Title: 'Htmlwidgets' in Responsive 'iframes'
Description: Provides two functions 'frameableWidget()', and 'frameWidget()'.
The 'frameableWidget()' is used to add extra code to a 'htmlwidget' which
allows is to be rendered correctly inside a responsive 'iframe'.
The 'frameWidget()' is a 'htmlwidget' which displays content of another 'htmlwidget'
inside a responsive 'iframe'.
These functions allow for easier embedding of 'htmlwidgets' in content management systems
such as 'wordpress', 'blogger' etc.
They also allow for separation of widget content from main HTML content where
CSS of the main HTML could interfere with the widget.
Author: Bhaskar Karambelkar [aut, cre]
Maintainer: Bhaskar Karambelkar <bhaskarvk@gmail.com>
Diff between widgetframe versions 0.1.0 dated 2017-02-27 and 0.2.0 dated 2017-05-11
DESCRIPTION | 6 +- MD5 | 35 ++++++++------ NEWS.md | 7 ++ R/knitr_support.R | 82 ++++++++++++++++++++++++++++------- R/widgetframe-package.r | 6 +- R/widgetframe.R | 36 ++++++++++----- build/vignette.rds |binary inst/doc/Using_widgetframe.R | 3 + inst/doc/Using_widgetframe.Rmd | 42 +++++++++++------ inst/doc/Using_widgetframe.html | 38 ++++++++-------- inst/doc/widgetframe_and_knitr.Rmd |only inst/doc/widgetframe_and_knitr.html |only inst/htmlwidgets/pymjs/pym.v1.min.js | 4 - inst/htmlwidgets/widgetframe.yaml | 2 man/frameOptions.Rd | 3 - man/frameableWidget.Rd | 8 ++- man/saveWidgetframe.Rd | 13 +++-- man/widgetframe.Rd | 6 +- vignettes/Using_widgetframe.Rmd | 42 +++++++++++------ vignettes/widgetframe_and_knitr.Rmd |only 20 files changed, 224 insertions(+), 109 deletions(-)
Title: Expected Maximum Profit Classification Performance Measure
Description: Functions for estimating EMP (Expected Maximum Profit Measure) in Credit Risk Scoring and Customer Churn Prediction, according to Verbraken et al (2013, 2014) <DOI:10.1109/TKDE.2012.50>, <DOI:10.1016/j.ejor.2014.04.001>.
Author: Cristian Bravo [aut, cre], Seppe vanden Broucke [ctb], Thomas Verbraken [aut]
Maintainer: Cristian Bravo <C.Bravo@soton.ac.uk>
Diff between EMP versions 2.0.1 dated 2015-01-15 and 2.0.2 dated 2017-05-11
DESCRIPTION | 22 +++++++----- MD5 | 8 ++-- NAMESPACE | 2 + NEWS | 21 +++++++----- man/EMP-package.Rd | 90 ++++++++++++++++++++++++++--------------------------- 5 files changed, 76 insertions(+), 67 deletions(-)
Title: Everyone's Statistical Software
Description: A framework that brings together an abundance of common
statistical models found across packages into a unified interface, and
provides a common architecture for estimation and interpretation, as well
as bridging functions to absorb increasingly more models into the
collective library. Zelig allows each individual package, for each
statistical model, to be accessed by a common uniformly structured call and
set of arguments. Moreover, Zelig automates all the surrounding building
blocks of a statistical work-flow--procedures and algorithms that may be
essential to one user's application but which the original package
developer did not use in their own research and might not themselves
support. These include bootstrapping, jackknifing, and re-weighting of data.
In particular, Zelig automatically generates predicted and simulated
quantities of interest (such as relative risk ratios, average treatment
effects, first differences and predicted and expected values) to interpret
and visualize complex models.
Author: Christine Choirat [aut],
Christopher Gandrud [aut, cre],
James Honaker [aut],
Kosuke Imai [aut],
Gary King [aut],
Olivia Lau [aut],
IQSS Harvard University [cph]
Maintainer: Christopher Gandrud <zelig.zee@gmail.com>
Diff between Zelig versions 5.0-17 dated 2017-03-13 and 5.1-1 dated 2017-05-11
Zelig-5.0-17/Zelig/build |only Zelig-5.0-17/Zelig/demo |only Zelig-5.0-17/Zelig/inst/doc |only Zelig-5.0-17/Zelig/vignettes |only Zelig-5.1-1/Zelig/DESCRIPTION | 24 Zelig-5.1-1/Zelig/MD5 | 269 +++---- Zelig-5.1-1/Zelig/NAMESPACE | 12 Zelig-5.1-1/Zelig/NEWS.md | 163 ++-- Zelig-5.1-1/Zelig/R/create-json.R | 16 Zelig-5.1-1/Zelig/R/datasets.R |only Zelig-5.1-1/Zelig/R/interface.R | 12 Zelig-5.1-1/Zelig/R/model-ar.R | 2 Zelig-5.1-1/Zelig/R/model-arima.R | 2 Zelig-5.1-1/Zelig/R/model-exp.R | 11 Zelig-5.1-1/Zelig/R/model-factor-bayes.R | 23 Zelig-5.1-1/Zelig/R/model-gamma-gee.R | 2 Zelig-5.1-1/Zelig/R/model-gamma-survey.R | 2 Zelig-5.1-1/Zelig/R/model-gamma.R | 2 Zelig-5.1-1/Zelig/R/model-ivreg.R |only Zelig-5.1-1/Zelig/R/model-logit-bayes.R | 12 Zelig-5.1-1/Zelig/R/model-logit-gee.R | 2 Zelig-5.1-1/Zelig/R/model-logit-survey.R | 2 Zelig-5.1-1/Zelig/R/model-logit.R | 2 Zelig-5.1-1/Zelig/R/model-lognorm.R | 4 Zelig-5.1-1/Zelig/R/model-ls.R | 34 Zelig-5.1-1/Zelig/R/model-ma.R | 2 Zelig-5.1-1/Zelig/R/model-mlogit-bayes.R | 2 Zelig-5.1-1/Zelig/R/model-negbinom.R | 2 Zelig-5.1-1/Zelig/R/model-normal-bayes.R | 2 Zelig-5.1-1/Zelig/R/model-normal-gee.R | 4 Zelig-5.1-1/Zelig/R/model-normal-survey.R | 2 Zelig-5.1-1/Zelig/R/model-normal.R | 2 Zelig-5.1-1/Zelig/R/model-oprobit-bayes.R | 2 Zelig-5.1-1/Zelig/R/model-poisson-bayes.R | 2 Zelig-5.1-1/Zelig/R/model-poisson-gee.R | 2 Zelig-5.1-1/Zelig/R/model-poisson-survey.R | 2 Zelig-5.1-1/Zelig/R/model-poisson.R | 2 Zelig-5.1-1/Zelig/R/model-probit-bayes.R | 2 Zelig-5.1-1/Zelig/R/model-probit-gee.R | 2 Zelig-5.1-1/Zelig/R/model-probit-survey.R | 2 Zelig-5.1-1/Zelig/R/model-probit.R | 2 Zelig-5.1-1/Zelig/R/model-quantile.R | 74 + Zelig-5.1-1/Zelig/R/model-relogit.R | 74 + Zelig-5.1-1/Zelig/R/model-survey.R | 2 Zelig-5.1-1/Zelig/R/model-tobit-bayes.R | 2 Zelig-5.1-1/Zelig/R/model-tobit.R | 7 Zelig-5.1-1/Zelig/R/model-weibull.R | 4 Zelig-5.1-1/Zelig/R/model-zelig.R | 570 +++++++++------ Zelig-5.1-1/Zelig/R/utils.R | 253 ++++-- Zelig-5.1-1/Zelig/R/wrappers.R | 53 + Zelig-5.1-1/Zelig/README.md |only Zelig-5.1-1/Zelig/data/CigarettesSW.tab |only Zelig-5.1-1/Zelig/inst/JSON/zelig5models.json | 118 +-- Zelig-5.1-1/Zelig/man/ATT.Rd |only Zelig-5.1-1/Zelig/man/CigarettesSW.Rd |only Zelig-5.1-1/Zelig/man/Zelig-ar-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-arima-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-exp-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-factor-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-gamma-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-gamma-gee-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-gamma-survey-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-ivreg-class.Rd |only Zelig-5.1-1/Zelig/man/Zelig-logit-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-logit-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-logit-gee-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-logit-survey-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-lognorm-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-ls-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-ma-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-mlogit-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-negbin-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-normal-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-normal-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-normal-gee-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-normal-survey-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-oprobit-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-poisson-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-poisson-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-poisson-gee-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-poisson-survey-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-probit-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-probit-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-probit-gee-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-probit-survey-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-quantile-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-relogit-class.Rd | 4 Zelig-5.1-1/Zelig/man/Zelig-tobit-bayes-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-tobit-class.Rd | 2 Zelig-5.1-1/Zelig/man/Zelig-weibull-class.Rd | 2 Zelig-5.1-1/Zelig/man/ci_check.Rd | 1 Zelig-5.1-1/Zelig/man/extract_setrange.Rd | 1 Zelig-5.1-1/Zelig/man/extract_setx.Rd | 1 Zelig-5.1-1/Zelig/man/factor_coef_combine.Rd | 1 Zelig-5.1-1/Zelig/man/figures |only Zelig-5.1-1/Zelig/man/get_qi.Rd |only Zelig-5.1-1/Zelig/man/p_pull.Rd | 1 Zelig-5.1-1/Zelig/man/qi_slimmer.Rd | 12 Zelig-5.1-1/Zelig/man/rm_intercept.Rd | 9 Zelig-5.1-1/Zelig/man/se_pull.Rd | 1 Zelig-5.1-1/Zelig/man/setx.Rd | 2 Zelig-5.1-1/Zelig/man/setx1.Rd | 2 Zelig-5.1-1/Zelig/man/strip_package_name.Rd | 1 Zelig-5.1-1/Zelig/man/transformer.Rd | 4 Zelig-5.1-1/Zelig/man/vcov_gee.Rd |only Zelig-5.1-1/Zelig/man/zelig.Rd | 2 Zelig-5.1-1/Zelig/tests/testthat.R | 8 Zelig-5.1-1/Zelig/tests/testthat/test-amelia.R |only Zelig-5.1-1/Zelig/tests/testthat/test-bayesdiagnostics.R | 10 Zelig-5.1-1/Zelig/tests/testthat/test-exp.R | 11 Zelig-5.1-1/Zelig/tests/testthat/test-ivreg.R |only Zelig-5.1-1/Zelig/tests/testthat/test-ls.R | 89 +- Zelig-5.1-1/Zelig/tests/testthat/test-matchit.R |only Zelig-5.1-1/Zelig/tests/testthat/test-negbin.R | 12 Zelig-5.1-1/Zelig/tests/testthat/test-normal-gee.R |only Zelig-5.1-1/Zelig/tests/testthat/test-quantile.R |only Zelig-5.1-1/Zelig/tests/testthat/test-relogit.R | 51 + Zelig-5.1-1/Zelig/tests/testthat/test-tobit.R | 19 Zelig-5.1-1/Zelig/tests/testthat/test-utils.R | 6 Zelig-5.1-1/Zelig/tests/testthat/test-wrappers.R | 29 Zelig-5.1-1/Zelig/tests/testthat/test-zelig.R | 9 121 files changed, 1329 insertions(+), 810 deletions(-)
Title: Fit Linear Transformation Models for Right Censored Data
Description: A unified estimation procedure for the analysis of right censored data using linear transformation models.
Author: Jie Zhou, Jiajia Zhang, Wenbin Lu
Maintainer: Jie Zhou <zhoujie02569@gmail.com>
Diff between TransModel versions 2.0 dated 2017-05-02 and 2.1 dated 2017-05-11
TransModel-2.0/TransModel/R/loglik.R |only TransModel-2.1/TransModel/DESCRIPTION | 8 ++-- TransModel-2.1/TransModel/MD5 | 28 +++++++------- TransModel-2.1/TransModel/NAMESPACE | 4 +- TransModel-2.1/TransModel/R/TransModel.default.R | 2 - TransModel-2.1/TransModel/R/predict.TransModel.R | 25 +++++++----- TransModel-2.1/TransModel/R/print.TransModel.R | 2 - TransModel-2.1/TransModel/R/print.summary.TransModel.R | 2 - TransModel-2.1/TransModel/R/summary.TransModel.R | 4 -- TransModel-2.1/TransModel/build/partial.rdb |binary TransModel-2.1/TransModel/man/TransModel.Rd | 4 -- TransModel-2.1/TransModel/man/TransModel.default.Rd | 4 +- TransModel-2.1/TransModel/man/predict.TransModel.Rd | 18 ++++----- TransModel-2.1/TransModel/man/print.TransModel.Rd | 2 - TransModel-2.1/TransModel/man/print.summary.TransModel.Rd |only TransModel-2.1/TransModel/man/summary.TransModel.Rd | 9 ---- 16 files changed, 50 insertions(+), 62 deletions(-)
Title: Functional Programming Tools
Description: Make your pure functions purr with the 'purrr' package. This
package completes R's functional programming tools with missing features
present in other programming languages.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between purrr versions 0.2.2 dated 2016-06-18 and 0.2.2.2 dated 2017-05-11
purrr-0.2.2.2/purrr/DESCRIPTION | 23 +--- purrr-0.2.2.2/purrr/MD5 | 126 +++++++++------------- purrr-0.2.2.2/purrr/NAMESPACE | 21 --- purrr-0.2.2.2/purrr/NEWS.md | 14 ++ purrr-0.2.2.2/purrr/R/composition.R | 7 - purrr-0.2.2.2/purrr/R/flatten.R | 1 purrr-0.2.2.2/purrr/R/map.R | 15 ++ purrr-0.2.2.2/purrr/R/purrr.R |only purrr-0.2.2.2/purrr/R/transpose.R | 1 purrr-0.2.2.2/purrr/R/utils.R | 3 purrr-0.2.2.2/purrr/README.md | 2 purrr-0.2.2.2/purrr/man/accumulate.Rd | 1 purrr-0.2.2.2/purrr/man/along.Rd | 1 purrr-0.2.2.2/purrr/man/array-coercion.Rd | 1 purrr-0.2.2.2/purrr/man/as_function.Rd | 1 purrr-0.2.2.2/purrr/man/as_vector.Rd | 1 purrr-0.2.2.2/purrr/man/at_depth.Rd | 1 purrr-0.2.2.2/purrr/man/bare-type-predicates.Rd | 9 - purrr-0.2.2.2/purrr/man/compose.Rd | 1 purrr-0.2.2.2/purrr/man/conditional-map.Rd | 3 purrr-0.2.2.2/purrr/man/contains.Rd | 1 purrr-0.2.2.2/purrr/man/cross_n.Rd | 3 purrr-0.2.2.2/purrr/man/detect.Rd | 1 purrr-0.2.2.2/purrr/man/every.Rd | 1 purrr-0.2.2.2/purrr/man/flatmap.Rd | 1 purrr-0.2.2.2/purrr/man/flatten.Rd | 7 - purrr-0.2.2.2/purrr/man/get-attr.Rd | 3 purrr-0.2.2.2/purrr/man/head_while.Rd | 1 purrr-0.2.2.2/purrr/man/invoke.Rd | 7 - purrr-0.2.2.2/purrr/man/is_empty.Rd | 1 purrr-0.2.2.2/purrr/man/is_formula.Rd | 1 purrr-0.2.2.2/purrr/man/keep.Rd | 5 purrr-0.2.2.2/purrr/man/lift.Rd | 14 -- purrr-0.2.2.2/purrr/man/lmap.Rd | 3 purrr-0.2.2.2/purrr/man/map.Rd | 5 purrr-0.2.2.2/purrr/man/map2.Rd | 17 +- purrr-0.2.2.2/purrr/man/negate.Rd | 1 purrr-0.2.2.2/purrr/man/null-default.Rd | 3 purrr-0.2.2.2/purrr/man/partial.Rd | 2 purrr-0.2.2.2/purrr/man/pipe.Rd | 1 purrr-0.2.2.2/purrr/man/prepend.Rd | 1 purrr-0.2.2.2/purrr/man/purrr-package.Rd |only purrr-0.2.2.2/purrr/man/rbernoulli.Rd | 1 purrr-0.2.2.2/purrr/man/rdunif.Rd | 1 purrr-0.2.2.2/purrr/man/reduce.Rd | 1 purrr-0.2.2.2/purrr/man/rerun.Rd | 1 purrr-0.2.2.2/purrr/man/safely.Rd | 5 purrr-0.2.2.2/purrr/man/scalar-type-predicates.Rd | 13 +- purrr-0.2.2.2/purrr/man/set_names.Rd | 1 purrr-0.2.2.2/purrr/man/splice.Rd | 1 purrr-0.2.2.2/purrr/man/split_by.Rd | 3 purrr-0.2.2.2/purrr/man/transpose.Rd | 3 purrr-0.2.2.2/purrr/man/type-predicates.Rd | 15 +- purrr-0.2.2.2/purrr/man/update_list.Rd | 1 purrr-0.2.2.2/purrr/man/when.Rd | 1 purrr-0.2.2.2/purrr/src/init.c |only purrr-0.2.2/purrr/R/dmap.R |only purrr-0.2.2/purrr/R/rows.R |only purrr-0.2.2/purrr/man/by_row.Rd |only purrr-0.2.2/purrr/man/by_slice.Rd |only purrr-0.2.2/purrr/man/dmap.Rd |only purrr-0.2.2/purrr/man/slice_rows.Rd |only purrr-0.2.2/purrr/src/Makevars |only purrr-0.2.2/purrr/src/Makevars.win |only purrr-0.2.2/purrr/src/fast-copy.cpp |only purrr-0.2.2/purrr/src/fast-copy.h |only purrr-0.2.2/purrr/src/rows-data.cpp |only purrr-0.2.2/purrr/src/rows-data.h |only purrr-0.2.2/purrr/src/rows-formatter.cpp |only purrr-0.2.2/purrr/src/rows-formatter.h |only purrr-0.2.2/purrr/src/rows.cpp |only purrr-0.2.2/purrr/src/utils.cpp |only purrr-0.2.2/purrr/src/utils.h |only purrr-0.2.2/purrr/tests/testthat/test-dmap.R |only purrr-0.2.2/purrr/tests/testthat/test-rows.R |only 75 files changed, 143 insertions(+), 215 deletions(-)
Title: Tools for Spatial Data
Description: For curve, surface and function fitting with an emphasis
on splines, spatial data and spatial statistics. The major methods
include cubic, and thin plate splines, Kriging and compact
covariances for large data sets. The splines and Kriging methods are
supported by functions that can determine the smoothing parameter
(nugget and sill variance) and other covariance parameters by cross
validation and also by restricted maximum likelihood. For Kriging
there is an easy to use function that also estimates the correlation
scale (range parameter). A major feature is that any covariance function
implemented in R and following a simple format can be used for
spatial prediction. There are also many useful functions for plotting
and working with spatial data as images. This package also contains
an implementation of sparse matrix methods for large spatial data
sets and currently requires the sparse matrix (spam) package. Use
help(fields) to get started and for an overview. The fields source
code is deliberately commented and provides useful explanations of
numerical details as a companion to the manual pages. The commented
source code can be viewed by expanding the package source code "tarball"
(ending in tar.gz)
and looking in the R subdirectory. The reference for fields can be generated
by the citation function in R and has DOI <doi:10.5065/D6W957CT>.
Author: Douglas Nychka [aut, cre], Reinhard Furrer [aut], John Paige [aut], Stephan Sain [aut]
Maintainer: Douglas Nychka <nychka@ucar.edu>
Diff between fields versions 8.8 dated 2016-12-16 and 8.15 dated 2017-05-11
fields-8.15/fields/DESCRIPTION | 16 fields-8.15/fields/MD5 | 124 +++---- fields-8.15/fields/NAMESPACE | 2 fields-8.15/fields/R/ExponentialUpper.R | 2 fields-8.15/fields/R/MLESpatialProcess.R | 39 +- fields-8.15/fields/R/as.image.R | 13 fields-8.15/fields/R/compactToMat.R | 3 fields-8.15/fields/R/exp.cov.R | 3 fields-8.15/fields/R/mKrig.MLE.joint.R | 2 fields-8.15/fields/R/mKrig.R | 16 fields-8.15/fields/R/mKrig.family.R | 18 - fields-8.15/fields/R/mKrigMLEGrid.R | 15 fields-8.15/fields/R/plot.Krig.R | 18 - fields-8.15/fields/R/predictSE.family.R |only fields-8.15/fields/R/predictSurface.Krig.R | 2 fields-8.15/fields/R/predictSurface.R |only fields-8.15/fields/R/quilt.plot.R | 6 fields-8.15/fields/R/spatialProcess.R | 53 ++- fields-8.15/fields/R/which.max.matrix.R |only fields-8.15/fields/man/MLESpatialProcess.Rd | 4 fields-8.15/fields/man/image.smooth.Rd | 7 fields-8.15/fields/man/image2lz.Rd | 16 fields-8.15/fields/man/mKrig.Rd | 29 + fields-8.15/fields/man/mKrigMLE.Rd | 36 +- fields-8.15/fields/man/quilt.plot.Rd | 12 fields-8.15/fields/man/registeredC.Rd |only fields-8.15/fields/man/spatialProcess.Rd | 8 fields-8.15/fields/man/vgram.Rd | 4 fields-8.15/fields/src/init.c |only fields-8.15/fields/tests/Krig.Z.test.Rout.save | 13 fields-8.15/fields/tests/Krig.se.W.Rout.save | 13 fields-8.15/fields/tests/Krig.se.grid.test.Rout.save | 13 fields-8.15/fields/tests/Krig.se.test.R | 2 fields-8.15/fields/tests/Krig.se.test.Rout.save | 185 ++++++++++- fields-8.15/fields/tests/Krig.test.Rout.save | 13 fields-8.15/fields/tests/Krig.test.W.Rout.save | 13 fields-8.15/fields/tests/KrigGCVREML.test.R | 4 fields-8.15/fields/tests/KrigGCVREML.test.Rout.save | 13 fields-8.15/fields/tests/Likelihood.test.R | 2 fields-8.15/fields/tests/Likelihood.test.Rout.save | 123 ------- fields-8.15/fields/tests/REMLest.test.R | 44 ++ fields-8.15/fields/tests/REMLest.test.Rout.save | 21 - fields-8.15/fields/tests/Tps.test.Rout.save | 9 fields-8.15/fields/tests/Wend.test.Rout.save | 13 fields-8.15/fields/tests/cov.test.Rout.save | 9 fields-8.15/fields/tests/derivative.test.Rout.save | 13 fields-8.15/fields/tests/diag.multiply.test.Rout.save | 13 fields-8.15/fields/tests/diagonal2.test.Rout.save | 13 fields-8.15/fields/tests/evlpoly.test.Rout.save | 13 fields-8.15/fields/tests/fastTpsPredict.test.Rout.save | 13 fields-8.15/fields/tests/mKrig.MLE.test.Rout.save | 13 fields-8.15/fields/tests/mKrig.Z.Rout.save | 12 fields-8.15/fields/tests/mKrig.parameters.test.R | 88 +++-- fields-8.15/fields/tests/mKrig.parameters.test.Rout.save | 251 ++++++++++++++- fields-8.15/fields/tests/mKrig.se.test.R | 6 fields-8.15/fields/tests/mKrig.se.test.Rout.save | 13 fields-8.15/fields/tests/mKrig.test.R | 12 fields-8.15/fields/tests/mKrig.test.Rout.save | 13 fields-8.15/fields/tests/mKrigMLETest.R | 81 +++- fields-8.15/fields/tests/mKrigREMLTest.R |only fields-8.15/fields/tests/misc.test.Rout.save | 13 fields-8.15/fields/tests/spam.test.Rout.save | 13 fields-8.15/fields/tests/sreg.test.Rout.save | 13 fields-8.15/fields/tests/test.cov.Rout.save | 13 fields-8.15/fields/tests/vgram.test.Rout.save | 13 fields-8.8/fields/R/predictSurfaceSE.family.R |only fields-8.8/fields/src/dotprd.f |only 67 files changed, 964 insertions(+), 593 deletions(-)
Title: Clustering for Business Analytics
Description: Implements clustering techniques such as Proximus and Rock, utility functions for efficient computation of cross distances and data manipulation.
Author: Christian Buchta and Michael Hahsler
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>
Diff between cba versions 0.2-18 dated 2017-01-18 and 0.2-19 dated 2017-05-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- src/dll.c | 38 +++++++++++++++++++------------------- src/proximus.c | 2 +- src/sdists.c | 9 ++++++--- 5 files changed, 33 insertions(+), 30 deletions(-)
Title: Multidimensional Scaling
Description: Provides the following approaches for multidimensional scaling (MDS) based on stress minimization using majorization (smacof): basic MDS on symmetric dissimilarity matrices,
MDS with external constraints on the configuration, individual differences scaling (idioscal, indscal, and friends), MDS with spherical restrictions, and unfolding. The MDS type can be ratio, interval, ordinal, and monotone splines.
Various tools and extensions like jackknife MDS, bootstrap MDS, permutation tests, MDS biplots, gravity models, inverse MDS, unidimensional scaling, drift vectors (asymmetric MDS), classical scaling, and Procrustes are implemented as well.
Author: Patrick Mair [aut, cre],
Jan De Leeuw [aut],
Ingwer Borg [ctb],
Patrick J. F. Groenen [ctb]
Maintainer: Patrick Mair <mair@fas.harvard.edu>
Diff between smacof versions 1.8-13 dated 2016-04-22 and 1.9-6 dated 2017-05-11
smacof-1.8-13/smacof/data/wish_ger.rda |only smacof-1.8-13/smacof/man/wish_ger.Rd |only smacof-1.9-6/smacof/DESCRIPTION | 27 ++-- smacof-1.9-6/smacof/MD5 | 164 ++++++++++++++------------- smacof-1.9-6/smacof/NAMESPACE | 17 ++ smacof-1.9-6/smacof/R/biplotmds.smacof.R | 11 + smacof-1.9-6/smacof/R/bootmds.R |only smacof-1.9-6/smacof/R/bootmds.smacofB.R |only smacof-1.9-6/smacof/R/driftVectors.R | 1 smacof-1.9-6/smacof/R/gravity.R | 2 smacof-1.9-6/smacof/R/icExplore.R |only smacof-1.9-6/smacof/R/jackknife.R | 3 smacof-1.9-6/smacof/R/mds.R | 2 smacof-1.9-6/smacof/R/nextperm.R | 4 smacof-1.9-6/smacof/R/permtest.smacof.R | 13 +- smacof-1.9-6/smacof/R/plot.icexplore.R |only smacof-1.9-6/smacof/R/plot.mdsbi.R | 23 +++ smacof-1.9-6/smacof/R/plot.smacof.R | 76 ++++++++++-- smacof-1.9-6/smacof/R/plot.smacofID.r | 104 ++++++++++++++++- smacof-1.9-6/smacof/R/plot.smacofJK.R | 13 +- smacof-1.9-6/smacof/R/plot.smacofR.R | 94 ++++++++------- smacof-1.9-6/smacof/R/plot.smacofboot.R |only smacof-1.9-6/smacof/R/print.icexplore.R |only smacof-1.9-6/smacof/R/print.smacofboot.R |only smacof-1.9-6/smacof/R/residuals.smacof.R | 2 smacof-1.9-6/smacof/R/residuals.smacofID.R | 2 smacof-1.9-6/smacof/R/residuals.smacofR.R | 2 smacof-1.9-6/smacof/R/smacofConstraint.R | 11 + smacof-1.9-6/smacof/R/smacofIndDiff.R | 78 ++++-------- smacof-1.9-6/smacof/R/smacofRect.R | 4 smacof-1.9-6/smacof/R/smacofSphere.R | 134 ++++++++++++++-------- smacof-1.9-6/smacof/R/smacofSym.R | 4 smacof-1.9-6/smacof/R/sphereProj.R | 34 +++-- smacof-1.9-6/smacof/R/stress0.R |only smacof-1.9-6/smacof/R/summary.smacofR.R | 4 smacof-1.9-6/smacof/R/transform.R | 6 smacof-1.9-6/smacof/build/vignette.rds |binary smacof-1.9-6/smacof/data/CanadaNews.rda |only smacof-1.9-6/smacof/data/KIPT.rda |only smacof-1.9-6/smacof/data/PVQ40.rda |binary smacof-1.9-6/smacof/data/PVQ40agg.rda |only smacof-1.9-6/smacof/data/crimes.rda |only smacof-1.9-6/smacof/data/rectangles.rda |binary smacof-1.9-6/smacof/inst/NEWS.Rd | 84 +++++++++++++ smacof-1.9-6/smacof/inst/doc/smacof.R | 2 smacof-1.9-6/smacof/inst/doc/smacof.Rnw | 2 smacof-1.9-6/smacof/inst/doc/smacof.pdf |binary smacof-1.9-6/smacof/man/CanadaNews.Rd |only smacof-1.9-6/smacof/man/GOPdtm.Rd | 3 smacof-1.9-6/smacof/man/Guerry.Rd | 4 smacof-1.9-6/smacof/man/KIPT.Rd |only smacof-1.9-6/smacof/man/Lawler.Rd | 2 smacof-1.9-6/smacof/man/PVQ40.Rd | 21 ++- smacof-1.9-6/smacof/man/Plato7.Rd | 2 smacof-1.9-6/smacof/man/Procrustes.Rd | 5 smacof-1.9-6/smacof/man/biplotmds.smacof.Rd | 50 ++++++-- smacof-1.9-6/smacof/man/bootmds.smacofB.Rd |only smacof-1.9-6/smacof/man/bread.rd | 7 - smacof-1.9-6/smacof/man/breakfast.Rd | 3 smacof-1.9-6/smacof/man/crimes.Rd |only smacof-1.9-6/smacof/man/csrranking.rd | 2 smacof-1.9-6/smacof/man/driftVectors.Rd | 2 smacof-1.9-6/smacof/man/ekman.Rd | 3 smacof-1.9-6/smacof/man/gravity.Rd | 10 - smacof-1.9-6/smacof/man/helm.Rd | 4 smacof-1.9-6/smacof/man/icExplore.Rd |only smacof-1.9-6/smacof/man/indvalues.Rd | 8 - smacof-1.9-6/smacof/man/intelligence.Rd | 1 smacof-1.9-6/smacof/man/inverseMDS.Rd | 2 smacof-1.9-6/smacof/man/jackknife.smacofB.Rd | 18 +- smacof-1.9-6/smacof/man/kinshipdelta.Rd | 5 smacof-1.9-6/smacof/man/morse.Rd | 4 smacof-1.9-6/smacof/man/morsescales.Rd | 2 smacof-1.9-6/smacof/man/partypref.Rd | 2 smacof-1.9-6/smacof/man/perception.Rd | 10 - smacof-1.9-6/smacof/man/permtest.smacof.Rd | 2 smacof-1.9-6/smacof/man/plot.smacof.rd | 71 +++++------ smacof-1.9-6/smacof/man/randomstress.Rd | 4 smacof-1.9-6/smacof/man/rectangles.Rd | 10 - smacof-1.9-6/smacof/man/residuals.smacof.Rd | 3 smacof-1.9-6/smacof/man/smacofConstraint.rd | 9 - smacof-1.9-6/smacof/man/smacofIndDiff.Rd | 50 ++++---- smacof-1.9-6/smacof/man/smacofRect.Rd | 14 +- smacof-1.9-6/smacof/man/smacofSphere.Rd | 37 +++--- smacof-1.9-6/smacof/man/smacofSym.Rd | 19 ++- smacof-1.9-6/smacof/man/stardist.Rd | 2 smacof-1.9-6/smacof/man/stress0.Rd |only smacof-1.9-6/smacof/man/symdecomp.Rd | 2 smacof-1.9-6/smacof/man/torgerson.Rd | 2 smacof-1.9-6/smacof/man/uniscale.Rd | 2 smacof-1.9-6/smacof/man/winedat.rd | 2 smacof-1.9-6/smacof/man/wish.Rd |only smacof-1.9-6/smacof/src/init.c |only smacof-1.9-6/smacof/vignettes/smacof.Rnw | 2 94 files changed, 854 insertions(+), 470 deletions(-)
Title: Mining Frequent Sequences
Description: Add-on for arules to handle and mine frequent sequences.
Provides interfaces to the C++ implementation of cSPADE by
Mohammed J. Zaki.
Author: Christian Buchta and Michael Hahsler, with contributions from
Daniel Diaz
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>
Diff between arulesSequences versions 0.2-18 dated 2017-03-16 and 0.2-19 dated 2017-05-11
CHANGELOG | 6 ++++++ DESCRIPTION | 6 +++--- MD5 | 10 +++++----- man/subset-methods.Rd | 15 ++++++++------- src/matrix.c | 22 ++++++++++++++-------- src/similarity.c | 32 ++++++++++++++++++-------------- 6 files changed, 54 insertions(+), 37 deletions(-)
More information about arulesSequences at CRAN
Permanent link
Title: 'Clp (Coin-or linear programming)' Plugin for the 'R'
Optimization Interface
Description: Enhances the R Optimization Infrastructure (ROI) package by registering
the COIN-OR Clp open-source solver from the COIN-OR suite <https://projects.coin-or.org/>.
It allows for solving linear programming with continuous objective variables
keeping sparse constraints definition.
Author: Benoit Thieurmel [aut, cre]
Maintainer: Benoit Thieurmel <benoit.thieurmel@datastorm.fr>
Diff between ROI.plugin.clp versions 0.1 dated 2017-04-12 and 0.2 dated 2017-05-11
DESCRIPTION | 8 +++---- MD5 | 10 ++++----- R/plugin.R | 48 ++++++++++++++++------------------------------- R/zzz.R | 2 - README.md | 3 ++ tests/testthat/test_LP.R | 2 - 6 files changed, 31 insertions(+), 42 deletions(-)
More information about ROI.plugin.clp at CRAN
Permanent link
Title: Mathematical Morphology in Any Number of Dimensions
Description: Provides tools for performing mathematical morphology operations,
such as erosion and dilation, on data of arbitrary dimensionality. Can also
be used for finding connected components, resampling, filtering, smoothing
and other image processing-style operations.
Author: Jon Clayden
Maintainer: Jon Clayden <code@clayden.org>
Diff between mmand versions 1.4.1 dated 2016-09-06 and 1.5.0 dated 2017-05-11
DESCRIPTION | 14 +- MD5 | 106 ++++++++++++---------- NAMESPACE | 8 + NEWS | 27 +++++ R/automata.R | 10 +- R/components.R | 18 +-- R/display.R | 123 ++++++++++++++++++++++--- R/kernels.R | 29 +++--- R/morph.R | 158 +++++++++++++++++++++++++++++---- R/resample.R | 16 +-- R/zzz.R | 3 README.md | 69 ++++++++++---- inst/images/B.png |only man/binarise.Rd | 8 - man/binary.Rd | 3 man/components.Rd | 7 - man/display.Rd | 18 ++- man/filters.Rd | 7 - man/gameOfLife.Rd | 7 - man/gaussianSmooth.Rd | 7 - man/kernels.Rd | 32 +++--- man/morph.Rd | 27 +++-- man/morphology.Rd | 11 +- man/neighbourhood.Rd | 1 man/resample.Rd | 11 +- man/sampleKernelFunction.Rd | 14 +- man/skeletonise.Rd |only man/sketch.Rd |only man/symmetric.Rd | 1 man/threshold.Rd | 7 - src/Array.cpp | 2 src/Componenter.cpp | 2 src/Kernel.cpp | 15 +++ src/Kernel.h | 14 ++ src/Morpher.cpp | 24 +++-- src/Morpher.h | 13 ++ src/Resampler.cpp | 4 src/Resampler.h | 39 ++++++-- src/main.cpp | 34 ++++++- tests/testthat/fan_closed.rds |binary tests/testthat/fan_dilated.rds |binary tests/testthat/fan_eroded.rds |binary tests/testthat/fan_mean_filtered.rds |binary tests/testthat/fan_median_filtered.rds |binary tests/testthat/fan_opened.rds |binary tests/testthat/fan_sobel_filtered.rds |binary tests/testthat/test-10-morph.R | 5 - tests/testthat/test-20-resample.R | 1 tools |only 49 files changed, 651 insertions(+), 244 deletions(-)
Title: Detection and Control of Tree-Ring Widths on Scanned Image
Sections
Description: Identification of ring borders on scanned image sections from dendrochronological samples. Processing of image reflectances to produce gray matrices and time series of smoothed gray values. Luminance data is plotted on segmented images for users to perform both: visual identification of ring borders, or control of automatic detection. Routines to visually include/exclude ring borders on the R graphical device, or automatically detect ring borders using a linear detection algorithm. This algorithm detects ring borders according to positive/negative extreme values in the smoothed time-series of gray values.
Author: Wilson Lara, Carlos Sierra, Felipe Bravo
Maintainer: Wilson Lara <wilarhen@gmail.com>
Diff between measuRing versions 0.3 dated 2015-03-23 and 0.4 dated 2017-05-11
DESCRIPTION | 12 ++++++------ MD5 | 43 ++++++++++++++++++++++++------------------- NAMESPACE | 14 +++++++++++++- R/crossRings.R |only R/dataSegments.R | 4 ++-- R/grayDarker.R | 10 ++++------ R/graySmoothed.R | 6 +++--- R/imageTogray.R | 9 ++++----- R/multiDetect.R | 12 ++++++------ R/plotSegments.R | 17 +++++++++++------ R/reduceList.R |only R/ringDetect.R | 3 ++- R/ringWidths.R | 2 +- build |only man/crossRings.Rd |only man/dataSegments.Rd | 4 ++-- man/grayDarker.Rd | 6 ++---- man/graySmoothed.Rd | 6 +++--- man/imageTogray.Rd | 8 ++++---- man/measuRing-package.Rd | 22 ++++++++-------------- man/multiDetect.Rd | 10 +++++----- man/plotSegments.Rd | 4 ++-- man/reduceList.Rd |only man/ringDetect.Rd | 3 ++- man/ringWidths.Rd | 2 +- 25 files changed, 105 insertions(+), 92 deletions(-)
Title: Feature-Based Landscape Analysis of Continuous and Constrained
Optimization Problems
Description: Contains tools and features, which can be used for an Exploratory
Landscape Analysis (ELA) of single-objective continuous optimization problems.
Those features are able to quantify rather complex properties, such as the
global structure, separability, etc., of the optimization problems.
Author: Pascal Kerschke [aut, cre],
Christian Hanster [ctb],
Jan Dagefoerde [ctb]
Maintainer: Pascal Kerschke <kerschke@uni-muenster.de>
Diff between flacco versions 1.5 dated 2017-04-28 and 1.6 dated 2017-05-11
DESCRIPTION | 16 +++--- MD5 | 26 +++++------ NEWS | 9 +++ R/calculateFeatures.R | 3 - R/feature_ic_infocontent.R | 7 +-- R/gui_BBOBImport.R | 43 +++++++++++++++--- R/gui_SmoofImport.R | 41 ++++++++++++++--- R/gui_featureSetVisualization.R | 81 ++++++++++++++++++++++++++++++----- R/plotInformationContent.R | 40 ++++++++++------- R/utilities.R | 2 inst/flaccogui/app.R | 15 +++--- man/features.Rd | 3 - tests/testthat/Rplots.pdf |binary tests/testthat/test-ic-infocontent.R | 2 14 files changed, 212 insertions(+), 76 deletions(-)
Title: Biomarker Threshold Models
Description: Biomarker threshold models are tools to fit both predictive and prognostic biomarker effects.
Author: Bingshu E. Chen
Maintainer: Bingshu E. Chen <bingshu.chen@queensu.ca>
Diff between bhm versions 1.1 dated 2016-10-11 and 1.11 dated 2017-05-11
DESCRIPTION | 12 ++++++------ MD5 | 19 +++++++++++-------- NAMESPACE | 13 ++++++++++--- R/bhm.R | 2 +- R/bhm_fit.R | 2 +- R/pIndex.R |only R/prolik.R | 6 +++--- inst/CITATION | 22 ++++++++++++++++++++-- man/bhm-package.Rd | 10 +++++++--- man/bhm.Rd | 3 +-- man/pIndex.Rd |only man/pIndexControl.Rd |only 12 files changed, 60 insertions(+), 29 deletions(-)
Title: Generalized Joint Attribute Modeling
Description: Analyzes joint attribute data (e.g., species abundance) that are combinations of continuous and discrete data with Gibbs sampling.
Author: James S. Clark, Daniel Taylor-Rodriquez
Maintainer: James S. Clark <jimclark@duke.edu>
Diff between gjam versions 2.1.3 dated 2017-04-24 and 2.1.4 dated 2017-05-11
DESCRIPTION | 8 - MD5 | 24 +-- R/RcppExports.R | 8 - R/gjamHfunctions.R | 173 +++++++++++++++++-------- build/vignette.rds |binary inst/doc/gjamVignette.R | 23 ++- inst/doc/gjamVignette.Rmd | 305 ++++++++++++++++++++++++++------------------- inst/doc/gjamVignette.html | 278 +++++++++++++++++++++-------------------- man/gjam-package.Rd | 6 src/RcppExports.cpp | 16 +- src/cppFns.cpp | 12 + src/init.c | 4 vignettes/gjamVignette.Rmd | 305 ++++++++++++++++++++++++++------------------- 13 files changed, 685 insertions(+), 477 deletions(-)
Title: Descriptive Interpretations of Confidence Intervals
Description: Produces descriptive interpretations of confidence intervals.
Includes (extensible) support for various test types, specified as sets
of interpretations dependent on where the lower and upper confidence limits
sit.
Author: Jim Vine [aut, cre]
Maintainer: Jim Vine <code@jimvine.co.uk>
Diff between confinterpret versions 0.1.0 dated 2017-03-15 and 0.2.0 dated 2017-05-11
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- NEWS.md | 18 +++++++++++++++--- R/equivalence.R | 12 +++++++++++- R/interpretation_set.R | 4 ++-- R/noninferiority.R | 13 ++++++++++++- R/plot.R | 13 +++++++------ R/superiority.R | 22 +++++++++++++++++----- README.md | 18 ++++++++++++++---- man/interpret_equivalence.Rd | 14 +++++++++++++- man/interpret_noninferiority.Rd | 15 ++++++++++++++- man/interpret_superiority.Rd | 12 ++++++++++++ man/interpretation_set.Rd | 4 ++-- man/interpretations_equivalence.Rd | 10 ++++++++++ man/interpretations_noninferiority.Rd | 10 ++++++++++ man/interpretations_superiority.Rd | 10 ++++++++++ 16 files changed, 167 insertions(+), 44 deletions(-)
Title: Supplementary Item Response Theory Models
Description: Supplementary item response theory models to complement existing
functions in R, including multidimensional compensatory and
noncompensatory IRT models, MCMC for hierarchical IRT models and
testlet models, NOHARM, Rasch copula model, faceted and
hierarchical rater models, ordinal IRT model (ISOP),
DETECT statistic, local structural equation modeling (LSEM).
Author: Alexander Robitzsch [aut,cre]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between sirt versions 1.15-41 dated 2017-03-02 and 2.0-25 dated 2017-05-11
sirt-1.15-41/sirt/R/amh.R |only sirt-1.15-41/sirt/R/amh_compare_estimators.R |only sirt-1.15-41/sirt/R/amh_eval_prior.R |only sirt-1.15-41/sirt/R/amh_ic.R |only sirt-1.15-41/sirt/R/amh_loglike.R |only sirt-1.15-41/sirt/R/amh_posterior.R |only sirt-1.15-41/sirt/R/amh_proposal_refresh.R |only sirt-1.15-41/sirt/R/amh_sampling.R |only sirt-1.15-41/sirt/R/coef.amh.R |only sirt-1.15-41/sirt/R/coef.mlnormal.R |only sirt-1.15-41/sirt/R/coef.pmle.R |only sirt-1.15-41/sirt/R/confint.amh.R |only sirt-1.15-41/sirt/R/confint.mlnormal.R |only sirt-1.15-41/sirt/R/confint.pmle.R |only sirt-1.15-41/sirt/R/logLik.amh.R |only sirt-1.15-41/sirt/R/logLik.mlnormal.R |only sirt-1.15-41/sirt/R/logLik.pmle.R |only sirt-1.15-41/sirt/R/loglike_mvnorm.R |only sirt-1.15-41/sirt/R/lsem.fitsem.R |only sirt-1.15-41/sirt/R/lsem.group.moderator.R |only sirt-1.15-41/sirt/R/lsem.parameter.summary.R |only sirt-1.15-41/sirt/R/lsem.residualize.R |only sirt-1.15-41/sirt/R/mlnormal.R |only sirt-1.15-41/sirt/R/mlnormalCheckMatrixListDifference.R |only sirt-1.15-41/sirt/R/mlnormalMatrix2List.R |only sirt-1.15-41/sirt/R/mlnormal_abs_approx.R |only sirt-1.15-41/sirt/R/mlnormal_adjust_numdiff_parameter.R |only sirt-1.15-41/sirt/R/mlnormal_as_vector_names.R |only sirt-1.15-41/sirt/R/mlnormal_covmat_add_ridge.R |only sirt-1.15-41/sirt/R/mlnormal_create_disp.R |only sirt-1.15-41/sirt/R/mlnormal_equal_list_matrices.R |only sirt-1.15-41/sirt/R/mlnormal_equal_matrix.R |only sirt-1.15-41/sirt/R/mlnormal_eval_penalty.R |only sirt-1.15-41/sirt/R/mlnormal_eval_penalty_update_theta.R |only sirt-1.15-41/sirt/R/mlnormal_eval_priors.R |only sirt-1.15-41/sirt/R/mlnormal_eval_priors_derivative.R |only sirt-1.15-41/sirt/R/mlnormal_eval_priors_derivative2.R |only sirt-1.15-41/sirt/R/mlnormal_fill_matrix_from_list.R |only sirt-1.15-41/sirt/R/mlnormal_fit_function_ml.R |only sirt-1.15-41/sirt/R/mlnormal_ic.R |only sirt-1.15-41/sirt/R/mlnormal_information_matrix_reml.R |only sirt-1.15-41/sirt/R/mlnormal_linear_regression_bayes.R |only sirt-1.15-41/sirt/R/mlnormal_log_2pi.R |only sirt-1.15-41/sirt/R/mlnormal_log_det.R |only sirt-1.15-41/sirt/R/mlnormal_parameter_change.R |only sirt-1.15-41/sirt/R/mlnormal_postproc_eval_posterior.R |only sirt-1.15-41/sirt/R/mlnormal_postproc_parameters.R |only sirt-1.15-41/sirt/R/mlnormal_proc.R |only sirt-1.15-41/sirt/R/mlnormal_proc_control.R |only sirt-1.15-41/sirt/R/mlnormal_proc_variance_shortcut.R |only sirt-1.15-41/sirt/R/mlnormal_proc_variance_shortcut_XY_R.R |only sirt-1.15-41/sirt/R/mlnormal_proc_variance_shortcut_XY_Rcpp.R |only sirt-1.15-41/sirt/R/mlnormal_proc_variance_shortcut_Z_R.R |only sirt-1.15-41/sirt/R/mlnormal_proc_variance_shortcut_Z_Rcpp.R |only sirt-1.15-41/sirt/R/mlnormal_process_prior.R |only sirt-1.15-41/sirt/R/mlnormal_sqrt_diag.R |only sirt-1.15-41/sirt/R/mlnormal_update_V_R.R |only sirt-1.15-41/sirt/R/mlnormal_update_V_Rcpp.R |only sirt-1.15-41/sirt/R/mlnormal_update_beta.R |only sirt-1.15-41/sirt/R/mlnormal_update_beta_GLS.R |only sirt-1.15-41/sirt/R/mlnormal_update_beta_XVX_R.R |only sirt-1.15-41/sirt/R/mlnormal_update_beta_XVX_Rcpp.R |only sirt-1.15-41/sirt/R/mlnormal_update_beta_iterations_penalty.R |only sirt-1.15-41/sirt/R/mlnormal_update_beta_iterations_priors.R |only sirt-1.15-41/sirt/R/mlnormal_update_control_list.R |only sirt-1.15-41/sirt/R/mlnormal_update_ml_derivative_V.R |only sirt-1.15-41/sirt/R/mlnormal_update_theta_ml.R |only sirt-1.15-41/sirt/R/mlnormal_update_theta_newton_step.R |only sirt-1.15-41/sirt/R/mlnormal_verbose_f0.R |only sirt-1.15-41/sirt/R/mlnormal_verbose_f1.R |only sirt-1.15-41/sirt/R/mlnormal_verbose_f2.R |only sirt-1.15-41/sirt/R/plot.amh.R |only sirt-1.15-41/sirt/R/pmle.R |only sirt-1.15-41/sirt/R/pmle_data_proc.R |only sirt-1.15-41/sirt/R/pmle_eval_posterior.R |only sirt-1.15-41/sirt/R/pmle_ic.R |only sirt-1.15-41/sirt/R/pmle_process_prior.R |only sirt-1.15-41/sirt/R/print.mlnormal.R |only sirt-1.15-41/sirt/R/summary.amh.R |only sirt-1.15-41/sirt/R/summary.mlnormal.R |only sirt-1.15-41/sirt/R/summary.pmle.R |only sirt-1.15-41/sirt/R/vcov.amh.R |only sirt-1.15-41/sirt/R/vcov.mlnormal.R |only sirt-1.15-41/sirt/R/vcov.pmle.R |only sirt-1.15-41/sirt/man/amh.Rd |only sirt-1.15-41/sirt/man/loglike_mvnorm.Rd |only sirt-1.15-41/sirt/man/mlnormal.Rd |only sirt-1.15-41/sirt/src/mlnormal_helper_functions.cpp |only sirt-2.0-25/sirt/DESCRIPTION | 18 sirt-2.0-25/sirt/MD5 | 162 -- sirt-2.0-25/sirt/NAMESPACE | 23 sirt-2.0-25/sirt/R/IRT.mle.R | 18 sirt-2.0-25/sirt/R/Probtrace_sirt.R |only sirt-2.0-25/sirt/R/Q3.R | 77 - sirt-2.0-25/sirt/R/Q3.testlet.R | 59 - sirt-2.0-25/sirt/R/RcppExports.R | 24 sirt-2.0-25/sirt/R/amh_plot.R |only sirt-2.0-25/sirt/R/btm.R | 445 +++---- sirt-2.0-25/sirt/R/btm_fit.R | 60 - sirt-2.0-25/sirt/R/btm_fit_combine_tables.R |only sirt-2.0-25/sirt/R/confint.xxirt.R | 7 sirt-2.0-25/sirt/R/invgamma2.R | 27 sirt-2.0-25/sirt/R/lsem.estimate.R | 51 sirt-2.0-25/sirt/R/lsem.permutationTest.R | 5 sirt-2.0-25/sirt/R/lsem_fitsem.R |only sirt-2.0-25/sirt/R/lsem_group_moderator.R |only sirt-2.0-25/sirt/R/lsem_parameter_summary.R |only sirt-2.0-25/sirt/R/lsem_residualize.R |only sirt-2.0-25/sirt/R/lsem_weighted_cov.R |only sirt-2.0-25/sirt/R/lsem_weighted_mean.R |only sirt-2.0-25/sirt/R/mcmc_plot.R | 4 sirt-2.0-25/sirt/R/mirt.specify.partable.R | 1 sirt-2.0-25/sirt/R/mirt.wrapper.posterior.R | 52 sirt-2.0-25/sirt/R/mirt_prodterms.R |only sirt-2.0-25/sirt/R/sim.raschtype.R | 3 sirt-2.0-25/sirt/R/sirtcat.R | 6 sirt-2.0-25/sirt/R/xxirt.R | 26 sirt-2.0-25/sirt/R/xxirt_compute_likelihood.R | 26 sirt-2.0-25/sirt/R/xxirt_compute_posterior.R | 60 - sirt-2.0-25/sirt/R/xxirt_prepare_response_data.R |only sirt-2.0-25/sirt/inst/NEWS | 28 sirt-2.0-25/sirt/man/Q3.testlet.Rd | 5 sirt-2.0-25/sirt/man/data.si.Rd | 10 sirt-2.0-25/sirt/man/lsem.estimate.Rd | 22 sirt-2.0-25/sirt/man/mcmc_coef.Rd | 2 sirt-2.0-25/sirt/man/prior_model_parse.Rd | 6 sirt-2.0-25/sirt/man/sirt-package.Rd | 566 ---------- sirt-2.0-25/sirt/src/RcppExports.cpp | 103 - sirt-2.0-25/sirt/src/evm_comp_matrix_poly.cpp | 9 sirt-2.0-25/sirt/src/init.c | 92 - sirt-2.0-25/sirt/src/matrixfunctions_sirt.cpp | 4 sirt-2.0-25/sirt/src/xxirt_functions.cpp |only 132 files changed, 658 insertions(+), 1343 deletions(-)
Title: Fast R Functions
Description: A collection of fast (utility) functions for data analysis. Column- and row- wise means, medians, variances, minimums, maximums, many t, F and G-square tests, many regressions (normal, logistic, Poisson), are some of the many fast functions.
Author: Manos Papadakis, Michail Tsagris, Marios Dimitriadis, Ioannis Tsamardinos, Matteo Fasiolo, Giorgos Borboudakis, John Burkardt and Changliang Zou
Maintainer: Manos Papadakis <papadakm95@gmail.com>
Diff between Rfast versions 1.7.5 dated 2017-02-26 and 1.8.0 dated 2017-05-11
Rfast-1.7.5/Rfast/R/gsquare_ex.R |only Rfast-1.8.0/Rfast/DESCRIPTION | 15 - Rfast-1.8.0/Rfast/MD5 | 335 +++++++++++++++++------ Rfast-1.8.0/Rfast/NAMESPACE | 5 Rfast-1.8.0/Rfast/R/AddToNamespace.R |only Rfast-1.8.0/Rfast/R/Choose.R |only Rfast-1.8.0/Rfast/R/Dist.R | 30 +- Rfast-1.8.0/Rfast/R/Lbeta.R |only Rfast-1.8.0/Rfast/R/Lchoose.R |only Rfast-1.8.0/Rfast/R/Log.R |only Rfast-1.8.0/Rfast/R/Round.R |only Rfast-1.8.0/Rfast/R/Sort.R |only Rfast-1.8.0/Rfast/R/acg.mle.R |only Rfast-1.8.0/Rfast/R/all_equals.R | 29 + Rfast-1.8.0/Rfast/R/ancova1.R |only Rfast-1.8.0/Rfast/R/ancovas.R |only Rfast-1.8.0/Rfast/R/anova1.R |only Rfast-1.8.0/Rfast/R/anova_propreg.R |only Rfast-1.8.0/Rfast/R/block.anova.R |only Rfast-1.8.0/Rfast/R/block.anovas.R |only Rfast-1.8.0/Rfast/R/colMedians.R | 2 Rfast-1.8.0/Rfast/R/colShuffle.R |only Rfast-1.8.0/Rfast/R/colTabulate.R |only Rfast-1.8.0/Rfast/R/colnth.R |only Rfast-1.8.0/Rfast/R/colrange.R | 11 Rfast-1.8.0/Rfast/R/colrint.regbx.R |only Rfast-1.8.0/Rfast/R/colvarcomps.mle.R |only Rfast-1.8.0/Rfast/R/colvarcomps.mom.R |only Rfast-1.8.0/Rfast/R/cor.fsreg.R | 238 ++++++++++++---- Rfast-1.8.0/Rfast/R/corpairs.R |only Rfast-1.8.0/Rfast/R/cova.R | 1 Rfast-1.8.0/Rfast/R/cqtest.R |only Rfast-1.8.0/Rfast/R/cqtests.R |only Rfast-1.8.0/Rfast/R/design_matrix.R | 5 Rfast-1.8.0/Rfast/R/dista.R | 28 - Rfast-1.8.0/Rfast/R/fs.reg.R |only Rfast-1.8.0/Rfast/R/ftest.R |only Rfast-1.8.0/Rfast/R/g2Test.R |only Rfast-1.8.0/Rfast/R/g2Test_perm.R |only Rfast-1.8.0/Rfast/R/g2Test_univariate.R |only Rfast-1.8.0/Rfast/R/g2Test_univariate_perm.R |only Rfast-1.8.0/Rfast/R/glm_logistic.R |only Rfast-1.8.0/Rfast/R/glm_poisson.R |only Rfast-1.8.0/Rfast/R/group.sum.R |only Rfast-1.8.0/Rfast/R/groupcolVars.R |only Rfast-1.8.0/Rfast/R/groupcorrels.R |only Rfast-1.8.0/Rfast/R/iag.mle.R |only Rfast-1.8.0/Rfast/R/kruskaltest.R |only Rfast-1.8.0/Rfast/R/kruskaltests.R |only Rfast-1.8.0/Rfast/R/lmfit.R |only Rfast-1.8.0/Rfast/R/logistic_only.R | 9 Rfast-1.8.0/Rfast/R/mat.mat.R |only Rfast-1.8.0/Rfast/R/mcnemar.R |only Rfast-1.8.0/Rfast/R/mcnemars.R |only Rfast-1.8.0/Rfast/R/min_max.R | 9 Rfast-1.8.0/Rfast/R/negbin.mle.R | 6 Rfast-1.8.0/Rfast/R/poisson_only.R | 9 Rfast-1.8.0/Rfast/R/prop.reg.R |only Rfast-1.8.0/Rfast/R/prop.regs.R |only Rfast-1.8.0/Rfast/R/proptest.R |only Rfast-1.8.0/Rfast/R/read.directory.R |only Rfast-1.8.0/Rfast/R/rint.reg.R |only Rfast-1.8.0/Rfast/R/rint.regbx.R |only Rfast-1.8.0/Rfast/R/rm.anovas.R |only Rfast-1.8.0/Rfast/R/rm.lines.R |only Rfast-1.8.0/Rfast/R/rmdp.R |only Rfast-1.8.0/Rfast/R/rowMinsMaxs.R |only Rfast-1.8.0/Rfast/R/rowShuffle.R |only Rfast-1.8.0/Rfast/R/rowTabulate.R |only Rfast-1.8.0/Rfast/R/rownth.R |only Rfast-1.8.0/Rfast/R/rvmf.R |only Rfast-1.8.0/Rfast/R/rvonmises.R |only Rfast-1.8.0/Rfast/R/score.glms.R | 2 Rfast-1.8.0/Rfast/R/sftest.R |only Rfast-1.8.0/Rfast/R/sftests.R |only Rfast-1.8.0/Rfast/R/sort_mat.R | 13 Rfast-1.8.0/Rfast/R/sort_unique.length.R |only Rfast-1.8.0/Rfast/R/sourceRfiles.R |only Rfast-1.8.0/Rfast/R/squareform.R |only Rfast-1.8.0/Rfast/R/ttest.R |only Rfast-1.8.0/Rfast/R/ttest2.R |only Rfast-1.8.0/Rfast/R/twoway.anova.R |only Rfast-1.8.0/Rfast/R/twoway.anovas.R |only Rfast-1.8.0/Rfast/R/var2test.R |only Rfast-1.8.0/Rfast/R/var2tests.R |only Rfast-1.8.0/Rfast/R/varcomps.mle.R |only Rfast-1.8.0/Rfast/R/varcomps.mom.R |only Rfast-1.8.0/Rfast/R/vartest.R |only Rfast-1.8.0/Rfast/R/vartests.R |only Rfast-1.8.0/Rfast/R/vecdist.R |only Rfast-1.8.0/Rfast/R/vm.mle.R |only Rfast-1.8.0/Rfast/R/vmf.mle.R |only Rfast-1.8.0/Rfast/R/weibull.mle.R | 2 Rfast-1.8.0/Rfast/R/wrapcauchy.mle.R |only Rfast-1.8.0/Rfast/man/AddToNamespace.Rd |only Rfast-1.8.0/Rfast/man/Dist.Rd | 28 + Rfast-1.8.0/Rfast/man/Lbeta.Rd |only Rfast-1.8.0/Rfast/man/Lchoose.Rd |only Rfast-1.8.0/Rfast/man/Lgamma.Rd | 14 Rfast-1.8.0/Rfast/man/Log.Rd |only Rfast-1.8.0/Rfast/man/Match.Rd | 4 Rfast-1.8.0/Rfast/man/Order.Rd | 4 Rfast-1.8.0/Rfast/man/Rfast-package.Rd | 8 Rfast-1.8.0/Rfast/man/Round.Rd |only Rfast-1.8.0/Rfast/man/Sort.Rd |only Rfast-1.8.0/Rfast/man/Var.Rd | 10 Rfast-1.8.0/Rfast/man/acg.mle.Rd |only Rfast-1.8.0/Rfast/man/all_equals.Rd | 19 - Rfast-1.8.0/Rfast/man/allbetas.Rd | 9 Rfast-1.8.0/Rfast/man/ancova1.Rd |only Rfast-1.8.0/Rfast/man/ancovas.Rd |only Rfast-1.8.0/Rfast/man/anova_propreg.Rd |only Rfast-1.8.0/Rfast/man/beta.mle.Rd | 15 - Rfast-1.8.0/Rfast/man/binary_search.Rd | 8 Rfast-1.8.0/Rfast/man/check_data.Rd | 8 Rfast-1.8.0/Rfast/man/colMads.Rd | 2 Rfast-1.8.0/Rfast/man/colMedians.Rd | 8 Rfast-1.8.0/Rfast/man/colMins.Rd | 14 Rfast-1.8.0/Rfast/man/colShuffle.Rd |only Rfast-1.8.0/Rfast/man/colTabulate.Rd |only Rfast-1.8.0/Rfast/man/colVars.Rd | 19 + Rfast-1.8.0/Rfast/man/colmeans.Rd | 2 Rfast-1.8.0/Rfast/man/colnth.Rd |only Rfast-1.8.0/Rfast/man/colrange.Rd | 10 Rfast-1.8.0/Rfast/man/colrint.regbx.Rd |only Rfast-1.8.0/Rfast/man/colsums.Rd | 2 Rfast-1.8.0/Rfast/man/colvarcomps.mom.Rd |only Rfast-1.8.0/Rfast/man/cor.fsreg.Rd | 27 + Rfast-1.8.0/Rfast/man/corpairs.Rd |only Rfast-1.8.0/Rfast/man/correls.Rd | 20 - Rfast-1.8.0/Rfast/man/count_value.Rd | 4 Rfast-1.8.0/Rfast/man/cova.Rd | 11 Rfast-1.8.0/Rfast/man/data.frame.to_matrix.Rd | 2 Rfast-1.8.0/Rfast/man/design_matrix.Rd | 4 Rfast-1.8.0/Rfast/man/diri.nr2.Rd | 2 Rfast-1.8.0/Rfast/man/dista.Rd | 5 Rfast-1.8.0/Rfast/man/fs.reg.Rd |only Rfast-1.8.0/Rfast/man/ftest.Rd |only Rfast-1.8.0/Rfast/man/ftests.Rd | 52 ++- Rfast-1.8.0/Rfast/man/g2Test.Rd | 2 Rfast-1.8.0/Rfast/man/g2Test_univariate.Rd | 8 Rfast-1.8.0/Rfast/man/glm_logistic.Rd |only Rfast-1.8.0/Rfast/man/group.sum.Rd |only Rfast-1.8.0/Rfast/man/hash.find.Rd | 4 Rfast-1.8.0/Rfast/man/iag.mle.Rd |only Rfast-1.8.0/Rfast/man/is.symmetric.Rd | 4 Rfast-1.8.0/Rfast/man/is_element.Rd | 7 Rfast-1.8.0/Rfast/man/kruskaltests.Rd |only Rfast-1.8.0/Rfast/man/lmfit.Rd |only Rfast-1.8.0/Rfast/man/logistic_only.Rd | 16 - Rfast-1.8.0/Rfast/man/mahala.Rd | 8 Rfast-1.8.0/Rfast/man/mat.mat.Rd |only Rfast-1.8.0/Rfast/man/med.Rd | 10 Rfast-1.8.0/Rfast/man/min_max.Rd | 12 Rfast-1.8.0/Rfast/man/mvbetas.Rd | 9 Rfast-1.8.0/Rfast/man/nth.Rd | 6 Rfast-1.8.0/Rfast/man/poisson_only.Rd | 14 Rfast-1.8.0/Rfast/man/prop.reg.Rd |only Rfast-1.8.0/Rfast/man/proptests.Rd | 16 - Rfast-1.8.0/Rfast/man/racg.Rd | 5 Rfast-1.8.0/Rfast/man/read.directory.Rd |only Rfast-1.8.0/Rfast/man/regression.Rd | 6 Rfast-1.8.0/Rfast/man/rint.regbx.Rd |only Rfast-1.8.0/Rfast/man/rm.lines.Rd |only Rfast-1.8.0/Rfast/man/rmdp.Rd |only Rfast-1.8.0/Rfast/man/rmvnorm.Rd | 6 Rfast-1.8.0/Rfast/man/rowMins.Rd | 11 Rfast-1.8.0/Rfast/man/rvmf.Rd |only Rfast-1.8.0/Rfast/man/rvonmises.Rd |only Rfast-1.8.0/Rfast/man/score.betaregs.Rd | 4 Rfast-1.8.0/Rfast/man/score.glms.Rd | 47 +-- Rfast-1.8.0/Rfast/man/score.negbinregs.Rd | 4 Rfast-1.8.0/Rfast/man/score.weibregs.Rd | 6 Rfast-1.8.0/Rfast/man/sftests.Rd |only Rfast-1.8.0/Rfast/man/sort_mat.Rd | 22 + Rfast-1.8.0/Rfast/man/sort_unique.Rd | 17 - Rfast-1.8.0/Rfast/man/sourceRfiles.Rd |only Rfast-1.8.0/Rfast/man/spat.med.Rd | 2 Rfast-1.8.0/Rfast/man/squareform.Rd |only Rfast-1.8.0/Rfast/man/standardise.Rd | 10 Rfast-1.8.0/Rfast/man/ttest.Rd |only Rfast-1.8.0/Rfast/man/ttests.Rd | 34 +- Rfast-1.8.0/Rfast/man/twoway.anovas.Rd |only Rfast-1.8.0/Rfast/man/univglms.Rd | 14 Rfast-1.8.0/Rfast/man/varcomps.mom.Rd |only Rfast-1.8.0/Rfast/man/vm.mle.Rd |only Rfast-1.8.0/Rfast/man/weibull.mle.Rd | 6 Rfast-1.8.0/Rfast/man/zip.mle.Rd | 4 Rfast-1.8.0/Rfast/src/Choose.cpp |only Rfast-1.8.0/Rfast/src/Lbeta.cpp |only Rfast-1.8.0/Rfast/src/Lchoose.cpp |only Rfast-1.8.0/Rfast/src/Log.cpp |only Rfast-1.8.0/Rfast/src/Match.cpp | 15 - Rfast-1.8.0/Rfast/src/Round.cpp |only Rfast-1.8.0/Rfast/src/Sort.cpp |only Rfast-1.8.0/Rfast/src/addfunctionstoexport.cpp |only Rfast-1.8.0/Rfast/src/bhattacharyya_dist.cpp |only Rfast-1.8.0/Rfast/src/binarysearch.cpp | 33 +- Rfast-1.8.0/Rfast/src/canberra1_dist.cpp |only Rfast-1.8.0/Rfast/src/canberra2_dist.cpp |only Rfast-1.8.0/Rfast/src/colTabulate.cpp |only Rfast-1.8.0/Rfast/src/col_len_sort_un_int.cpp |only Rfast-1.8.0/Rfast/src/colnth.cpp |only Rfast-1.8.0/Rfast/src/colshuffle.cpp |only Rfast-1.8.0/Rfast/src/count_value.cpp | 9 Rfast-1.8.0/Rfast/src/design_matrix.cpp | 6 Rfast-1.8.0/Rfast/src/design_matrix_big.cpp |only Rfast-1.8.0/Rfast/src/dista.cpp |only Rfast-1.8.0/Rfast/src/fs_reg.cpp |only Rfast-1.8.0/Rfast/src/functions_to_export.cpp |only Rfast-1.8.0/Rfast/src/functions_to_export.h |only Rfast-1.8.0/Rfast/src/glm_logistic.cpp |only Rfast-1.8.0/Rfast/src/glm_poisson.cpp |only Rfast-1.8.0/Rfast/src/group_sum.cpp |only Rfast-1.8.0/Rfast/src/hellinger_dist.cpp |only Rfast-1.8.0/Rfast/src/init.c | 106 ++++++- Rfast-1.8.0/Rfast/src/kron.cpp |only Rfast-1.8.0/Rfast/src/kullback_leibler_dist.cpp |only Rfast-1.8.0/Rfast/src/len_sort_unique_double.cpp |only Rfast-1.8.0/Rfast/src/len_sort_unique_int.cpp |only Rfast-1.8.0/Rfast/src/lgstc_pssn.cpp |only Rfast-1.8.0/Rfast/src/lgstc_pssn.h |only Rfast-1.8.0/Rfast/src/logistic_only_b.cpp |only Rfast-1.8.0/Rfast/src/mat_mat.cpp |only Rfast-1.8.0/Rfast/src/min_dist.cpp |only Rfast-1.8.0/Rfast/src/min_max_percent.cpp |only Rfast-1.8.0/Rfast/src/minkowski_dist.cpp |only Rfast-1.8.0/Rfast/src/mn.cpp | 206 ++++++++++++++ Rfast-1.8.0/Rfast/src/mn.h | 28 + Rfast-1.8.0/Rfast/src/partial_sort.cpp |only Rfast-1.8.0/Rfast/src/poisson_only_b.cpp |only Rfast-1.8.0/Rfast/src/prop_reg.cpp |only Rfast-1.8.0/Rfast/src/prop_regs.cpp |only Rfast-1.8.0/Rfast/src/read_directory.cpp |only Rfast-1.8.0/Rfast/src/regression.cpp | 4 Rfast-1.8.0/Rfast/src/rep_col.cpp |only Rfast-1.8.0/Rfast/src/rmdp.cpp |only Rfast-1.8.0/Rfast/src/rowTabulate.cpp |only Rfast-1.8.0/Rfast/src/row_min_max.cpp |only Rfast-1.8.0/Rfast/src/rownth.cpp |only Rfast-1.8.0/Rfast/src/rowrange.cpp | 33 +- Rfast-1.8.0/Rfast/src/rowshuffle.cpp |only Rfast-1.8.0/Rfast/src/rvmf_h.cpp |only Rfast-1.8.0/Rfast/src/sort_mat.cpp | 64 +++- Rfast-1.8.0/Rfast/src/sort_mat_stable.cpp |only Rfast-1.8.0/Rfast/src/sort_string.cpp |only Rfast-1.8.0/Rfast/src/sort_unique_int.cpp | 78 +++-- Rfast-1.8.0/Rfast/src/squareform.cpp |only Rfast-1.8.0/Rfast/src/stable_sort.cpp |only Rfast-1.8.0/Rfast/src/total_variation_dist.cpp |only Rfast-1.8.0/Rfast/src/varcomps_mle.cpp |only Rfast-1.8.0/Rfast/src/vecdist.cpp |only 252 files changed, 1375 insertions(+), 581 deletions(-)
Title: Indices of Productivity Using Data Envelopment Analysis (DEA)
Description: Various transitive measures of productivity and profitability, in levels and changes, are computed.
In addition to the classic Malmquist productivity index, the 'productivity' package contains also the
multiplicatively complete and transitive Färe-Primont and Lowe indices.
These indices are also decomposed into different components providing insightful information on
the sources of productivity and profitability improvements.
In the use of Malmquist productivity index, the technological change index is further decomposed
into bias technological change components.
For the transitive Färe-Primont and Lowe measures, it is possible to rule out technological change.
The package also allows to prohibit negative technological change.
All the estimations are based on the nonparametric Data Envelopment Analysis (DEA) and several
assumptions regarding returns to scale are available (i.e. CRS, VRS, NIRS, NDRS).
The package allows parallel computing by default, depending on the user's computer configuration.
Author: K Hervé Dakpo [aut],
Yann Desjeux [aut, cre],
Laure Latruffe [aut]
Maintainer: Yann Desjeux <yann.desjeux@inra.fr>
Diff between productivity versions 0.1.0 dated 2016-11-14 and 0.2.0 dated 2017-05-11
DESCRIPTION | 11 ++++++----- MD5 | 14 ++++++++------ NEWS.md |only R/fareprim.R | 10 ++++++---- R/lowe.R | 2 +- R/zzz.R | 7 +++++-- inst |only man/fareprim.Rd | 20 ++++++++++++++------ man/lowe.Rd | 4 +--- 9 files changed, 41 insertions(+), 27 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-05-10 0.1.0
Title: Bi-Directional Interface Between R and Scala with Callbacks
Description: The Scala <http://www.scala-lang.org/> interpreter is embedded in R and callbacks to R from the embedded interpreter are supported. Conversely, the R interpreter is embedded in Scala. Scala versions in the 2.10.x, 2.11.x, and 2.12.x series are supported.
Author: David B. Dahl [aut, cre]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between rscala versions 2.1.0 dated 2017-05-09 and 2.1.1 dated 2017-05-11
rscala-2.1.0/rscala/inst/java/rscala_2.10-2.1.0.jar |only rscala-2.1.0/rscala/inst/java/rscala_2.11-2.1.0.jar |only rscala-2.1.0/rscala/inst/java/rscala_2.12-2.1.0.jar |only rscala-2.1.1/rscala/DESCRIPTION | 8 ++--- rscala-2.1.1/rscala/MD5 | 28 ++++++++++---------- rscala-2.1.1/rscala/NEWS | 4 ++ rscala-2.1.1/rscala/R/scala.R | 21 +++++++++++---- rscala-2.1.1/rscala/inst/java/rscala_2.10-2.1.1.jar |only rscala-2.1.1/rscala/inst/java/rscala_2.11-2.1.1.jar |only rscala-2.1.1/rscala/inst/java/rscala_2.12-2.1.1.jar |only rscala-2.1.1/rscala/java/rscala-sources.jar |binary rscala-2.1.1/rscala/man/close.Rd | 2 - rscala-2.1.1/rscala/man/constructor.Rd | 25 +++++++++++------ rscala-2.1.1/rscala/man/eval.Rd | 2 - rscala-2.1.1/rscala/man/print.Rd | 2 - rscala-2.1.1/rscala/man/rscala-package.Rd | 2 - rscala-2.1.1/rscala/man/settings.Rd | 2 - rscala-2.1.1/rscala/man/strintrpl.Rd | 2 - 18 files changed, 60 insertions(+), 38 deletions(-)
Title: Fast R and C++ Access to NIfTI Images
Description: Provides very fast access to images stored in the NIfTI-1 file
format <http://nifti.nimh.nih.gov/nifti-1>, with seamless synchronisation
between compiled C and interpreted R code. Not to be confused with
'RNiftyReg', which provides tools for image registration.
Author: Jon Clayden [cre, aut],
Bob Cox [aut],
Mark Jenkinson [aut],
Rick Reynolds [ctb],
Kate Fissell [ctb],
Jean-loup Gailly [cph],
Mark Adler [cph]
Maintainer: Jon Clayden <code@clayden.org>
Diff between RNifti versions 0.5.0 dated 2017-03-08 and 0.5.1 dated 2017-05-11
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 7 +++++++ inst/include/lib/NiftiImage.h | 8 ++++++-- 4 files changed, 20 insertions(+), 9 deletions(-)
Title: Pretty Scientific Plotting with Minor-Tick and Log Minor-Tick
Support
Description: Functions to make useful (and pretty) plots for scientific plotting. Additional plotting features are added for base plotting, with particular emphasis on making attractive log axis plots.
Author: Aaron Robotham
Maintainer: Aaron Robotham <aaron.robotham@uwa.edu.au>
Diff between magicaxis versions 2.0.0 dated 2016-06-26 and 2.0.1 dated 2017-05-11
DESCRIPTION | 8 ++--- MD5 | 46 +++++++++++++++------------- NAMESPACE | 3 + NEWS | 22 ++++++++++++- R/magaxis.R | 7 ---- R/magbar.R | 14 ++++---- R/magclip.R |only R/magcon.R | 10 +++--- R/magerr.R | 75 ++++++++++++++++++++++++++--------------------- R/maghist.R |only R/magimage.R | 22 ++++++++++++- R/magimageRGB.R | 19 +++++++++-- R/magmap.R | 64 +++++++++++++++++++++++----------------- R/magplot.R | 64 ++++++++++++++++++++++++++++++++++++---- man/magaxis.Rd | 2 - man/magband.Rd | 2 - man/magbar.Rd | 8 ++++- man/magclip.Rd |only man/magcon.Rd | 2 - man/magerr.Rd | 15 ++++++--- man/maghist.Rd |only man/magicaxis-package.Rd | 4 +- man/magimage.Rd | 21 +++++++------ man/magmap.Rd | 6 +-- man/magplot.Rd | 32 +++++++++++++++----- man/magrun.Rd | 15 ++++++++- 26 files changed, 315 insertions(+), 146 deletions(-)
Title: Thematic Map Tools
Description: Set of tools for reading and processing spatial data. The aim is to supply the workflow to create thematic maps. This package also facilitates 'tmap', the package for visualizing thematic maps.
Author: Martijn Tennekes [aut, cre]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmaptools versions 1.2 dated 2017-01-29 and 1.2-1 dated 2017-05-11
tmaptools-1.2-1/tmaptools/DESCRIPTION | 14 tmaptools-1.2-1/tmaptools/MD5 | 141 +-- tmaptools-1.2-1/tmaptools/NAMESPACE | 248 ++--- tmaptools-1.2-1/tmaptools/NEWS | 29 tmaptools-1.2-1/tmaptools/R/aggregate_map.R | 608 +++++++------- tmaptools-1.2-1/tmaptools/R/append_data.R | 398 ++++----- tmaptools-1.2-1/tmaptools/R/approx_areas.R | 176 ++-- tmaptools-1.2-1/tmaptools/R/approx_distances.R | 272 +++--- tmaptools-1.2-1/tmaptools/R/bb.R | 454 +++++----- tmaptools-1.2-1/tmaptools/R/bb_sp.R | 198 ++-- tmaptools-1.2-1/tmaptools/R/calc_densities.R | 68 - tmaptools-1.2-1/tmaptools/R/crop_shape.R | 184 ++-- tmaptools-1.2-1/tmaptools/R/geocode_OSM.R | 520 ++++++------ tmaptools-1.2-1/tmaptools/R/get_IDs.R | 52 - tmaptools-1.2-1/tmaptools/R/get_asp_ratio.R | 80 - tmaptools-1.2-1/tmaptools/R/get_brewer_pal.R | 138 +-- tmaptools-1.2-1/tmaptools/R/get_proj4_code.R | 190 ++-- tmaptools-1.2-1/tmaptools/R/is_projected.R | 68 - tmaptools-1.2-1/tmaptools/R/kde2D.R | 124 +- tmaptools-1.2-1/tmaptools/R/line_functions.R | 360 ++++---- tmaptools-1.2-1/tmaptools/R/map_coloring.R | 148 +-- tmaptools-1.2-1/tmaptools/R/onLoad.R | 62 - tmaptools-1.2-1/tmaptools/R/palette_explorer.R | 526 ++++++------ tmaptools-1.2-1/tmaptools/R/pkg.R | 160 +-- tmaptools-1.2-1/tmaptools/R/projection_units.R | 138 +-- tmaptools-1.2-1/tmaptools/R/read_GPX.R | 72 - tmaptools-1.2-1/tmaptools/R/read_osm.R | 296 +++--- tmaptools-1.2-1/tmaptools/R/read_shape.R | 152 +-- tmaptools-1.2-1/tmaptools/R/sample_dots.R | 429 +++++---- tmaptools-1.2-1/tmaptools/R/sbind.R | 134 +-- tmaptools-1.2-1/tmaptools/R/set_projection.R | 378 ++++---- tmaptools-1.2-1/tmaptools/R/simplify_shape.R | 99 +- tmaptools-1.2-1/tmaptools/R/smooth_map.R | 816 +++++++++---------- tmaptools-1.2-1/tmaptools/R/smooth_raster_cover.R | 184 ++-- tmaptools-1.2-1/tmaptools/R/split_shape.R | 32 tmaptools-1.2-1/tmaptools/R/to_raster.R | 348 ++++---- tmaptools-1.2-1/tmaptools/R/xxx_raster.R | 364 ++++---- tmaptools-1.2-1/tmaptools/R/xxx_scales.R | 470 +++++----- tmaptools-1.2-1/tmaptools/man/aggregate_map.Rd | 185 ++-- tmaptools-1.2-1/tmaptools/man/append_data.Rd | 149 +-- tmaptools-1.2-1/tmaptools/man/approx_areas.Rd | 159 +-- tmaptools-1.2-1/tmaptools/man/approx_distances.Rd | 111 +- tmaptools-1.2-1/tmaptools/man/bb.Rd | 183 ++-- tmaptools-1.2-1/tmaptools/man/bb_sp.Rd | 95 +- tmaptools-1.2-1/tmaptools/man/calc_densities.Rd | 95 +- tmaptools-1.2-1/tmaptools/man/crop_shape.Rd | 91 +- tmaptools-1.2-1/tmaptools/man/double_line.Rd | 115 +- tmaptools-1.2-1/tmaptools/man/geocode_OSM.Rd | 131 +-- tmaptools-1.2-1/tmaptools/man/get_IDs.Rd | 45 - tmaptools-1.2-1/tmaptools/man/get_asp_ratio.Rd | 87 +- tmaptools-1.2-1/tmaptools/man/get_brewer_pal.Rd | 93 +- tmaptools-1.2-1/tmaptools/man/get_proj4.Rd | 91 +- tmaptools-1.2-1/tmaptools/man/is_projected.Rd | 35 tmaptools-1.2-1/tmaptools/man/map_coloring.Rd | 99 +- tmaptools-1.2-1/tmaptools/man/palette_explorer.Rd | 49 - tmaptools-1.2-1/tmaptools/man/pipe.Rd | 59 - tmaptools-1.2-1/tmaptools/man/points_to_raster.Rd | 117 +- tmaptools-1.2-1/tmaptools/man/poly_to_raster.Rd | 103 +- tmaptools-1.2-1/tmaptools/man/projection_units.Rd | 87 +- tmaptools-1.2-1/tmaptools/man/read_GPX.Rd | 109 +- tmaptools-1.2-1/tmaptools/man/read_osm.Rd | 193 ++-- tmaptools-1.2-1/tmaptools/man/read_shape.Rd | 57 - tmaptools-1.2-1/tmaptools/man/rev_geocode_OSM.Rd | 107 +- tmaptools-1.2-1/tmaptools/man/sample_dots.Rd | 127 +- tmaptools-1.2-1/tmaptools/man/sbind.Rd | 45 - tmaptools-1.2-1/tmaptools/man/set_projection.Rd | 83 - tmaptools-1.2-1/tmaptools/man/simplify_shape.Rd | 105 +- tmaptools-1.2-1/tmaptools/man/smooth_map.Rd | 357 ++++---- tmaptools-1.2-1/tmaptools/man/smooth_raster_cover.Rd | 53 - tmaptools-1.2-1/tmaptools/man/tmaptools-package.Rd | 172 ++-- tmaptools-1.2-1/tmaptools/man/write_shape.Rd | 39 tmaptools-1.2/tmaptools/tests |only 72 files changed, 6388 insertions(+), 6368 deletions(-)
Title: Inventory Models
Description: Determination of the optimal policy in inventory problems from a game-theoretic perspective.
Author: Alejandro Saavedra Nieves
Maintainer: Alejandro Saavedra Nieves <alejandro.saavedra.nieves@gmail.com>
Diff between Inventorymodel versions 1.0.3 dated 2017-04-17 and 1.0.4 dated 2017-05-11
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/EPQ.R | 4 +++- R/EPQcoo.R | 3 ++- R/inventorygames.R | 4 ++-- R/inventorymodelfunction.R | 12 ++++++------ man/EPQ.Rd | 6 +++--- man/EPQcoo.Rd | 6 +++--- man/Inventorymodel-package.Rd | 20 ++++++++++++-------- man/inventorygames.Rd | 4 ++-- man/inventorymodelfunction.Rd | 5 +---- 11 files changed, 48 insertions(+), 44 deletions(-)
More information about Inventorymodel at CRAN
Permanent link
More information about breathtestcore at CRAN
Permanent link
Title: Estimating Long Memory Parameter using Wavelet
Description: Estimation of the long memory parameter using wavelets. Other estimation techniques like
GPH (Geweke and Porter-Hudak,1983, <DOI:10.1111/j.1467-9892.1983.tb00371.x>)
and Semiparametric methods(Robinson, P. M.,1995, <DOI:10.1214/aos/1176324317>) also have included.
Author: Sandipan Samanta and Dr. Ranjit Kumar Paul
Maintainer: Dr. Ranjit Kumar Paul <ranjitstat@gmail.com>
Diff between WaveLetLongMemory versions 0.1.0 dated 2016-12-12 and 0.1.1 dated 2017-05-11
WaveLetLongMemory-0.1.0/WaveLetLongMemory/R/WaveletLongMemory.R |only WaveLetLongMemory-0.1.0/WaveLetLongMemory/man/WaveletLongMemory.Rd |only WaveLetLongMemory-0.1.1/WaveLetLongMemory/DESCRIPTION | 6 +++--- WaveLetLongMemory-0.1.1/WaveLetLongMemory/MD5 | 6 +++--- WaveLetLongMemory-0.1.1/WaveLetLongMemory/R/WaveLetLongMemory.R |only WaveLetLongMemory-0.1.1/WaveLetLongMemory/man/WaveLetLongMemory.Rd |only 6 files changed, 6 insertions(+), 6 deletions(-)
More information about WaveLetLongMemory at CRAN
Permanent link
Title: Adaptive Multivariate Integration over Hypercubes
Description: R wrapper around the cubature C library of
Steven G. Johnson for adaptive multivariate integration over hypercubes.
This version provides both hcubature and pcubature routines in addition
to a vector interface that results in substantial speed gains.
Author: Balasubramanian Narasimhan [aut, cre],
Steven G. Johnson [aut]
Maintainer: Balasubramanian Narasimhan <naras@stat.stanford.edu>
Diff between cubature versions 1.3-6 dated 2016-12-12 and 1.3-8 dated 2017-05-11
cubature-1.3-6/cubature/src/rcubature.c |only cubature-1.3-8/cubature/ChangeLog | 4 cubature-1.3-8/cubature/DESCRIPTION | 10 cubature-1.3-8/cubature/MD5 | 20 cubature-1.3-8/cubature/build/vignette.rds |binary cubature-1.3-8/cubature/inst/doc/cubature.R | 70 - cubature-1.3-8/cubature/inst/doc/cubature.Rmd | 74 - cubature-1.3-8/cubature/inst/doc/cubature.html | 1107 +++++++++++++----------- cubature-1.3-8/cubature/man/cubature-package.Rd | 9 cubature-1.3-8/cubature/man/hcubature.Rd | 10 cubature-1.3-8/cubature/src/cubature_init.c |only cubature-1.3-8/cubature/vignettes/cubature.Rmd | 74 - 12 files changed, 789 insertions(+), 589 deletions(-)
Title: Plant Root System Architecture Analysis Using DART and RSML
Files
Description: Analysis of complex plant root system architectures (RSA) using the output files created by Data Analysis of Root Tracings (DART), an open-access software dedicated to the study of plant root architecture and development across time series (Le Bot et al (2010) "DART: a software to analyse root system architecture and development from captured images", Plant and Soil, <DOI:10.1007/s11104-009-0005-2>), and RSA data encoded with the Root System Markup Language (RSML) (Lobet et al (2015) "Root System Markup Language: toward a unified root architecture description language", Plant Physiology, <DOI:10.1104/pp.114.253625>). More information can be found in Delory et al (2016) "archiDART: an R package for the automated computation of plant root architectural traits", Plant and Soil, <DOI:10.1007/s11104-015-2673-4>.
Author: Benjamin M Delory, Caroline Baudson, Yves Brostaux, Guillaume Lobet, Patrick du Jardin, Loic Pages, Pierre Delaplace
Maintainer: Benjamin M Delory <Benjamin.Delory@leuphana.de>
Diff between archiDART versions 1.4 dated 2016-03-07 and 2.0 dated 2017-05-11
archiDART-1.4/archiDART/R/xnodes.R |only archiDART-1.4/archiDART/R/ynodes.R |only archiDART-1.4/archiDART/data |only archiDART-1.4/archiDART/man/ch7lie.Rd |only archiDART-1.4/archiDART/man/ch7rac.Rd |only archiDART-1.4/archiDART/man/ch7tps.Rd |only archiDART-2.0/archiDART/DESCRIPTION | 10 archiDART-2.0/archiDART/MD5 | 42 +- archiDART-2.0/archiDART/NAMESPACE | 5 archiDART-2.0/archiDART/R/NotExport.R |only archiDART-2.0/archiDART/R/archidraw.R | 202 +++++++++-- archiDART-2.0/archiDART/R/archigrow.R | 517 ++++++++++++++++++++++++------ archiDART-2.0/archiDART/R/architect.R | 136 ++----- archiDART-2.0/archiDART/R/latdist.R | 58 +-- archiDART-2.0/archiDART/R/rsmlToDART.R | 479 +++++++++++++++++++++++---- archiDART-2.0/archiDART/R/trajectory.R | 480 +++++++++++++++++---------- archiDART-2.0/archiDART/inst |only archiDART-2.0/archiDART/man/archidraw.Rd | 114 +++--- archiDART-2.0/archiDART/man/archigrow.Rd | 137 +++++-- archiDART-2.0/archiDART/man/architect.Rd | 77 +--- archiDART-2.0/archiDART/man/latdist.Rd | 97 +++-- archiDART-2.0/archiDART/man/trajectory.Rd | 122 ++++--- 22 files changed, 1680 insertions(+), 796 deletions(-)
Title: The R Version of WebGestalt
Description: The web version WebGestalt <http://www.webgestalt.org> supports 12 organisms, 324 gene identifiers and 150,937 function categories. Users can upload the data and functional categories with their own gene identifiers. In addition to the Over-Representation Analysis, WebGestalt also supports Gene Set Enrichment Analysis. The user-friendly output interface allow interactive and efficient exploration of enrichment results. The WebGestaltR package not only supports all above functions but also can be integrated into other pipeline or simultaneous analyze multiple gene lists.
Author: Jing Wang <jingwang.uestc@gmail.com>
Maintainer: Jing Wang <jingwang.uestc@gmail.com>
Diff between WebGestaltR versions 0.1.0 dated 2017-05-02 and 0.1.1 dated 2017-05-11
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/WebGestaltR.R | 12 ++++++------ inst/doc/WebGestaltR.pdf |binary 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Test Analysis Modules
Description: Includes marginal maximum likelihood estimation of uni- and
multidimensional item response models (Rasch, 2PL, 3PL,
Generalized Partial Credit, Multi Facets,
Nominal Item Response, Structured Latent Class Analysis,
Mixture Distribution IRT Models, Located Latent Class Models)
and joint maximum likelihood estimation for models
from the Rasch family.
Latent regression models and plausible value imputation are
also supported.
Author: Alexander Robitzsch [aut, cre], Thomas Kiefer [aut], Margaret Wu [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between TAM versions 2.0-37 dated 2017-04-12 and 2.1-43 dated 2017-05-11
TAM-2.0-37/TAM/R/Mstep_slope.v2.R |only TAM-2.0-37/TAM/R/TAM.ic.R |only TAM-2.0-37/TAM/R/acceleration_algorithm.R |only TAM-2.0-37/TAM/R/create.deltaDesign.R |only TAM-2.0-37/TAM/R/latreg.mstep.regression.R |only TAM-2.0-37/TAM/R/latreg_TAM.ic.R |only TAM-2.0-37/TAM/R/mfr.dataprep.R |only TAM-2.0-37/TAM/R/mstep.regression.R |only TAM-2.0-37/TAM/R/rbind.twomatrices.R |only TAM-2.0-37/TAM/R/tam.calc.counts.R |only TAM-2.0-37/TAM/R/tam.fa.aux.R |only TAM-2.0-37/TAM/R/tam.jml.wle.R |only TAM-2.0-37/TAM/R/tam.jml.xsi.R |only TAM-2.0-37/TAM/R/tam.jml.xsi2.R |only TAM-2.0-37/TAM/R/tam.mml.3pl.algorithm.R |only TAM-2.0-37/TAM/R/tam.mml.3pl.est.guessing.R |only TAM-2.0-37/TAM/R/tam.mml.3pl.est.intercepts.R |only TAM-2.0-37/TAM/R/tam.mml.3pl.est.slopes.R |only TAM-2.0-37/TAM/R/tam.mml.3pl.preproc.R |only TAM-2.0-37/TAM/R/tam_mml_3pl_difference_quotient.R |only TAM-2.1-43/TAM/DESCRIPTION | 8 TAM-2.1-43/TAM/MD5 | 151 - TAM-2.1-43/TAM/NAMESPACE | 14 TAM-2.1-43/TAM/R/IRT.informationCurve.R | 66 TAM-2.1-43/TAM/R/IRT.linearCFA.R | 149 - TAM-2.1-43/TAM/R/TAM-internal_helper.R | 20 TAM-2.1-43/TAM/R/WLErel.R | 18 TAM-2.1-43/TAM/R/add.colnames.resp.R | 7 TAM-2.1-43/TAM/R/designMatrices.mfr.R | 2 TAM-2.1-43/TAM/R/designMatrices.mfr_aux.R | 33 TAM-2.1-43/TAM/R/dmvnorm_TAM.R | 1 TAM-2.1-43/TAM/R/extend.label.group.R | 31 TAM-2.1-43/TAM/R/summary.tam.jml.R | 5 TAM-2.1-43/TAM/R/tam.ctt3.R | 39 TAM-2.1-43/TAM/R/tam.fa.R | 90 TAM-2.1-43/TAM/R/tam.jml.R | 16 TAM-2.1-43/TAM/R/tam.latreg.R | 327 --- TAM-2.1-43/TAM/R/tam.mml.2pl.R | 720 +------ TAM-2.1-43/TAM/R/tam.mml.3pl.R | 1028 +++------- TAM-2.1-43/TAM/R/tam.mml.R | 678 +----- TAM-2.1-43/TAM/R/tam.mml.mfr.R | 624 +----- TAM-2.1-43/TAM/R/tam_acceleration_algorithm.R |only TAM-2.1-43/TAM/R/tam_acceleration_inits.R |only TAM-2.1-43/TAM/R/tam_acceleration_inits_create_list.R |only TAM-2.1-43/TAM/R/tam_aggregate.R |only TAM-2.1-43/TAM/R/tam_args_CALL_search.R |only TAM-2.1-43/TAM/R/tam_args_replace_value.R |only TAM-2.1-43/TAM/R/tam_assign_list_elements.R |only TAM-2.1-43/TAM/R/tam_calc_counts.R |only TAM-2.1-43/TAM/R/tam_deviance_history_init.R |only TAM-2.1-43/TAM/R/tam_difference_quotient.R |only TAM-2.1-43/TAM/R/tam_dtnorm.R | 4 TAM-2.1-43/TAM/R/tam_fa_reliability_nonlinearSEM.R |only TAM-2.1-43/TAM/R/tam_jml_version1.R | 35 TAM-2.1-43/TAM/R/tam_jml_version1_calc_xsi.R |only TAM-2.1-43/TAM/R/tam_jml_version2.R | 35 TAM-2.1-43/TAM/R/tam_jml_version2_calc_xsi.R |only TAM-2.1-43/TAM/R/tam_jml_wle.R |only TAM-2.1-43/TAM/R/tam_latreg_ic.R |only TAM-2.1-43/TAM/R/tam_matrix2.R |only TAM-2.1-43/TAM/R/tam_mml_2pl_mstep_slope.R |only TAM-2.1-43/TAM/R/tam_mml_2pl_sufficient_statistics_item_slope.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_computeB.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_compute_Fdes.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_create_E.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_create_notA.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_deviance.R | 16 TAM-2.1-43/TAM/R/tam_mml_3pl_ic.R | 42 TAM-2.1-43/TAM/R/tam_mml_3pl_ic_compute_criteria.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_mstep_item_guessing.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_mstep_item_intercepts.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_mstep_item_slopes.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_mstep_item_slopes_gammaslope_center.R |only TAM-2.1-43/TAM/R/tam_mml_3pl_mstep_regression.R | 24 TAM-2.1-43/TAM/R/tam_mml_3pl_skillspace.R | 29 TAM-2.1-43/TAM/R/tam_mml_3pl_stud_prior_discrete.R |only TAM-2.1-43/TAM/R/tam_mml_calc_prob.R | 29 TAM-2.1-43/TAM/R/tam_mml_compute_deviance.R |only TAM-2.1-43/TAM/R/tam_mml_control_list_define.R |only TAM-2.1-43/TAM/R/tam_mml_create_nodes.R |only TAM-2.1-43/TAM/R/tam_mml_ic.R |only TAM-2.1-43/TAM/R/tam_mml_mfr_dataprep.R |only TAM-2.1-43/TAM/R/tam_mml_mstep_intercept.R |only TAM-2.1-43/TAM/R/tam_mml_mstep_regression.R |only TAM-2.1-43/TAM/R/tam_mml_person_EAP.R |only TAM-2.1-43/TAM/R/tam_mml_person_EAP_rel.R |only TAM-2.1-43/TAM/R/tam_mml_person_SD_EAP.R |only TAM-2.1-43/TAM/R/tam_mml_person_maxscore.R |only TAM-2.1-43/TAM/R/tam_mml_person_posterior.R |only TAM-2.1-43/TAM/R/tam_mml_progress_em.R |only TAM-2.1-43/TAM/R/tam_mml_progress_em0.R |only TAM-2.1-43/TAM/R/tam_mml_progress_proc_nodes.R |only TAM-2.1-43/TAM/R/tam_mml_se_AXsi.R |only TAM-2.1-43/TAM/R/tam_mml_update_stochastic_nodes.R |only TAM-2.1-43/TAM/R/tam_mml_warning_message_multiple_group_models.R |only TAM-2.1-43/TAM/R/tam_outer.R |only TAM-2.1-43/TAM/R/tam_parameter_change.R |only TAM-2.1-43/TAM/R/tam_rbind_twomatrices.R |only TAM-2.1-43/TAM/R/tam_theta_sq.R |only TAM-2.1-43/TAM/R/tam_trim_increment.R |only TAM-2.1-43/TAM/R/tamaanify.tam.mml.3pl.deltadesign.R | 23 TAM-2.1-43/TAM/R/tamaanify_tam_mml_3pl_create_delta_design.R |only TAM-2.1-43/TAM/R/weighted_curtosis.R |only TAM-2.1-43/TAM/R/weighted_mean.R | 2 TAM-2.1-43/TAM/R/weighted_skewness.R | 12 TAM-2.1-43/TAM/inst/NEWS | 35 TAM-2.1-43/TAM/man/IRT.drawPV.Rd | 2 TAM-2.1-43/TAM/man/TAM-utilities.Rd | 48 TAM-2.1-43/TAM/man/tam.fa.Rd | 5 TAM-2.1-43/TAM/man/tam.jml.Rd | 9 TAM-2.1-43/TAM/man/tam.latreg.Rd | 9 TAM-2.1-43/TAM/man/tam.mml.3pl.Rd | 5 TAM-2.1-43/TAM/man/tam.mml.Rd | 22 113 files changed, 1573 insertions(+), 2840 deletions(-)
Title: Regularized and Sparse Generalized Canonical Correlation
Analysis for Multiblock Data
Description: Multiblock data analysis concerns the analysis of several sets of variables (blocks) observed on the same group of individuals. The main aims of the RGCCA package are: (i) to study the relationships between blocks and (ii) to identify subsets of variables of each block which are active in their relationships with the other blocks.
Author: Arthur Tenenhaus and Vincent Guillemot
Maintainer: Arthur Tenenhaus <arthur.tenenhaus@centralesupelec.fr>
Diff between RGCCA versions 2.1.1 dated 2017-04-30 and 2.1.2 dated 2017-05-11
RGCCA-2.1.1/RGCCA/vignettes/figures |only RGCCA-2.1.2/RGCCA/DESCRIPTION | 8 ++++---- RGCCA-2.1.2/RGCCA/MD5 | 20 ++++++++++---------- RGCCA-2.1.2/RGCCA/inst/doc/vignette_RGCCA.Rmd | 1 - RGCCA-2.1.2/RGCCA/inst/doc/vignette_RGCCA.pdf |binary RGCCA-2.1.2/RGCCA/vignettes/Figures |only RGCCA-2.1.2/RGCCA/vignettes/vignette_RGCCA.Rmd | 1 - 7 files changed, 14 insertions(+), 16 deletions(-)
Title: Omics Data Integration Project
Description: Multivariate methods are well suited to large omics data sets where the number of variables (e.g. genes, proteins, metabolites) is much larger than the number of samples (patients, cells, mice). They have the appealing properties of reducing the dimension of the data by using instrumental variables (components), which are defined as combinations of all variables. Those components are then used to produce useful graphical outputs that enable better understanding of the relationships and correlation structures between the different data sets that are integrated. mixOmics offers a wide range of multivariate methods for the exploration and integration of biological datasets with a particular focus on variable selection. The package proposes several sparse multivariate models we have developed to identify the key variables that are highly correlated, and/or explain the biological outcome of interest. The data that can be analysed with mixOmics may come from high throughput sequencing technologies, such as omics data (transcriptomics, metabolomics, proteomics, metagenomics etc) but also beyond the realm of omics (e.g. spectral imaging). The methods implemented in mixOmics can also handle missing values without having to delete entire rows with missing data. A non exhaustive list of methods include variants of generalised Canonical Correlation Analysis, sparse Partial Least Squares and sparse Discriminant Analysis. Recently we implemented integrative methods to combine multiple data sets: N-integration with variants of Generalised Canonical Correlation Analysis and P-integration with variants of multi-group Partial Least Squares.
Author: Kim-Anh Le Cao, Florian Rohart, Ignacio Gonzalez, Sebastien Dejean with key contributors Benoit Gautier, Francois Bartolo
and contributions from Pierre Monget, Jeff Coquery, FangZou Yao, Benoit Liquet.
Maintainer: Kim-Anh Le Cao <kimanh.lecao@unimelb.edu.au>
Diff between mixOmics versions 6.1.2 dated 2017-02-27 and 6.1.3 dated 2017-05-11
mixOmics-6.1.2/mixOmics/R/tune.diablo.R |only mixOmics-6.1.3/mixOmics/DESCRIPTION | 12 +- mixOmics-6.1.3/mixOmics/MD5 | 112 ++++++++++---------- mixOmics-6.1.3/mixOmics/NAMESPACE | 3 mixOmics-6.1.3/mixOmics/NEWS | 24 ++++ mixOmics-6.1.3/mixOmics/R/LOGOCV.R | 15 +- mixOmics-6.1.3/mixOmics/R/MCVfold.R | 40 ------- mixOmics-6.1.3/mixOmics/R/background.predict.R |only mixOmics-6.1.3/mixOmics/R/circosPlot.R | 48 +++++--- mixOmics-6.1.3/mixOmics/R/get.confusion_matrix.R |only mixOmics-6.1.3/mixOmics/R/internal_graphicModule.R | 46 +++++++- mixOmics-6.1.3/mixOmics/R/perf.R | 13 +- mixOmics-6.1.3/mixOmics/R/perf.diablo.R | 33 +++++ mixOmics-6.1.3/mixOmics/R/perf.mint.splsda.R | 14 +- mixOmics-6.1.3/mixOmics/R/plotDiablo.R | 2 mixOmics-6.1.3/mixOmics/R/plotIndiv.R | 2 mixOmics-6.1.3/mixOmics/R/plotIndiv.pls.R | 17 ++- mixOmics-6.1.3/mixOmics/R/predict.mint.block.pls.R | 9 + mixOmics-6.1.3/mixOmics/R/print.methods.R | 8 - mixOmics-6.1.3/mixOmics/R/spca.R | 103 +++++++++--------- mixOmics-6.1.3/mixOmics/R/tune.block.splsda.R |only mixOmics-6.1.3/mixOmics/R/tune.mint.splsda.R | 5 mixOmics-6.1.3/mixOmics/R/tune.splsda.R | 8 - mixOmics-6.1.3/mixOmics/R/tune.splslevel.R | 4 mixOmics-6.1.3/mixOmics/man/auroc.Rd | 8 + mixOmics-6.1.3/mixOmics/man/background.predict.Rd |only mixOmics-6.1.3/mixOmics/man/block.pls.Rd | 6 - mixOmics-6.1.3/mixOmics/man/block.plsda.Rd | 12 +- mixOmics-6.1.3/mixOmics/man/block.spls.Rd | 10 + mixOmics-6.1.3/mixOmics/man/block.splsda.Rd | 19 ++- mixOmics-6.1.3/mixOmics/man/cim.Rd | 4 mixOmics-6.1.3/mixOmics/man/cimDiablo.Rd | 6 - mixOmics-6.1.3/mixOmics/man/circosPlot.Rd | 17 ++- mixOmics-6.1.3/mixOmics/man/get.confusion_matrix.Rd |only mixOmics-6.1.3/mixOmics/man/mint.block.pls.Rd | 8 - mixOmics-6.1.3/mixOmics/man/mint.block.plsda.Rd | 16 +- mixOmics-6.1.3/mixOmics/man/mint.block.spls.Rd | 13 +- mixOmics-6.1.3/mixOmics/man/mint.block.splsda.Rd | 19 ++- mixOmics-6.1.3/mixOmics/man/mint.pca.Rd | 7 - mixOmics-6.1.3/mixOmics/man/mint.pls.Rd | 7 - mixOmics-6.1.3/mixOmics/man/mint.plsda.Rd | 11 + mixOmics-6.1.3/mixOmics/man/mint.spls.Rd | 14 +- mixOmics-6.1.3/mixOmics/man/mint.splsda.Rd | 14 +- mixOmics-6.1.3/mixOmics/man/mixOmics.Rd | 24 +++- mixOmics-6.1.3/mixOmics/man/network.Rd | 12 +- mixOmics-6.1.3/mixOmics/man/perf.Rd | 18 +-- mixOmics-6.1.3/mixOmics/man/plotDiablo.Rd | 3 mixOmics-6.1.3/mixOmics/man/plotIndiv.Rd | 53 +++++++-- mixOmics-6.1.3/mixOmics/man/pls.Rd | 18 +-- mixOmics-6.1.3/mixOmics/man/predict.Rd | 25 ++-- mixOmics-6.1.3/mixOmics/man/spca.Rd | 6 - mixOmics-6.1.3/mixOmics/man/spls.Rd | 21 ++- mixOmics-6.1.3/mixOmics/man/stemcells.Rd | 2 mixOmics-6.1.3/mixOmics/man/tune.Rd | 33 ++++- mixOmics-6.1.3/mixOmics/man/tune.block.splsda.Rd | 25 +++- mixOmics-6.1.3/mixOmics/man/tune.mint.splsda.Rd | 10 + mixOmics-6.1.3/mixOmics/man/tune.multilevel.Rd | 23 ++-- mixOmics-6.1.3/mixOmics/man/tune.splsda.Rd | 28 +++-- mixOmics-6.1.3/mixOmics/man/wrapper.rgcca.Rd | 2 mixOmics-6.1.3/mixOmics/man/wrapper.sgcca.Rd | 8 + 60 files changed, 652 insertions(+), 368 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package 'pan', 'jomo' is a package for multilevel joint modelling multiple imputation.
Novel aspects of 'jomo' are the possibility of handling binary and categorical data through latent normal variables, the option to use cluster-specific covariance matrices and to impute compatibly with the substantive model.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <matteo.quartagno@lshtm.ac.uk>
Diff between jomo versions 2.3-1 dated 2016-11-03 and 2.4-0 dated 2017-05-11
jomo-2.3-1/jomo/src/jomo1con.c |only jomo-2.3-1/jomo/src/jomo1mix.c |only jomo-2.3-1/jomo/src/jomo1rancon.c |only jomo-2.3-1/jomo/src/jomo1ranconhr.c |only jomo-2.3-1/jomo/src/jomo1ranmix.c |only jomo-2.3-1/jomo/src/jomo1ranmixhr.c |only jomo-2.3-1/jomo/src/jomo2com.c |only jomo-2.3-1/jomo/src/jomo2hr.c |only jomo-2.4-0/jomo/DESCRIPTION | 12 +-- jomo-2.4-0/jomo/MD5 | 101 ++++++++++++++++++---------- jomo-2.4-0/jomo/NAMESPACE | 5 - jomo-2.4-0/jomo/R/jomo.glm.MCMCchain.R |only jomo-2.4-0/jomo/R/jomo.glm.R |only jomo-2.4-0/jomo/R/jomo.glmer.MCMCchain.R |only jomo-2.4-0/jomo/R/jomo.glmer.R |only jomo-2.4-0/jomo/R/jomo.lm.MCMCchain.R | 9 +- jomo-2.4-0/jomo/R/jomo.lm.R | 6 + jomo-2.4-0/jomo/R/jomo.lmer.MCMCchain.R |only jomo-2.4-0/jomo/R/jomo.lmer.R |only jomo-2.4-0/jomo/R/jomo1cat.R | 4 - jomo-2.4-0/jomo/R/jomo1con.R | 4 - jomo-2.4-0/jomo/R/jomo1mix.R | 4 - jomo-2.4-0/jomo/R/jomo1rancat.R | 4 - jomo-2.4-0/jomo/R/jomo1rancathr.MCMCchain.R | 2 jomo-2.4-0/jomo/R/jomo1rancathr.R | 6 - jomo-2.4-0/jomo/R/jomo1rancon.R | 4 - jomo-2.4-0/jomo/R/jomo1ranconhr.R | 4 - jomo-2.4-0/jomo/R/jomo1ranmix.R | 4 - jomo-2.4-0/jomo/R/jomo1ranmixhr.R | 4 - jomo-2.4-0/jomo/R/jomo2com.R | 4 - jomo-2.4-0/jomo/R/jomo2hr.R | 4 - jomo-2.4-0/jomo/inst/CITATION | 2 jomo-2.4-0/jomo/man/jomo.glm.MCMCchain.Rd |only jomo-2.4-0/jomo/man/jomo.glm.Rd |only jomo-2.4-0/jomo/man/jomo.glmer.MCMCchain.Rd |only jomo-2.4-0/jomo/man/jomo.glmer.Rd |only jomo-2.4-0/jomo/man/jomo.lm.MCMCchain.Rd | 23 ++++++ jomo-2.4-0/jomo/man/jomo.lm.Rd | 15 +++- jomo-2.4-0/jomo/man/jomo.lmer.MCMCchain.Rd |only jomo-2.4-0/jomo/man/jomo.lmer.Rd |only jomo-2.4-0/jomo/man/jomo2com.Rd | 2 jomo-2.4-0/jomo/src/MCMCjomo1glmerbin.c |only jomo-2.4-0/jomo/src/MCMCjomo1glmerbinhr.c |only jomo-2.4-0/jomo/src/MCMCjomo1lmer.c |only jomo-2.4-0/jomo/src/MCMCjomo1lmerhr.c |only jomo-2.4-0/jomo/src/MCMCjomo1ranconhr.c | 2 jomo-2.4-0/jomo/src/MCMCjomo1ranmixhr.c | 2 jomo-2.4-0/jomo/src/MCMCjomo2glmerbin.c |only jomo-2.4-0/jomo/src/MCMCjomo2glmerbinhr.c |only jomo-2.4-0/jomo/src/MCMCjomo2hr.c | 2 jomo-2.4-0/jomo/src/MCMCjomo2lmer.c |only jomo-2.4-0/jomo/src/MCMCjomo2lmerhr.c |only jomo-2.4-0/jomo/src/MCMCjomoglm.c |only jomo-2.4-0/jomo/src/MCMCjomolm.c | 3 jomo-2.4-0/jomo/src/jomo1conC.c |only jomo-2.4-0/jomo/src/jomo1glmerbin.c |only jomo-2.4-0/jomo/src/jomo1glmerbinhr.c |only jomo-2.4-0/jomo/src/jomo1lmer.c |only jomo-2.4-0/jomo/src/jomo1lmerhr.c |only jomo-2.4-0/jomo/src/jomo1mixC.c |only jomo-2.4-0/jomo/src/jomo1ranconC.c |only jomo-2.4-0/jomo/src/jomo1ranconhrC.c |only jomo-2.4-0/jomo/src/jomo1ranmixC.c |only jomo-2.4-0/jomo/src/jomo1ranmixhrC.c |only jomo-2.4-0/jomo/src/jomo2comC.c |only jomo-2.4-0/jomo/src/jomo2glmerbin.c |only jomo-2.4-0/jomo/src/jomo2glmerbinhr.c |only jomo-2.4-0/jomo/src/jomo2hrC.c |only jomo-2.4-0/jomo/src/jomo2lmer.c |only jomo-2.4-0/jomo/src/jomo2lmerhr.c |only jomo-2.4-0/jomo/src/jomo_init.c |only jomo-2.4-0/jomo/src/jomoglm.c |only jomo-2.4-0/jomo/src/jomolm.c | 3 jomo-2.4-0/jomo/src/pdflib.c | 5 + jomo-2.4-0/jomo/src/pdflib.h | 1 75 files changed, 156 insertions(+), 85 deletions(-)
Title: Thematic Maps
Description: Thematic maps are geographical maps in which spatial data distributions are visualized. This package offers a flexible, layer-based, and easy to use approach to create thematic maps, such as choropleths and bubble maps.
Author: Martijn Tennekes [aut, cre],
Joel Gombin [ctb],
Sebastian Jeworutzki [ctb],
Kent Russell [ctb],
Richard Zijdeman [ctb]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap versions 1.8-1 dated 2017-01-29 and 1.10 dated 2017-05-11
tmap-1.10/tmap/DESCRIPTION | 14 tmap-1.10/tmap/MD5 | 270 +--- tmap-1.10/tmap/NAMESPACE | 251 +-- tmap-1.10/tmap/NEWS | 260 ++-- tmap-1.10/tmap/R/add_data_to_gps.R | 122 - tmap-1.10/tmap/R/animation_tmap.R | 76 - tmap-1.10/tmap/R/cat2pal.R | 147 +- tmap-1.10/tmap/R/cat2shape.R | 115 - tmap-1.10/tmap/R/cellplot.R | 24 tmap-1.10/tmap/R/facet_functions.R | 96 - tmap-1.10/tmap/R/get_sepia_col.R | 18 tmap-1.10/tmap/R/get_sp_coordinates.R | 94 - tmap-1.10/tmap/R/grid_shp.R | 86 - tmap-1.10/tmap/R/gridplot.R | 367 ++--- tmap-1.10/tmap/R/grob_mod.R | 36 tmap-1.10/tmap/R/is_num_string.R | 6 tmap-1.10/tmap/R/legend_hist.R | 308 ++-- tmap-1.10/tmap/R/legend_prepare.R | 224 +-- tmap-1.10/tmap/R/lines_midpoints.R | 72 - tmap-1.10/tmap/R/meta_plot.R | 1250 +++++++++---------- tmap-1.10/tmap/R/meta_plot_items.R | 1665 ++++++++++++-------------- tmap-1.10/tmap/R/num2pal.R | 385 +++--- tmap-1.10/tmap/R/num2shape.R | 100 - tmap-1.10/tmap/R/onLoad.R | 40 tmap-1.10/tmap/R/one_line_per_lines.R | 40 tmap-1.10/tmap/R/pkg.R | 448 +++--- tmap-1.10/tmap/R/plot_all.R | 256 +-- tmap-1.10/tmap/R/plot_map.R | 582 ++++----- tmap-1.10/tmap/R/plot_misc_functions.R | 1207 +++++++++--------- tmap-1.10/tmap/R/pointLabelGrid.R | 354 ++--- tmap-1.10/tmap/R/preprocess_facet_layout.R | 174 +- tmap-1.10/tmap/R/preprocess_gt.R | 288 ++-- tmap-1.10/tmap/R/preprocess_shapes.R | 494 +++---- tmap-1.10/tmap/R/print_tmap.R | 825 ++++++------ tmap-1.10/tmap/R/process_color.R | 244 +-- tmap-1.10/tmap/R/process_color_aes.R | 360 ++--- tmap-1.10/tmap/R/process_data.R | 136 +- tmap-1.10/tmap/R/process_facet_layout.R | 272 ++-- tmap-1.10/tmap/R/process_fill.R | 253 ++- tmap-1.10/tmap/R/process_gps.R | 326 ++--- tmap-1.10/tmap/R/process_layers.R | 340 ++--- tmap-1.10/tmap/R/process_legend_format.R | 97 - tmap-1.10/tmap/R/process_lines.R | 362 ++--- tmap-1.10/tmap/R/process_meta.R | 730 +++++------ tmap-1.10/tmap/R/process_other_aes.R | 356 ++--- tmap-1.10/tmap/R/process_raster.R | 240 +-- tmap-1.10/tmap/R/process_shapes.R | 565 ++++---- tmap-1.10/tmap/R/process_symbols.R | 797 ++++++------ tmap-1.10/tmap/R/process_text.R | 650 +++++----- tmap-1.10/tmap/R/process_tm.R | 689 +++++----- tmap-1.10/tmap/R/process_varnames.R | 50 tmap-1.10/tmap/R/qtm.R | 518 ++++---- tmap-1.10/tmap/R/save_tmap.R | 374 ++--- tmap-1.10/tmap/R/split_g.R | 78 - tmap-1.10/tmap/R/split_tm.R | 76 - tmap-1.10/tmap/R/style_catalogue.R | 232 +-- tmap-1.10/tmap/R/symbol_functions.R | 108 - tmap-1.10/tmap/R/text_functions.R | 212 +-- tmap-1.10/tmap/R/theme_ps.R | 90 - tmap-1.10/tmap/R/tm_add_legend.R | 82 - tmap-1.10/tmap/R/tm_layers.R | 1356 ++++++++++----------- tmap-1.10/tmap/R/tm_layout.R | 876 ++++++------- tmap-1.10/tmap/R/tm_misc_elements.R | 633 ++++----- tmap-1.10/tmap/R/tm_shape.R | 92 - tmap-1.10/tmap/R/tm_view.R | 82 - tmap-1.10/tmap/R/tmap_arrange.R | 172 +- tmap-1.10/tmap/R/tmap_icons.R | 376 ++--- tmap-1.10/tmap/R/tmap_mode.R | 197 ++- tmap-1.10/tmap/R/view_tmap.R | 1215 ++++++++++-------- tmap-1.10/tmap/R/xxx_raster.R | 360 ++--- tmap-1.10/tmap/R/xxx_scales.R | 470 +++---- tmap-1.10/tmap/build/check_for_non_ASCII.R | 54 tmap-1.10/tmap/build/create_NLD.R | 166 +- tmap-1.10/tmap/build/create_NLD_dasy.R | 64 tmap-1.10/tmap/build/create_europe_world.R | 680 +++++----- tmap-1.10/tmap/build/create_land.R | 122 - tmap-1.10/tmap/build/create_metro.R | 358 ++--- tmap-1.10/tmap/build/create_rivers.R | 62 tmap-1.10/tmap/build/roxygen.r | 28 tmap-1.10/tmap/build/vignette.rds |binary tmap-1.10/tmap/data/datalist | 14 tmap-1.10/tmap/inst/doc/tmap-modes.R | 74 - tmap-1.10/tmap/inst/doc/tmap-modes.Rmd | 150 +- tmap-1.10/tmap/inst/doc/tmap-modes.html | 230 +-- tmap-1.10/tmap/inst/doc/tmap-nutshell.R | 332 ++--- tmap-1.10/tmap/inst/doc/tmap-nutshell.Rmd | 748 +++++------ tmap-1.10/tmap/inst/doc/tmap-nutshell.html | 1005 +++++++-------- tmap-1.10/tmap/man/Shapes.Rd | 85 - tmap-1.10/tmap/man/animation_tmap.Rd | 97 - tmap-1.10/tmap/man/axis_labels.Rd | 59 tmap-1.10/tmap/man/land.Rd | 43 tmap-1.10/tmap/man/last_map.Rd | 35 tmap-1.10/tmap/man/metro.Rd | 37 tmap-1.10/tmap/man/plus-.tmap.Rd | 39 tmap-1.10/tmap/man/print.tmap.Rd | 73 - tmap-1.10/tmap/man/qtm.Rd | 213 +-- tmap-1.10/tmap/man/rivers.Rd | 31 tmap-1.10/tmap/man/save_tmap.Rd | 149 +- tmap-1.10/tmap/man/style_catalogue.Rd | 47 tmap-1.10/tmap/man/theme_ps.Rd | 43 tmap-1.10/tmap/man/tm_add_legend.Rd | 97 - tmap-1.10/tmap/man/tm_compass.Rd | 101 - tmap-1.10/tmap/man/tm_credits.Rd | 113 - tmap-1.10/tmap/man/tm_facets.Rd | 356 ++--- tmap-1.10/tmap/man/tm_grid.Rd | 77 - tmap-1.10/tmap/man/tm_iso.Rd | 61 tmap-1.10/tmap/man/tm_layout.Rd | 766 ++++++----- tmap-1.10/tmap/man/tm_lines.Rd | 245 +-- tmap-1.10/tmap/man/tm_logo.Rd | 93 - tmap-1.10/tmap/man/tm_polygons.Rd | 367 ++--- tmap-1.10/tmap/man/tm_raster.Rd | 265 ++-- tmap-1.10/tmap/man/tm_scale_bar.Rd | 93 - tmap-1.10/tmap/man/tm_shape.Rd | 213 +-- tmap-1.10/tmap/man/tm_symbols.Rd | 642 +++++----- tmap-1.10/tmap/man/tm_text.Rd | 361 ++--- tmap-1.10/tmap/man/tm_view.Rd | 160 +- tmap-1.10/tmap/man/tmap-element.Rd | 85 - tmap-1.10/tmap/man/tmap-package.Rd | 262 ++-- tmap-1.10/tmap/man/tmap_arrange.Rd | 79 - tmap-1.10/tmap/man/tmap_icons.Rd | 73 - tmap-1.10/tmap/man/tmap_leaflet.Rd | 119 - tmap-1.10/tmap/man/tmap_mode.Rd | 163 +- tmap-1.10/tmap/man/tmap_options.Rd |only tmap-1.10/tmap/man/tmap_style.Rd | 67 - tmap-1.10/tmap/vignettes/tmap-modes.Rmd | 150 +- tmap-1.10/tmap/vignettes/tmap-nutshell.Rmd | 748 +++++------ tmap-1.8-1/tmap/vignettes/tmap-nutshell_files |only 127 files changed, 18020 insertions(+), 17534 deletions(-)
Title: Latent Environmental & Genetic InTeraction (LEGIT) Model
Description: Constructs genotype x environment interaction (GxE) models where
G is a weighted sum of genetic variants (genetic score) and E is a weighted
sum of environments (environmental score) using the alternating optimization algorithm
by Jolicoeur-Martineau et al. (2017) <arXiv:1703.08111>. This approach has greatly
enhanced predictive power over traditional GxE models which include only a single
genetic variant and a single environmental exposure. Although this approach was
originally made for GxE modelling, it is flexible and does not require the use of
genetic and environmental variables. It can also handle more than 2 latent variables
(rather than just G and E) and 3-way interactions or more. The LEGIT model produces
highly interpretable results and is very parameter-efficient thus it can even be
used with small sample sizes (n < 250).
Author: Alexia Jolicoeur-Martineau <alexia.jolicoeur-martineau@mail.mcgill.ca>
Maintainer: Alexia Jolicoeur-Martineau <alexia.jolicoeur-martineau@mail.mcgill.ca>
Diff between LEGIT versions 1.0.4 dated 2017-04-17 and 1.1.0 dated 2017-05-11
DESCRIPTION | 8 MD5 | 32 - NAMESPACE | 7 R/LEGIT.R | 1329 ++++++++++++++++++++++++++++++++++++++++---- inst/doc/LEGIT.R | 20 inst/doc/LEGIT.Rmd | 74 ++ inst/doc/LEGIT.html | 249 +++++++- man/IMLEGIT.Rd | 6 man/IMLEGIT_cv.Rd | 4 man/LEGIT.Rd | 2 man/LEGIT_cv.Rd | 2 man/backward_step.Rd | 8 man/backward_step_IM.Rd |only man/bootstrap_var_select.Rd |only man/forward_step.Rd | 2 man/forward_step_IM.Rd |only man/stepwise_search.Rd | 16 man/stepwise_search_IM.Rd |only vignettes/LEGIT.Rmd | 74 ++ 19 files changed, 1666 insertions(+), 167 deletions(-)
Title: Efficient Jonckheere-Terpstra Test Statistics for Robust Machine
Learning and Genome-Wide Association Studies
Description: This 'Rcpp'-based package implements highly efficient functions for the calculation of the Jonckheere-Terpstra statistic. It can be used for a variety of applications, including feature selection in machine learning problems, or to conduct genome-wide association studies (GWAS) with multiple quantitative phenotypes. The code leverages 'OpenMP' directives for multi-core computing to reduce overall processing time.
Author: Jiaxing Lin, Alexander Sibley, Ivo Shterev, and Kouros Owzar
Maintainer: Jiaxing Lin <jiaxing.lin@duke.edu>
Diff between fastJT versions 1.0.2 dated 2017-02-20 and 1.0.3 dated 2017-05-11
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS | 4 ++++ R/fastJT.R | 6 ++++++ build/vignette.rds |binary inst/doc/fastJT.Rnw | 2 +- inst/doc/fastJT.pdf |binary man/fastJT-package.Rd | 4 ++-- vignettes/fastJT.Rnw | 2 +- 9 files changed, 26 insertions(+), 16 deletions(-)