap.R |only miceadds-1.9-0/miceadds/R/mice.impute.grouped.R | 15 miceadds-1.9-0/miceadds/R/mice.impute.plausible.values.R |only miceadds-1.9-0/miceadds/R/mice.impute.pls.R |only miceadds-1.9-0/miceadds/R/mice.impute.tricube.pmm.R | 8 miceadds-1.9-0/miceadds/R/mice.impute.tricube.pmm2.R | 6 miceadds-1.9-0/miceadds/R/mice.impute.weighted.norm.R | 43 miceadds-1.9-0/miceadds/R/mice.impute.weighted.pmm.R | 2 miceadds-1.9-0/miceadds/R/mice.nmi.R | 18 miceadds-1.9-0/miceadds/R/mice_imputation_create_interactions.R |only miceadds-1.9-0/miceadds/R/mice_imputation_extract_list_arguments.R |only miceadds-1.9-0/miceadds/R/mice_imputation_get_states.R |only miceadds-1.9-0/miceadds/R/mice_imputation_include_cluster_effect.R |only miceadds-1.9-0/miceadds/R/mice_imputation_multilevel_include_2l_predictors.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_correlation_criteria.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_do_impute.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_estimate_pls_regression.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_helper.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_include_interactions.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_include_quadratics.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_largest_correlations.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_pca_reduction.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_print_progress1.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_print_progress2.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_print_progress3.R |only miceadds-1.9-0/miceadds/R/mice_imputation_pls_scale_x.R |only miceadds-1.9-0/miceadds/R/mice_imputation_prepare_2l_functions.R |only miceadds-1.9-0/miceadds/R/mice_imputation_weighted_norm_draw.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_add_groupmeans.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_create_formula.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_doCall_suppressWarnings.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_draw_binomial.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_draw_rnorm1.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_imputation_blme_args.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_imputation_draw_random_effects.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_imputation_draw_residuals.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_imputation_pmm5.R |only miceadds-1.9-0/miceadds/R/mice_multilevel_impute_groupmean.R |only miceadds-1.9-0/miceadds/R/nestedList2List.R | 16 miceadds-1.9-0/miceadds/R/norm.draw3.R | 8 miceadds-1.9-0/miceadds/R/normalize_vector.R |only miceadds-1.9-0/miceadds/R/pca.covridge.R | 17 miceadds-1.9-0/miceadds/R/pool.mi.R | 95 - miceadds-1.9-0/miceadds/R/pool.mids.nmi.R | 25 miceadds-1.9-0/miceadds/R/pool.nmi.scalar.helper.R | 53 miceadds-1.9-0/miceadds/R/remove.lindep_miceadds.R |only miceadds-1.9-0/miceadds/R/save.data.R | 24 miceadds-1.9-0/miceadds/R/scan0.R | 10 miceadds-1.9-0/miceadds/inst/NEWS | 32 miceadds-1.9-0/miceadds/man/GroupMean.Rd | 8 miceadds-1.9-0/miceadds/man/draw.pv.ctt.Rd | 2 miceadds-1.9-0/miceadds/man/lm.cluster.Rd | 4 miceadds-1.9-0/miceadds/man/mice.1chain.Rd | 2 miceadds-1.9-0/miceadds/man/mice.impute.2l.contextual.pmm.Rd | 2 miceadds-1.9-0/miceadds/man/mice.impute.2l.lmer.Rd |only miceadds-1.9-0/miceadds/man/mice.impute.2lonly.function.Rd |only miceadds-1.9-0/miceadds/man/mice.impute.bygroup.Rd |only miceadds-1.9-0/miceadds/man/mice.impute.eap.Rd |only miceadds-1.9-0/miceadds/man/mice.impute.plausible.values.Rd |only miceadds-1.9-0/miceadds/man/mice.impute.pls.Rd |only miceadds-1.9-0/miceadds/man/miceadds-defunct.Rd |only miceadds-1.9-0/miceadds/man/miceadds-package.Rd | 6 miceadds-1.9-0/miceadds/man/pca.covridge.Rd | 2 miceadds-1.9-0/miceadds/man/scale_datlist.Rd | 6 miceadds-1.9-0/miceadds/src/create_interactions_c.cpp | 15 miceadds-1.9-0/miceadds/src/kernelpls_1dim_c.cpp | 6 miceadds-1.9-0/miceadds/src/kernelpls_algorithm.h | 161 +- miceadds-1.9-0/miceadds/src/ma_pmm6_csource.cpp | 49 miceadds-1.9-0/miceadds/src/ma_scale.cpp | 37 124 files changed, 1191 insertions(+), 2638 deletions(-)
Title: A Maximum Likelihood Approach to the Analysis of Modularity
Description: Fit models of modularity to morphological landmarks. Perform model
selection on results. Fit models with a single within-module correlation or
with separate within-module correlations fitted to each module.
Author: Anjali Goswami, Tim Lucas, Prabu Sivasubramaniam, John Finarelli
Maintainer: Tim Lucas <timcdlucas@gmail.com>
Diff between EMMLi versions 0.0.1 dated 2016-06-06 and 0.0.2 dated 2016-07-13
DESCRIPTION | 6 +- MD5 | 8 +-- R/EMMLi.R | 31 ++++++++++++-- man/EMMLi.Rd | 2 tests/testthat/testEMMLi.R | 94 +++++++++++++++++++++++++++++++++++++++++++++ 5 files changed, 128 insertions(+), 13 deletions(-)
Title: Dot-and-Whisker Plots of Regression Results
Description: Quick and easy dot-and-whisker plots of regression results.
Author: Frederick Solt [aut],
Yue Hu [aut, cre],
Oliver Keyes [ctb],
Ben Bolker [ctb]
Maintainer: Yue Hu <yue-hu-1@uiowa.edu>
Diff between dotwhisker versions 0.2.1 dated 2016-07-11 and 0.2.2 dated 2016-07-13
DESCRIPTION | 8 - MD5 | 20 +-- NAMESPACE | 9 + NEWS.md | 6 - R/add_brackets.R | 226 +++++++++++++++++++------------------- R/by_2sd.R | 4 R/dwplot.R | 35 ++--- R/secret_weapon.R | 140 +++++++++++------------ R/small_multiple.R | 18 +-- man/small_multiple.Rd | 190 ++++++++++++++++--------------- vignettes/dotwhisker-vignette.Rmd | 11 + 11 files changed, 338 insertions(+), 329 deletions(-)
Title: Interface with Azure Machine Learning Datasets, Experiments and
Web Services
Description: Functions and datasets to support Azure Machine Learning. This
allows you to interact with datasets, as well as publish and consume R functions
as API services.
Author: Andrie de Vries [aut, cre],
Microsoft Corporation [cph],
Revolution Analytics [cph] (Code adapted from the foreach package)
Maintainer: Andrie de Vries <adevries@microsoft.com>
Diff between AzureML versions 0.2.10 dated 2016-02-01 and 0.2.12 dated 2016-07-13
AzureML-0.2.10/AzureML/man/azureSchema.Rd |only AzureML-0.2.10/AzureML/man/callAPI.Rd |only AzureML-0.2.10/AzureML/tests/testthat/test-4-download-each-dataset-type.R |only AzureML-0.2.10/AzureML/vignettes/getting_started.md |only AzureML-0.2.12/AzureML/DESCRIPTION | 8 AzureML-0.2.12/AzureML/MD5 | 100 ++-- AzureML-0.2.12/AzureML/NAMESPACE | 3 AzureML-0.2.12/AzureML/R/azureSchema.R |only AzureML-0.2.12/AzureML/R/consume.R | 77 ++- AzureML-0.2.12/AzureML/R/datasets.R | 86 +++- AzureML-0.2.12/AzureML/R/deleteWebservice.R |only AzureML-0.2.12/AzureML/R/discover.R | 40 - AzureML-0.2.12/AzureML/R/fetch.R | 23 - AzureML-0.2.12/AzureML/R/internal.R | 47 +- AzureML-0.2.12/AzureML/R/methods.R | 11 AzureML-0.2.12/AzureML/R/publish.R | 203 +++------- AzureML-0.2.12/AzureML/R/services.R | 78 +-- AzureML-0.2.12/AzureML/R/workspace.R | 33 + AzureML-0.2.12/AzureML/R/wrapper.R |only AzureML-0.2.12/AzureML/R/zzz_test_helpers.R | 14 AzureML-0.2.12/AzureML/build/vignette.rds |binary AzureML-0.2.12/AzureML/inst/doc/getting_started.Rmd | 8 AzureML-0.2.12/AzureML/inst/doc/getting_started.html | 87 +++- AzureML-0.2.12/AzureML/man/AzureML-deprecated.Rd | 2 AzureML-0.2.12/AzureML/man/AzureML-package.Rd | 2 AzureML-0.2.12/AzureML/man/consume.Rd | 15 AzureML-0.2.12/AzureML/man/datasets.Rd | 8 AzureML-0.2.12/AzureML/man/delete.datasets.Rd | 8 AzureML-0.2.12/AzureML/man/deleteWebService.Rd | 6 AzureML-0.2.12/AzureML/man/discoverSchema.Rd | 7 AzureML-0.2.12/AzureML/man/download.datasets.Rd | 2 AzureML-0.2.12/AzureML/man/download.intermediate.dataset.Rd | 10 AzureML-0.2.12/AzureML/man/endpointHelp.Rd | 29 - AzureML-0.2.12/AzureML/man/endpoints.Rd | 8 AzureML-0.2.12/AzureML/man/experiments.Rd | 4 AzureML-0.2.12/AzureML/man/getDetailsFromUrl.Rd | 2 AzureML-0.2.12/AzureML/man/is.Dataset.Rd |only AzureML-0.2.12/AzureML/man/is.Endpoint.Rd | 2 AzureML-0.2.12/AzureML/man/is.Service.Rd | 2 AzureML-0.2.12/AzureML/man/is.Workspace.Rd | 2 AzureML-0.2.12/AzureML/man/publishWebService.Rd | 12 AzureML-0.2.12/AzureML/man/read.AzureML.config.Rd | 4 AzureML-0.2.12/AzureML/man/refresh.Rd | 2 AzureML-0.2.12/AzureML/man/services.Rd | 8 AzureML-0.2.12/AzureML/man/upload.dataset.Rd | 8 AzureML-0.2.12/AzureML/man/workspace.Rd | 53 +- AzureML-0.2.12/AzureML/tests/testthat/config.json | 15 AzureML-0.2.12/AzureML/tests/testthat/test-1-workspace-no-config.R | 3 AzureML-0.2.12/AzureML/tests/testthat/test-2-datasets-upload-download-delete.R | 22 + AzureML-0.2.12/AzureML/tests/testthat/test-2-download-each-dataset-type.R |only AzureML-0.2.12/AzureML/tests/testthat/test-2-multiple-dataset-download.R |only AzureML-0.2.12/AzureML/tests/testthat/test-3-experiments-download.R | 7 AzureML-0.2.12/AzureML/tests/testthat/test-5-try_fetch.R | 2 AzureML-0.2.12/AzureML/tests/testthat/test-6-publish.R | 55 +- AzureML-0.2.12/AzureML/tests/testthat/test-7-discover-schema.R | 3 AzureML-0.2.12/AzureML/tests/testthat/test-7-discover.R | 6 56 files changed, 638 insertions(+), 489 deletions(-)
Title: Estimating Disease Prevalence from Registry Data
Description: Estimates disease prevalence for a given index date, using existing
registry data extended with Monte Carlo simulations.
Author: Simon Crouch [aut],
Stephanie Lax [aut],
Stuart Lacy [cre, aut]
Maintainer: Stuart Lacy <stuart.lacy@york.ac.uk>
Diff between rprev versions 0.1.0 dated 2016-06-06 and 0.2.0 dated 2016-07-13
rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_1.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_2.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_3.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_4.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_5.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_6.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_thousand_1.rds |only rprev-0.1.0/rprev/tests/testthat/cache/prevalence/prevalence_thousand_2.rds |only rprev-0.2.0/rprev/DESCRIPTION | 16 rprev-0.2.0/rprev/MD5 | 40 - rprev-0.2.0/rprev/NEWS.md | 9 rprev-0.2.0/rprev/R/prevalence.R | 154 ++++-- rprev-0.2.0/rprev/inst/doc/user_guide.R | 9 rprev-0.2.0/rprev/inst/doc/user_guide.Rmd | 27 - rprev-0.2.0/rprev/inst/doc/user_guide.html | 85 ++- rprev-0.2.0/rprev/man/prevalence.Rd | 28 - rprev-0.2.0/rprev/man/prevalence_counted.Rd | 30 - rprev-0.2.0/rprev/man/prevalence_simulated.Rd | 29 - rprev-0.2.0/rprev/tests/testthat/cache/prevalence/countedprevalence_1.rds |binary rprev-0.2.0/rprev/tests/testthat/cache/prevalence/countedprevalence_2.rds |binary rprev-0.2.0/rprev/tests/testthat/cache/prevalence/countedprevalence_newparam_1.rds |only rprev-0.2.0/rprev/tests/testthat/cache/prevalence/countedprevalence_newparam_2.rds |only rprev-0.2.0/rprev/tests/testthat/cache/prevalence/countedprevalence_newparam_3.rds |only rprev-0.2.0/rprev/tests/testthat/cache/prevalence/countedprevalence_newparam_4.rds |only rprev-0.2.0/rprev/tests/testthat/test_prevalence.R | 225 ++++++++-- rprev-0.2.0/rprev/vignettes/bibliography.bib | 21 rprev-0.2.0/rprev/vignettes/user_guide.Rmd | 27 - 27 files changed, 493 insertions(+), 207 deletions(-)
Title: Analysis of Quaternary Science Data
Description: Functions for the analysis of Quaternary science data, including
constrained clustering, WA, WAPLS, IKFA, MLRC and MAT transfer
functions, and stratigraphic diagrams.
Author: Steve Juggins
Maintainer: Steve Juggins <Stephen.Juggins@ncl.ac.uk>
Diff between rioja versions 0.9-7 dated 2016-05-24 and 0.9-9 dated 2016-07-13
DESCRIPTION | 10 ++++----- MD5 | 38 +++++++++++++++++++------------------ NAMESPACE | 5 +++- R/MLRC.r | 7 ++---- R/MR.r | 2 - R/WAPLS.r | 10 +++------ R/interp.datasets.r | 1 R/randomPTF.R |only R/strat.plot.r | 52 ++++++++++++++++++++++++++++----------------------- inst/ChangeLog | 3 ++ man/IKFA.Rd | 11 +++++----- man/MAT.Rd | 9 ++++---- man/MLRC.Rd | 13 ++++++------ man/MR.Rd | 11 +++++----- man/PTF.Rd | 2 - man/WA.Rd | 8 +++---- man/WAPLS.Rd | 11 +++++----- man/randomPTF.Rd |only man/rioja.package.Rd | 6 +++-- man/strat.plot.Rd | 24 +++++++++++++++++------ src/mlrc.cpp | 9 ++++---- 21 files changed, 131 insertions(+), 101 deletions(-)
Title: Reverse-Correlation Image-Classification Toolbox
Description: Functions to generate stimuli and analyze data of reverse correlation image classification experiments (psychophysical tasks aimed at visualizing cognitive mental representations of faces).
Author: Ron Dotsch <r.dotsch@uu.nl>
Maintainer: Ron Dotsch <r.dotsch@uu.nl>
Diff between rcicr versions 0.3.2.1 dated 2016-02-05 and 0.3.4.1 dated 2016-07-13
ChangeLog | 20 +++++ DESCRIPTION | 18 ++-- MD5 | 27 +++---- NAMESPACE | 2 R/rcicr.R | 168 +++++++++++++++++++++++++++++++------------- R/rcicr_2IFC.R | 40 +++++----- man/batchGenerateCI.Rd | 8 -- man/batchGenerateCI2IFC.Rd | 8 -- man/generateCI.Rd | 4 - man/generateCI2IFC.Rd | 4 - man/generateCINoise.Rd | 4 - man/generateGabor.Rd |only man/generateNoiseImage.Rd | 8 +- man/generateNoisePattern.Rd | 11 ++ man/generateStimuli2IFC.Rd | 9 ++ 15 files changed, 218 insertions(+), 113 deletions(-)
Title: A Two-Stage Approach to Maximize Interpretability of Drug
Response Models Based on Multiple Molecular Data Types
Description: A two-stage regression method that can be used when various input data types are correlated, for example gene expression and methylation in drug response prediction. In the first stage it uses the upstream features (such as methylation) to predict the response variable (such as drug response), and in the second stage it uses the downstream features (such as gene expression) to predict the residuals of the first stage. In our manuscript (Aben et al., 2016, in press), we show that using TANDEM prevents the model from being dominated by gene expression and that the features selected by TANDEM are more interpretable.
Author: Nanne Aben
Maintainer: Nanne Aben <nanne.aben@gmail.com>
Diff between TANDEM versions 0.9.2 dated 2016-07-11 and 0.9.3 dated 2016-07-13
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/functions.R | 8 +++++--- 3 files changed, 10 insertions(+), 8 deletions(-)
Title: Smooth Estimation of GPD Shape Parameter
Description: Given independent and identically distributed observations X(1), ..., X(n) from a Generalized Pareto distribution with shape parameter gamma in [-1,0], offers several estimates to compute estimates of gamma. The estimates are based on the principle of replacing the order statistics by quantiles of a distribution function based on a log--concave density function. This procedure is justified by the fact that the GPD density is log--concave for gamma in [-1,0].
Author: Kaspar Ru{f}{i}bach <kaspar.rufibach@gmail.com> and Samuel Mueller <samuel.mueller@sydney.edu.au>
Maintainer: Kaspar Rufibach <kaspar.rufibach@gmail.com>
Diff between smoothtail versions 2.0.4 dated 2015-07-04 and 2.0.5 dated 2016-07-13
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 4 ++++ man/smoothtail-package.Rd | 4 ++-- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: A Set of RStudio Addins
Description: A set of RStudio addins that are designed to be used in
combination with user-defined RStudio keyboard shortcuts. These
addins either:
1) insert text at a cursor position (e.g. insert
operators %>%, <<-, %$%, etc.),
2) replace symbols in selected pieces of text (e.g., convert
backslashes to forward slashes which results in stings like
"c:\data\" converted into "c:/data/") or
3) enclose text with special symbols (e.g., converts "bold" into
"**bold**") which is convenient for editing R Markdown files.
Author: Vilmantas Gegzna [aut, cre, cph]
Maintainer: Vilmantas Gegzna <GegznaV@gmail.com>
Diff between spAddins versions 0.1.3 dated 2016-06-06 and 0.1.5 dated 2016-07-13
spAddins-0.1.3/spAddins/inst/COPYRIGHTS |only spAddins-0.1.5/spAddins/DESCRIPTION | 20 spAddins-0.1.5/spAddins/MD5 | 67 +- spAddins-0.1.5/spAddins/NAMESPACE | 12 spAddins-0.1.5/spAddins/R/1_spAddins-package.R | 33 - spAddins-0.1.5/spAddins/R/Arrows_insert_addins.R | 1 spAddins-0.1.5/spAddins/R/Replace_addins.R | 40 - spAddins-0.1.5/spAddins/R/enclose_addins.R |only spAddins-0.1.5/spAddins/R/insert_Line_addins.R |only spAddins-0.1.5/spAddins/R/insert_addins.R | 55 + spAddins-0.1.5/spAddins/R/magrittr_operators_insert_addins.R | 2 spAddins-0.1.5/spAddins/README.md | 151 ++++- spAddins-0.1.5/spAddins/build/vignette.rds |binary spAddins-0.1.5/spAddins/inst/doc/v1_workflow.R | 9 spAddins-0.1.5/spAddins/inst/doc/v1_workflow.Rmd | 202 +++++- spAddins-0.1.5/spAddins/inst/doc/v1_workflow.html | 327 ++++++++++- spAddins-0.1.5/spAddins/inst/rstudio/addins.dcf | 62 ++ spAddins-0.1.5/spAddins/man/enclose_with_asterisk.Rd |only spAddins-0.1.5/spAddins/man/enclose_with_asterisk2.Rd |only spAddins-0.1.5/spAddins/man/enclose_with_backtick.Rd |only spAddins-0.1.5/spAddins/man/enclose_with_dollar.Rd |only spAddins-0.1.5/spAddins/man/enclose_with_dollar2.Rd |only spAddins-0.1.5/spAddins/man/enclose_with_underscore.Rd |only spAddins-0.1.5/spAddins/man/enclose_with_underscore2.Rd |only spAddins-0.1.5/spAddins/man/insertArrowLR2_Addin.Rd | 7 spAddins-0.1.5/spAddins/man/insertCompAssignPipe_Addin.Rd | 7 spAddins-0.1.5/spAddins/man/insertExPipe_Addin.Rd | 7 spAddins-0.1.5/spAddins/man/insertIfNULL_Addin.Rd | 11 spAddins-0.1.5/spAddins/man/insertIn_Addin.Rd | 8 spAddins-0.1.5/spAddins/man/insertMatMuliplication_Addin.Rd | 8 spAddins-0.1.5/spAddins/man/insertNotIn_Addin.Rd | 8 spAddins-0.1.5/spAddins/man/insertPaste0_Addin.Rd | 10 spAddins-0.1.5/spAddins/man/insertPaste_Addin.Rd | 11 spAddins-0.1.5/spAddins/man/insertPipeline_Addin.Rd | 7 spAddins-0.1.5/spAddins/man/insertTeeOperator_Addin.Rd | 7 spAddins-0.1.5/spAddins/man/insert_ds_line_Addin.Rd |only spAddins-0.1.5/spAddins/man/insert_if_null_Addin.Rd |only spAddins-0.1.5/spAddins/man/insert_if_null_or_len0_Addin.Rd |only spAddins-0.1.5/spAddins/man/insert_ss_line_Addin.Rd |only spAddins-0.1.5/spAddins/man/insert_sw_line_Addin.Rd |only spAddins-0.1.5/spAddins/man/spAddins.Rd | 26 spAddins-0.1.5/spAddins/vignettes/v1_workflow.Rmd | 202 +++++- 42 files changed, 1063 insertions(+), 237 deletions(-)
Title: Permutation Based Gene Expression Pathway Analysis
Description: Can be used to carry out permutation based gene expression pathway analysis. This work was supported by a National Institute of Allergy and Infectious Disease/National Institutes of Health contract (No. HHSN272200900059C).
Author: Ivo D. Shterev [aut, cre],
Kouros Owzar [aut],
Gregory D. Sempowski [aut],
Kenneth Wilder [ctb, cph] (wrote original version of ranker.h)
Maintainer: Ivo D. Shterev <i.shterev@duke.edu>
Diff between permPATH versions 0.7.1 dated 2016-07-10 and 0.8 dated 2016-07-13
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/doc/permPATHmanual.pdf |binary src/permPATH.cpp | 4 +--- 4 files changed, 8 insertions(+), 10 deletions(-)
Title: Customisable Images of OpenStreetMap Data
Description: Customisable images of OpenStreetMap (OSM) data and
data visualisation using OSM objects.
Author: Mark Padgham [aut, cre]
Maintainer: Mark Padgham <mark.padgham@email.com>
Diff between osmplotr versions 0.2.2 dated 2016-07-05 and 0.2.3 dated 2016-07-13
DESCRIPTION | 10 +- MD5 | 20 ++--- NAMESPACE | 1 NEWS | 7 + R/extract-highway.R | 40 +++++----- R/extract-highways.R | 6 - R/extract-osm-objects.R | 129 ++++++++++++++++++++++----------- R/osmplotr.R | 1 man/extract_osm_objects.Rd | 9 ++ tests/testthat/test-connect-highways.R | 58 ++++++++------ tests/testthat/test-extract-objects.R | 43 +++++++++-- 11 files changed, 217 insertions(+), 107 deletions(-)
Title: Fast n-Gram 'Tokenization'
Description: An n-gram is a sequence of n "words" taken from a
body of text in order. This package offers utilities for creating,
displaying, summarizing, and "babbling" n-grams. The
'tokenization' and "babbling" are handled by very efficient C
code, which can even be build as its own standalone library.
The babbler is a simple Markov chain. The package also offers
a vignette with complete example 'workflows' and information about
the utilities offered in the package.
Author: Drew Schmidt [aut, cre],
Christian Heckendorf [aut]
Maintainer: Drew Schmidt <wrathematics@gmail.com>
Diff between ngram versions 3.0.0 dated 2016-05-10 and 3.0.1 dated 2016-07-13
ngram-3.0.0/ngram/tests/babble.R |only ngram-3.0.0/ngram/vignettes/ngram-guide.pdf |only ngram-3.0.1/ngram/ChangeLog | 11 ngram-3.0.1/ngram/DESCRIPTION | 6 ngram-3.0.1/ngram/MD5 | 54 +-- ngram-3.0.1/ngram/R/babble.r | 6 ngram-3.0.1/ngram/R/ngram_asweka.r | 3 ngram-3.0.1/ngram/README.md | 80 ++--- ngram-3.0.1/ngram/inst/CITATION | 6 ngram-3.0.1/ngram/man/babble.Rd | 11 ngram-3.0.1/ngram/src/asweka.c | 30 +- ngram-3.0.1/ngram/src/constructor.c | 8 ngram-3.0.1/ngram/src/converters.c | 2 ngram-3.0.1/ngram/src/gen.c | 6 ngram-3.0.1/ngram/src/ngram.h | 1 ngram-3.0.1/ngram/src/ngram/src/common_defs.h | 7 ngram-3.0.1/ngram/src/ngram/src/counts.c | 5 ngram-3.0.1/ngram/src/ngram/src/gen.c | 377 +++++++++++++------------- ngram-3.0.1/ngram/src/ngram/src/io.c | 3 ngram-3.0.1/ngram/src/ngram/src/lex.c | 30 +- ngram-3.0.1/ngram/src/ngram/src/lex.h | 2 ngram-3.0.1/ngram/src/ngram/src/process.c | 33 +- ngram-3.0.1/ngram/src/ngram/src/sorts.c | 21 - ngram-3.0.1/ngram/src/ngram/src/summary.c | 7 ngram-3.0.1/ngram/src/ngram/src/summary.h | 2 ngram-3.0.1/ngram/src/ngram/src/wordcmp.c | 5 ngram-3.0.1/ngram/src/phrase_table.c | 21 + ngram-3.0.1/ngram/vignettes/cover/cover.pdf |binary ngram-3.0.1/ngram/vignettes/ngram-guide.Rnw | 2 29 files changed, 416 insertions(+), 323 deletions(-)
Title: Taxonomic Monographs Tools
Description: Contains functions intended to facilitate the production of plant taxonomic monographs. The package includes functions to convert tables into taxonomic descriptions, lists of collectors, examined specimens, and can generate a monograph skeleton. Additionally, wrapper functions to batch the production of phenology charts and distributional and diversity maps are also available.
Author: Marcelo Reginato
Maintainer: Marcelo Reginato <reginatobio@yahoo.com.br>
Diff between monographaR versions 1.01 dated 2015-11-10 and 1.2.0 dated 2016-07-13
DESCRIPTION | 8 - MD5 | 42 +++---- NAMESPACE | 6 - R/mapBatch.R | 43 ++++++- R/mapDiversity.R | 12 +- R/mapPhenology.R |only R/mapTable.R | 6 + R/monographaR-internal.R | 250 +++++++++++++++++++++--------------------- R/phenoHist.R | 6 - build/vignette.rds |binary data/monographaR_examples.rda |binary inst/CITATION | 6 - inst/doc/tutorial.R | 38 ++++++ inst/doc/tutorial.Rmd | 67 +++++++++++ inst/doc/tutorial.html | 111 +++++++++++++++--- man/collectorList.Rd | 116 +++++++++---------- man/mapBatch.Rd | 37 ++++-- man/mapDiversity.Rd | 28 ++++ man/mapPhenology.Rd |only man/monographaR-package.Rd | 7 - man/monographaR_examples.Rd | 3 man/phenoHist.Rd | 231 ++++++++++++++++++++------------------ vignettes/tutorial.Rmd | 67 +++++++++++ 23 files changed, 709 insertions(+), 375 deletions(-)
Title: Create a Mini Version of CRAN Containing Only Selected Packages
Description: Makes it possible to create an internally consistent
repository consisting of selected packages from CRAN-like repositories.
The user specifies a set of desired packages, and miniCRAN recursively
reads the dependency tree for these packages, then downloads only this
subset. The user can then install packages from this repository directly,
rather than from CRAN. This is useful in production settings, e.g. server
behind a firewall, or remote locations with slow broadband access.
Author: Revolution Analytics [aut],
Andrie de Vries [aut, cre],
Alex Chubaty [ctb]
Maintainer: Andrie de
Vries <adevries@microsoft.com>
Diff between miniCRAN versions 0.2.5 dated 2016-04-13 and 0.2.6 dated 2016-07-13
DESCRIPTION | 8 - MD5 | 53 ++++----- NEWS | 21 +++ R/MRAN.R | 2 R/addPackages.R | 61 +++++----- R/helpers.R | 2 R/makeRepo.R | 76 ++++++++----- R/testthat_helpers.R | 23 +++- R/updatePackages.R | 128 +++++++++++------------ build/vignette.rds |binary inst/doc/miniCRAN-dependency-graph.html | 85 ++++++++++++--- inst/doc/miniCRAN-introduction.R | 6 - inst/doc/miniCRAN-introduction.html | 89 +++++++++++++-- inst/doc/miniCRAN-introduction.rmd | 8 - inst/doc/miniCRAN-non-CRAN-repos.html | 81 ++++++++++++-- inst/doc/miniCRAN-non-CRAN-repos.rmd | 2 inst/examples/example_checkVersions.R | 11 - man/addOldPackage.Rd | 15 +- man/addPackage.Rd | 15 +- man/checkVersions.Rd | 13 +- man/repoPrefix.Rd | 2 tests/testthat/test-1-pkgDep.R | 1 tests/testthat/test-2-makeDepGraph.R | 6 - tests/testthat/test-3-makeRepo.R | 38 +++--- tests/testthat/test-3b-makeRepo-from-localCRAN.R |only tests/testthat/test-4-updateRepo.R | 92 ++++++++-------- vignettes/miniCRAN-introduction.rmd | 8 - vignettes/miniCRAN-non-CRAN-repos.rmd | 2 28 files changed, 544 insertions(+), 304 deletions(-)
Title: Morphological Analysis and Spell Checker for R
Description: A spell checker and morphological analyzer library designed for
languages with rich morphology and complex word compounding or character
encoding. The package can check and analyze individual words as well as
search for incorrect words within a text, latex or manual document. Use
the 'devtools' package to spell R documentation with 'hunspell'.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>
Diff between hunspell versions 1.4 dated 2016-07-12 and 1.4.2 dated 2016-07-13
hunspell-1.4.2/hunspell/DESCRIPTION | 8 ++++---- hunspell-1.4.2/hunspell/LICENSE.note | 6 ++++-- hunspell-1.4.2/hunspell/MD5 | 9 ++++----- hunspell-1.4.2/hunspell/NEWS | 6 ++++++ hunspell-1.4.2/hunspell/src/utils.h | 23 +++++++++-------------- hunspell-1.4/hunspell/LICENSE |only 6 files changed, 27 insertions(+), 25 deletions(-)
Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source
math engine for big data that computes parallel distributed
machine learning algorithms such as generalized linear models,
gradient boosting machines, random forests, and neural networks
(deep learning) within various cluster environments.
Author: Spencer Aiello, Tom Kraljevic and Petr Maj, with contributions from the
H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>
Diff between h2o versions 3.8.2.6 dated 2016-06-02 and 3.8.3.3 dated 2016-07-13
DESCRIPTION | 8 +-- MD5 | 62 ++++++++++++----------- NAMESPACE | 5 + R/classes.R | 21 +++++--- R/communication.R | 12 +++- R/connection.R | 9 ++- R/constants.R | 2 R/deeplearning.R | 6 +- R/frame.R | 104 ++++++++++++++++++++++++++++------------ R/gbm.R | 6 +- R/glm.R | 17 +++--- R/glrm.R | 4 - R/kvstore.R | 15 ++++- R/locate.R | 7 ++ R/models.R | 73 ++++++++++++++++++++++++++++ R/parse.R | 4 - R/randomforest.R | 11 ++-- inst/branch.txt | 2 inst/buildnum.txt | 2 man/H2OConnection-class.Rd | 2 man/h2o-package.Rd | 6 +- man/h2o.cor.Rd |only man/h2o.deeplearning.Rd | 28 +++++----- man/h2o.download_pojo.Rd | 8 +-- man/h2o.gbm.Rd | 13 ++--- man/h2o.glm.Rd | 22 ++++---- man/h2o.importFile.Rd | 3 - man/h2o.impute.Rd | 14 ++--- man/h2o.init.Rd | 5 + man/h2o.mean_per_class_error.Rd |only man/h2o.metric.Rd | 3 + man/h2o.randomForest.Rd | 16 +++--- man/h2o.splitFrame.Rd | 9 +++ 33 files changed, 335 insertions(+), 164 deletions(-)
Title: Circle Manhattan Plot
Description: Manhattan plot, a type of scatter plot, was widely used to display the association results. However, it is usually time-consuming and laborious for a
non-specialist user to write scripts and adjust parameters of an elaborate plot. Moreover, the ever-growing traits measured have necessitated the
integration of results from different Genome-wide association study researches. Circle Manhattan Plot is the first open R package that can lay out
Genome-wide association study P-value results in both traditional rectangular patterns, QQ-plot and novel circular ones. United in only one bull's eye style
plot, association results from multiple traits can be compared interactively, thereby to reveal both similarities and differences between signals.
Author: LiLin-Yin
Maintainer: LiLin-Yin <ylilin@163.com>
Diff between CMplot versions 3.1.3 dated 2016-06-02 and 3.1.4 dated 2016-07-13
DESCRIPTION | 8 +- MD5 | 8 +- NAMESPACE | 2 R/CMplot.r | 164 +++++++++++++++++++++++++++++--------------------- man/CMplot-package.Rd | 58 ++++++++++------- 5 files changed, 143 insertions(+), 97 deletions(-)