Title: Functions for Elementary Bayesian Inference
Description: A set of R functions and data sets for the book Introduction to Bayesian Statistics, Bolstad, W.M. (2017), John Wiley & Sons ISBN 978-1-118-09156-2.
Author: James Curran [aut, cre]
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between Bolstad versions 0.2-36 dated 2018-01-24 and 0.2-37 dated 2018-02-23
DESCRIPTION | 8 - MD5 | 10 + R/Bolstad-package.R | 279 +++++++++++++++++++++++++++------------------------ R/bayes.lin.reg.r | 36 ++---- data/moisture.df.rda |only man/bayes.lin.reg.Rd | 7 - man/moisture.df.Rd |only 7 files changed, 177 insertions(+), 163 deletions(-)
Title: Functions for Planning and Managing Inventories in a Supply
Chain
Description: Implements different inventory models, the bullwhip effect and other supply chain performance variables. Marchena Marlene (2010) <arXiv:1009.3977>.
Author: Marlene Marchena
Maintainer: Marlene Marchena <marchenamarlene@gmail.com>
Diff between SCperf versions 1.0 dated 2012-02-05 and 1.1.0 dated 2018-02-23
SCperf-1.0/SCperf/man/SCperf.Rd |only SCperf-1.0/SCperf/man/SSL.Rd |only SCperf-1.0/SCperf/man/bullwhip.Rd |only SCperf-1.1.0/SCperf/DESCRIPTION | 24 +- SCperf-1.1.0/SCperf/MD5 | 39 ++-- SCperf-1.1.0/SCperf/NAMESPACE | 12 + SCperf-1.1.0/SCperf/R/EOQ.R | 81 +++++++-- SCperf-1.1.0/SCperf/R/EPQ.R | 81 +++++++-- SCperf-1.1.0/SCperf/R/Newsboy.R | 87 ++++++++-- SCperf-1.1.0/SCperf/R/ROP.R |only SCperf-1.1.0/SCperf/R/SCperf.R | 142 +++++++++++----- SCperf-1.1.0/SCperf/R/SS.R |only SCperf-1.1.0/SCperf/R/SSL.R | 109 +++++++++--- SCperf-1.1.0/SCperf/R/WW.R | 205 +++++++++++++++--------- SCperf-1.1.0/SCperf/R/bullwhip.R | 96 ++++++++--- SCperf-1.1.0/SCperf/R/pkgSCperf-deprecated.R |only SCperf-1.1.0/SCperf/README.md |only SCperf-1.1.0/SCperf/man/EOQ.Rd | 121 +++++++------- SCperf-1.1.0/SCperf/man/EPQ.Rd | 114 +++++++------ SCperf-1.1.0/SCperf/man/Newsboy.Rd | 141 ++++++++-------- SCperf-1.1.0/SCperf/man/ROP.Rd |only SCperf-1.1.0/SCperf/man/SCperf-deprecated.Rd |only SCperf-1.1.0/SCperf/man/SS.Rd |only SCperf-1.1.0/SCperf/man/SSL-deprecated.Rd |only SCperf-1.1.0/SCperf/man/WW.Rd | 136 +++++++-------- SCperf-1.1.0/SCperf/man/bullwhip-deprecated.Rd |only SCperf-1.1.0/SCperf/man/pkgSCperf-deprecated.Rd |only 27 files changed, 891 insertions(+), 497 deletions(-)
Title: Analysis of Stable Matchings
Description: Implements structural estimators to correct for
the sample selection bias from observed outcomes in matching
markets. This includes one-sided matching of agents into
groups as well as two-sided matching of students to schools.
The package also contains algorithms to find stable matchings
in the three most common matching problems: the stable roommates
problem, the college admissions problem, and the house
allocation problem.
Author: Thilo Klein [aut, cre],
Sven Giegerich [ctb]
Maintainer: Thilo Klein <thilo@klein.uk>
Diff between matchingMarkets versions 0.3-4 dated 2018-01-11 and 0.3-5 dated 2018-02-23
matchingMarkets-0.3-4/matchingMarkets/LICENSE |only matchingMarkets-0.3-5/matchingMarkets/DESCRIPTION | 17 ++- matchingMarkets-0.3-5/matchingMarkets/MD5 | 53 +++++++--- matchingMarkets-0.3-5/matchingMarkets/NAMESPACE | 3 matchingMarkets-0.3-5/matchingMarkets/NEWS.md | 9 + matchingMarkets-0.3-5/matchingMarkets/R/RcppExports.R | 4 matchingMarkets-0.3-5/matchingMarkets/R/hri2.R |only matchingMarkets-0.3-5/matchingMarkets/R/summary.hri2.R |only matchingMarkets-0.3-5/matchingMarkets/README.md | 8 - matchingMarkets-0.3-5/matchingMarkets/inst/CITATION | 2 matchingMarkets-0.3-5/matchingMarkets/inst/doc/matching.pdf |binary matchingMarkets-0.3-5/matchingMarkets/inst/include |only matchingMarkets-0.3-5/matchingMarkets/man/hri2.Rd |only matchingMarkets-0.3-5/matchingMarkets/man/matchingMarkets-package.Rd | 2 matchingMarkets-0.3-5/matchingMarkets/src/Makevars | 1 matchingMarkets-0.3-5/matchingMarkets/src/Makevars.win | 1 matchingMarkets-0.3-5/matchingMarkets/src/Options.cc |only matchingMarkets-0.3-5/matchingMarkets/src/RcppExports.cpp | 14 ++ matchingMarkets-0.3-5/matchingMarkets/src/System.cc |only matchingMarkets-0.3-5/matchingMarkets/src/kprmatcher.cc |only matchingMarkets-0.3-5/matchingMarkets/src/params.cc |only matchingMarkets-0.3-5/matchingMarkets/src/problem.cc |only matchingMarkets-0.3-5/matchingMarkets/src/rcp.cc |only matchingMarkets-0.3-5/matchingMarkets/src/rpmatcher.cc |only matchingMarkets-0.3-5/matchingMarkets/src/runMatch.cpp |only matchingMarkets-0.3-5/matchingMarkets/vignettes/matching.bib | 4 26 files changed, 92 insertions(+), 26 deletions(-)
More information about matchingMarkets at CRAN
Permanent link
Title: Graph Theory Analysis of Brain MRI Data
Description: A set of tools for performing graph theory analysis of brain MRI
data. It works with data from a Freesurfer analysis (cortical thickness,
volumes, local gyrification index, surface area), diffusion tensor
tractography data (e.g., from FSL) and resting-state fMRI data (e.g., from
DPABI). It contains a graphical user interface for graph visualization and
data exploration, along with several functions for generating useful
figures.
Author: Christopher G. Watson <cgwatson@bu.edu>
Maintainer: Christopher G. Watson <cgwatson@bu.edu>
Diff between brainGraph versions 2.0.0 dated 2018-02-05 and 2.0.2 dated 2018-02-23
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 21 +++++++++++++++++++++ R/create_mats.R | 17 +++++++++++++++-- R/mtpc.R | 2 +- 5 files changed, 45 insertions(+), 11 deletions(-)
Title: Assertive Programming for R Analysis Pipelines
Description: Provides functionality to assert conditions
that have to be met so that errors in data used in
analysis pipelines can fail quickly. Similar to
'stopifnot()' but more powerful, friendly, and easier
for use in pipelines.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between assertr versions 2.0.2.2 dated 2017-06-06 and 2.5 dated 2018-02-23
DESCRIPTION | 17 + LICENSE | 2 MD5 | 45 ++-- NAMESPACE | 1 NEWS | 15 + R/assertions.R | 109 +++-------- R/assertr.R | 25 +- R/deprecated_se.R |only R/errors.R | 102 +++++++--- R/predicates.R | 10 - R/row-redux.R | 19 -- R/utils.R | 10 - README.md | 28 ++ build/vignette.rds |binary inst/doc/assertr.Rmd | 41 +--- inst/doc/assertr.html | 350 +++++++++++++++++-------------------- man/assert.Rd | 11 - man/assert_rows.Rd | 6 man/assertr.Rd | 25 +- man/insist.Rd | 5 man/insist_rows.Rd | 6 man/success_and_error_functions.Rd | 14 + tests/testthat/test-assertions.R | 173 ------------------ vignettes/assertr.Rmd | 41 +--- 24 files changed, 437 insertions(+), 618 deletions(-)
Title: Tidy Data Validation Reports
Description: Tools for creating data validation pipelines and tidy reports. This
package offers a framework for exploring and validating data frame like
objects using 'dplyr' grammar of data manipulation.
Author: Evgeni Chasnovski [aut, cre]
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>
Diff between ruler versions 0.1.1 dated 2018-01-05 and 0.1.2 dated 2018-02-23
DESCRIPTION | 6 ++--- MD5 | 28 +++++++++++++------------- NAMESPACE | 2 + NEWS.md | 4 +++ R/expose.R | 10 ++++----- R/packs.R | 42 ++++++++++++++++++++++++++++++++++++++++ R/ruler-package.R | 2 - R/rules.R | 2 - R/spread-groups.R | 8 +++---- inst/doc/design-and-format.html | 4 +-- inst/doc/rule-packs.html | 19 +++++++++--------- inst/doc/validation.html | 4 +-- man/cell-pack.Rd | 21 ++++++++++++++++++++ man/column-pack.Rd | 21 ++++++++++++++++++++ tests/testthat/test-packs.R | 32 +++++++++++++++--------------- 15 files changed, 148 insertions(+), 57 deletions(-)
Title: Composite Likelihood Estimation for Spatial Data
Description: Composite likelihood approach is implemented to estimating statistical models for spatial ordinal and proportional data based on Feng et al. (2014) <doi:10.1002/env.2306>. Parameter estimates are identified by maximizing composite log-likelihood functions using the limited memory BFGS optimization algorithm with bounding constraints, while standard errors are obtained by estimating the Godambe information matrix.
Author: Ting Fung (Ralph) Ma [cre, aut],
Wenbo Wu [aut],
Jun Zhu [aut],
Xiaoping Feng [aut],
Daniel Walsh [ctb],
Robin Russell [ctb]
Maintainer: Ting Fung (Ralph) Ma <tingfung.ma@wisc.edu>
Diff between clespr versions 1.0.1 dated 2018-01-16 and 1.1.2 dated 2018-02-23
DESCRIPTION | 10 +++--- MD5 | 14 ++++----- NAMESPACE | 4 ++ R/func.cle.ord.R | 75 +++++++++++++++++++++++++++++++++++++++++++++------ R/func.cle.prop.R | 30 +++++++++++++++----- R/func.obs.prop.R | 9 ------ man/func.cle.ord.Rd | 48 ++++++++++++++++++++++++++++++-- man/func.cle.prop.Rd | 12 ++++++-- 8 files changed, 159 insertions(+), 43 deletions(-)
Title: Bureau of Economic Analysis API
Description: Provides an R interface for the Bureau of Economic Analysis (BEA)
API (see <http://www.bea.gov/API/bea_web_service_api_user_guide.htm> for
more information) that serves two core purposes -
1. To Extract/Transform/Load data [beaGet()] from the BEA API as R-friendly
formats in the user's work space [transformation done by default in beaGet()
can be modified using optional parameters; see, too, bea2List(), bea2Tab()].
2. To enable the search of descriptive meta data [beaSearch()].
Other features of the library exist mainly as intermediate methods
or are in early stages of development.
Important Note - You must have an API key to use this library.
Register for a key at <http://www.bea.gov/API/signup/index.cfm> .
Author: Andrea Batch [aut, cre],
Jeff Chen [ctb],
Walt Kampas [ctb]
Maintainer: Andrea Batch <Andrea.Julca@bea.gov>
Diff between bea.R versions 1.0.5 dated 2018-02-23 and 1.0.6 dated 2018-02-23
DESCRIPTION | 8 ++++---- MD5 | 5 +++-- R/beaGet.r | 2 +- R/zzz.R |only 4 files changed, 8 insertions(+), 7 deletions(-)
Title: Display Resizable Plots
Description: Display a plot in a Tk canvas.
Author: Filipe Campelo
Maintainer: Filipe Campelo <fcampelo@ci.uc.pt>
Diff between tkRplotR versions 0.1.0 dated 2018-02-20 and 0.1.1 dated 2018-02-23
DESCRIPTION | 9 +++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + R/functions.R | 24 +++++++++++++++++++++--- man/addTkBind.Rd | 3 ++- man/getCoef.Rd | 3 ++- man/tkBinds.Rd | 3 ++- man/tkRplot.Rd | 2 ++ 8 files changed, 42 insertions(+), 17 deletions(-)
Title: A Client for 'data.world' REST API
Description: A set of wrapper functions for 'data.world' REST API endpoints <https://apidocs.data.world>.
Author: Rafael Pereira [aut, cre],
Triet Le [aut],
Bryon Jacob [aut],
Scott Came [aut]
Maintainer: Rafael Pereira <rafael.pereira@data.world>
Diff between dwapi versions 0.1.2 dated 2018-01-10 and 0.1.3 dated 2018-02-23
dwapi-0.1.2/dwapi/R/create_insight_request.R |only dwapi-0.1.2/dwapi/man/check_dataset_summary_response.Rd |only dwapi-0.1.3/dwapi/DESCRIPTION | 16 - dwapi-0.1.3/dwapi/MD5 | 127 +++++++--- dwapi-0.1.3/dwapi/NAMESPACE | 22 + dwapi-0.1.3/dwapi/NEWS.md | 28 ++ dwapi-0.1.3/dwapi/R/add_file.R | 2 dwapi-0.1.3/dwapi/R/append_to_stream.R |only dwapi-0.1.3/dwapi/R/create_project.R |only dwapi-0.1.3/dwapi/R/dataset_replace_request.R | 7 dwapi-0.1.3/dwapi/R/dataset_summary_response.R | 22 - dwapi-0.1.3/dwapi/R/delete_dataset.R |only dwapi-0.1.3/dwapi/R/delete_insight.R |only dwapi-0.1.3/dwapi/R/delete_project.R |only dwapi-0.1.3/dwapi/R/dwapi.R | 41 +++ dwapi-0.1.3/dwapi/R/get_insight.R |only dwapi-0.1.3/dwapi/R/get_insights.R |only dwapi-0.1.3/dwapi/R/get_project.R |only dwapi-0.1.3/dwapi/R/insight_request.R |only dwapi-0.1.3/dwapi/R/insight_summary_response.R |only dwapi-0.1.3/dwapi/R/link_dataset.R |only dwapi-0.1.3/dwapi/R/linked_dataset_create_or_update_request.R |only dwapi-0.1.3/dwapi/R/project_request.R |only dwapi-0.1.3/dwapi/R/replace_dataset.R | 2 dwapi-0.1.3/dwapi/R/replace_insight.R |only dwapi-0.1.3/dwapi/R/replace_project.R |only dwapi-0.1.3/dwapi/R/unlink_dataset.R |only dwapi-0.1.3/dwapi/R/update_insight.R |only dwapi-0.1.3/dwapi/R/update_project.R |only dwapi-0.1.3/dwapi/R/user_info_response.R | 8 dwapi-0.1.3/dwapi/R/utils.R | 44 +++ dwapi-0.1.3/dwapi/build/reports |only dwapi-0.1.3/dwapi/build/vignette.rds |binary dwapi-0.1.3/dwapi/inst/doc/quickstart.R | 34 ++ dwapi-0.1.3/dwapi/inst/doc/quickstart.Rmd | 32 -- dwapi-0.1.3/dwapi/inst/doc/quickstart.html | 75 ++++- dwapi-0.1.3/dwapi/man/add_file.Rd | 2 dwapi-0.1.3/dwapi/man/append_data_frame_to_stream.Rd |only dwapi-0.1.3/dwapi/man/append_record_to_stream.Rd |only dwapi-0.1.3/dwapi/man/append_values_to_stream.Rd |only dwapi-0.1.3/dwapi/man/create_project.Rd |only dwapi-0.1.3/dwapi/man/create_project_response.Rd |only dwapi-0.1.3/dwapi/man/dataset_replace_request.Rd | 8 dwapi-0.1.3/dwapi/man/delete_dataset.Rd |only dwapi-0.1.3/dwapi/man/delete_insight.Rd |only dwapi-0.1.3/dwapi/man/delete_project.Rd |only dwapi-0.1.3/dwapi/man/dwapi.Rd | 41 +++ dwapi-0.1.3/dwapi/man/extract_project_key.Rd |only dwapi-0.1.3/dwapi/man/get_insight.Rd |only dwapi-0.1.3/dwapi/man/get_insight_optional_fields.Rd |only dwapi-0.1.3/dwapi/man/get_insight_required_fields.Rd |only dwapi-0.1.3/dwapi/man/get_insights.Rd |only dwapi-0.1.3/dwapi/man/get_project.Rd |only dwapi-0.1.3/dwapi/man/insight_create_request.Rd | 2 dwapi-0.1.3/dwapi/man/insight_replace_request.Rd |only dwapi-0.1.3/dwapi/man/insight_summary_response.Rd |only dwapi-0.1.3/dwapi/man/insight_update_request.Rd |only dwapi-0.1.3/dwapi/man/is.blank.Rd |only dwapi-0.1.3/dwapi/man/link_dataset.Rd |only dwapi-0.1.3/dwapi/man/linked_dataset_create_or_update_request.Rd |only dwapi-0.1.3/dwapi/man/project_create_request.Rd |only dwapi-0.1.3/dwapi/man/project_replace_request.Rd |only dwapi-0.1.3/dwapi/man/project_update_request.Rd |only dwapi-0.1.3/dwapi/man/replace_dataset.Rd | 2 dwapi-0.1.3/dwapi/man/replace_insight.Rd |only dwapi-0.1.3/dwapi/man/replace_project.Rd |only dwapi-0.1.3/dwapi/man/stop_on_insights_error.Rd |only dwapi-0.1.3/dwapi/man/unlink_dataset.Rd |only dwapi-0.1.3/dwapi/man/update_insight.Rd |only dwapi-0.1.3/dwapi/man/update_project.Rd |only dwapi-0.1.3/dwapi/tests/testthat/helper.R | 39 ++- dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/CreateProjectResponse.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetInsightResponse.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetInsightsResponse0.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetInsightsResponse1.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetInsightsResponse1WithNext.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetInsightsResponse2.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetInsightsResponseNullRecs.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/resources/api.data.world/v0/GetProjectResponse.sample.json |only dwapi-0.1.3/dwapi/tests/testthat/test_create_project.R |only dwapi-0.1.3/dwapi/tests/testthat/test_delete_dataset.R |only dwapi-0.1.3/dwapi/tests/testthat/test_delete_insight.R |only dwapi-0.1.3/dwapi/tests/testthat/test_delete_project.R |only dwapi-0.1.3/dwapi/tests/testthat/test_get_dataset.R | 1 dwapi-0.1.3/dwapi/tests/testthat/test_get_insight.R |only dwapi-0.1.3/dwapi/tests/testthat/test_get_insights.R |only dwapi-0.1.3/dwapi/tests/testthat/test_get_project.R |only dwapi-0.1.3/dwapi/tests/testthat/test_get_user.R | 15 + dwapi-0.1.3/dwapi/tests/testthat/test_get_user_library.R | 3 dwapi-0.1.3/dwapi/tests/testthat/test_link_dataset.R |only dwapi-0.1.3/dwapi/tests/testthat/test_replace_dataset.R | 10 dwapi-0.1.3/dwapi/tests/testthat/test_replace_insight.R |only dwapi-0.1.3/dwapi/tests/testthat/test_replace_project.R |only dwapi-0.1.3/dwapi/tests/testthat/test_sparql.R | 2 dwapi-0.1.3/dwapi/tests/testthat/test_sql.R | 2 dwapi-0.1.3/dwapi/tests/testthat/test_streams.R |only dwapi-0.1.3/dwapi/tests/testthat/test_unlink_dataset.R |only dwapi-0.1.3/dwapi/tests/testthat/test_update_insight.R |only dwapi-0.1.3/dwapi/tests/testthat/test_update_project.R |only dwapi-0.1.3/dwapi/tests/testthat/test_utils.R |only dwapi-0.1.3/dwapi/vignettes/quickstart.Rmd | 32 -- 101 files changed, 456 insertions(+), 163 deletions(-)
Title: Bias Reduction in Generalized Linear Models
Description: Estimation and inference from generalized linear models based on various methods for bias reduction. The 'brglmFit' fitting method can achieve reduction of estimation bias by solving either the mean bias-reducing adjusted score equations in Firth (1993) <doi:10.1093/biomet/80.1.27> and Kosmidis and Firth (2009) <doi:10.1093/biomet/asp055>, or the median bias-reduction adjusted score equations in Kenne et al. (2016) <arXiv:1604.04768>, or through the direct subtraction of an estimate of the bias of the maximum likelihood estimator from the maximum likelihood estimates as in Cordeiro and McCullagh (1991) <http://www.jstor.org/stable/2345592>. Estimation in all cases takes place via a quasi Fisher scoring algorithm, and S3 methods for the construction of of confidence intervals for the reduced-bias estimates are provided. In the special case of generalized linear models for binomial and multinomial responses, the adjusted score approaches return estimates with improved frequentist properties, that are also always finite, even in cases where the maximum likelihood estimates are infinite (e.g. complete and quasi-complete separation). 'brglm2' also provides pre-fit and post-fit methods for detecting separation and infinite maximum likelihood estimates in binomial response generalized linear models.
Author: Ioannis Kosmidis [aut, cre],
Kjell Konis [ctb],
Euloge Clovis Kenne Pagui [ctb],
Nicola Sartori [ctb]
Maintainer: Ioannis Kosmidis <ioannis.kosmidis@warwick.ac.uk>
Diff between brglm2 versions 0.1.6 dated 2018-02-09 and 0.1.7 dated 2018-02-23
brglm2-0.1.6/brglm2/inst/CITATION |only brglm2-0.1.7/brglm2/DESCRIPTION | 19 ++++--- brglm2-0.1.7/brglm2/MD5 | 15 ++---- brglm2-0.1.7/brglm2/NEWS.md | 5 ++ brglm2-0.1.7/brglm2/inst/doc/multinomial.R | 5 -- brglm2-0.1.7/brglm2/inst/doc/multinomial.Rmd | 11 +--- brglm2-0.1.7/brglm2/inst/doc/multinomial.html | 63 ++++++++++++-------------- brglm2-0.1.7/brglm2/inst/doc/separation.html | 16 ++++-- brglm2-0.1.7/brglm2/vignettes/multinomial.Rmd | 11 +--- 9 files changed, 71 insertions(+), 74 deletions(-)
Title: Bureau of Economic Analysis API
Description: Provides an R interface for the Bureau of Economic Analysis (BEA)
API (see <http://www.bea.gov/API/bea_web_service_api_user_guide.htm> for
more information) that serves two core purposes -
1. To Extract/Transform/Load data [beaGet()] from the BEA API as R-friendly
formats in the user's work space [transformation done by default in beaGet()
can be modified using optional parameters; see, too, bea2List(), bea2Tab()].
2. To enable the search of descriptive meta data [beaSearch()].
Other features of the library exist mainly as intermediate methods
or are in early stages of development.
Important Note - You must have an API key to use this library.
Register for a key at <http://www.bea.gov/API/signup/index.cfm> .
Author: Andrea Batch [aut, cre],
Jeff Chen [ctb],
Walt Kampas [ctb]
Maintainer: Andrea Batch <Andrea.Julca@bea.gov>
Diff between bea.R versions 1.0.4 dated 2017-12-07 and 1.0.5 dated 2018-02-23
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- R/beaSearch.r | 9 +++++---- R/beaUpdateMetadata.r | 16 ++++++++++++---- 4 files changed, 26 insertions(+), 17 deletions(-)
Title: R Commander Miscellaneous Functions
Description: Various statistical, graphics, and data-management functions used by the Rcmdr package in the R Commander GUI for R.
Author: John Fox [aut, cre],
Robert Muenchen [ctb],
Dan Putler [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between RcmdrMisc versions 1.0-7 dated 2018-01-03 and 1.0-8 dated 2018-02-23
DESCRIPTION | 13 +++++-------- MD5 | 8 ++++---- NEWS | 4 ++++ R/readSPSS.R | 22 +++++++++++++++++++--- man/readSPSS.Rd | 7 ++++++- 5 files changed, 38 insertions(+), 16 deletions(-)
Title: R Commander
Description: A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre],
Milan Bouchet-Valat [aut],
Liviu Andronic [ctb],
Michael Ash [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ctb],
Kosar Karimi Pour [ctb],
G. Jay Kerns [ctb],
Renaud Lancelot [ctb],
Matthieu Lesnoff [ctb],
Uwe Ligges [ctb],
Samir Messad [ctb],
Martin Maechler [ctb],
Robert Muenchen [ctb],
Duncan Murdoch [ctb],
Erich Neuwirth [ctb],
Dan Putler [ctb],
Brian Ripley [ctb],
Miroslav Ristic [ctb],
Peter Wolf [ctb],
Kevin Wright [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between Rcmdr versions 2.4-1 dated 2017-10-20 and 2.4-2 dated 2018-02-23
Rcmdr-2.4-1/Rcmdr/inst/etc/Thumbs.db |only Rcmdr-2.4-1/Rcmdr/vignettes/Thumbs.db |only Rcmdr-2.4-2/Rcmdr/DESCRIPTION | 8 Rcmdr-2.4-2/Rcmdr/MD5 | 23 Rcmdr-2.4-2/Rcmdr/NEWS | 6 Rcmdr-2.4-2/Rcmdr/build |only Rcmdr-2.4-2/Rcmdr/inst/doc/Getting-Started-with-the-Rcmdr.R |only Rcmdr-2.4-2/Rcmdr/inst/doc/Getting-Started-with-the-Rcmdr.Rnw |only Rcmdr-2.4-2/Rcmdr/inst/doc/Getting-Started-with-the-Rcmdr.pdf |binary Rcmdr-2.4-2/Rcmdr/inst/po/es/LC_MESSAGES/R-Rcmdr.mo |binary Rcmdr-2.4-2/Rcmdr/inst/po/sl/LC_MESSAGES/R-Rcmdr.mo |binary Rcmdr-2.4-2/Rcmdr/man/Rcmdr-package.Rd | 4 Rcmdr-2.4-2/Rcmdr/po/R-Rcmdr.pot | 17 Rcmdr-2.4-2/Rcmdr/po/R-es.po | 24 Rcmdr-2.4-2/Rcmdr/po/R-sl.po |10296 +++++----- 15 files changed, 5228 insertions(+), 5150 deletions(-)
Title: Various Confidence Interval Methods for Proportions
Description: Computes two-sample confidence intervals for single, paired and independent proportions.
Author: Ralph Scherer
Maintainer: Ralph Scherer <shearer.ra76@gmail.com>
Diff between PropCIs versions 0.2-5 dated 2014-04-15 and 0.3-0 dated 2018-02-23
DESCRIPTION | 12 ++++----- MD5 | 20 ++++++++++----- NAMESPACE | 3 ++ NEWS | 62 +++++++++++++++++++++++++----------------------- R/diffci.bayes.R |only R/diffci.bayes.hpd.R |only R/diffscoreci.R | 2 + R/orci.bayes.R |only R/rrci.bayes.R |only README.md | 7 +++-- man/PropCIs-package.Rd | 6 ++-- man/diffci.bayes.Rd |only man/diffci.bayes.hpd.Rd |only man/orci.bayes.Rd |only man/rrci.bayes.Rd |only 15 files changed, 66 insertions(+), 46 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291>.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 0.2-1 dated 2017-12-12 and 0.2-2 dated 2018-02-23
DESCRIPTION | 18 +++++++++--------- MD5 | 31 ++++++++++++++++--------------- NAMESPACE | 3 ++- R/loglik.R | 22 +++++++++++++++------- R/methods.R | 3 ++- R/mlt.R | 41 +++++++++++++++++++++++++++++++++-------- build |only inst/NEWS.Rd | 11 +++++++++++ man/ctm.Rd | 6 +++--- man/mlt-methods.Rd | 3 ++- man/mlt-package.Rd | 12 ++++++++---- man/mlt.Rd | 6 +++--- tests/Cox-Ex.Rout.save | 16 ++++++++-------- tests/bugfixes.R | 20 ++++++++++++++++++++ tests/bugfixes.Rout.save | 46 ++++++++++++++++++++++++++++++++++------------ tests/dpq-Ex.Rout.save | 6 +++--- tests/polr-Ex.Rout.save | 6 +++--- 17 files changed, 172 insertions(+), 78 deletions(-)
Title: Integrative Analysis of Omics Data in Terms of Network,
Evolution and Ontology
Description: The focus of the dnet by Fang and Gough (2014) <doi:10.1186/s13073-014-0064-8> is to make sense of omics data (such as gene expression and mutations) from different angles including: integration with molecular networks, enrichments using ontologies, and relevance to gene evolutionary ages. Integration is achieved to identify a gene subnetwork from the whole gene network whose nodes/genes are labelled with informative data (such as the significant levels of differential expression or survival risks). To help make sense of identified gene networks, enrichment analysis is also supported using a wide variety of pre-compiled ontologies and phylostratific gene age information in major organisms including: human, mouse, rat, chicken, C.elegans, fruit fly, zebrafish and arabidopsis. Add-on functionalities are supports for calculating semantic similarity between ontology terms (and between genes) and for calculating network affinity based on random walk; both can be done via high-performance parallel computing.
Author: Hai Fang and Julian Gough
Maintainer: Hai Fang <hfang@well.ox.ac.uk>
Diff between dnet versions 1.1.2 dated 2018-01-19 and 1.1.3 dated 2018-02-23
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/dNetFind.r | 21 ++++++++++++++++++--- R/dNetPipeline.r | 2 +- inst/NEWS | 10 ++++++++++ man/dNetFind.Rd | 5 +++-- man/dNetPipeline.Rd | 3 ++- 7 files changed, 45 insertions(+), 18 deletions(-)
Title: Efficient Network Enrichment Analysis Test
Description: Includes functions and examples to compute NEAT, the Network Enrichment Analysis Test described in Signorelli et al. (2016, <DOI:10.1186/s12859-016-1203-6>).
Author: Mirko Signorelli, Veronica Vinciotti and Ernst C. Wit
Maintainer: Mirko Signorelli <m.signorelli@lumc.nl>
Diff between neat versions 1.1.2 dated 2018-02-09 and 1.1.3 dated 2018-02-23
neat-1.1.2/neat/inst/doc/neat.R |only neat-1.1.3/neat/DESCRIPTION | 8 neat-1.1.3/neat/MD5 | 11 neat-1.1.3/neat/build/vignette.rds |binary neat-1.1.3/neat/inst/doc/neat.Rmd | 8 neat-1.1.3/neat/inst/doc/neat.html | 484 +++++++++++-------------------------- neat-1.1.3/neat/vignettes/neat.Rmd | 8 7 files changed, 170 insertions(+), 349 deletions(-)
Title: Easily Create and Style Tables for LaTeX, HTML and Other Formats
Description: Like 'xtable', creates styled tables. Export to HTML, LaTeX, 'Word',
'Excel', 'PowerPoint' and other formats. Simple, modern interface to manipulate
borders, size, position, captions, colours, text styles and number formatting.
Includes a 'huxreg' function for creation of regression tables, and 'quick_*'
one-liners to print data to a new document.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between huxtable versions 2.0.2 dated 2018-02-13 and 3.0.0 dated 2018-02-23
DESCRIPTION | 44 ++++++------ MD5 | 81 +++++++++++----------- NAMESPACE | 3 NEWS.md | 24 ++++++ R/LaTeX.R | 8 -- R/Workbook.R |only R/attributes.R | 34 ++++----- R/flextable.R | 6 + R/huxreg.R | 26 +++++-- R/huxtable.R | 2 R/row-col-fns.R | 35 ++++++--- R/screen.R | 12 +-- R/utils.R | 110 +++++++++++++++++++++++------- README.md | 16 +++- inst/doc/design-principles.html | 6 - inst/doc/huxreg.html | 46 ++++++------ inst/doc/huxtable.R | 26 ++++--- inst/doc/huxtable.Rmd | 66 +++++++++++++----- inst/doc/huxtable.pdf |binary man/align.Rd | 12 +-- man/as_Workbook.Rd |only man/background_color.Rd | 14 +-- man/bold.Rd | 12 +-- man/huxreg.Rd | 13 ++- man/insert_column.Rd | 13 ++- man/label.Rd | 4 + man/left_border.Rd | 12 +-- man/left_border_color.Rd | 12 +-- man/number_format.Rd | 12 +-- man/quick-output.Rd | 18 +++- man/rowspecs.Rd | 26 ++++--- man/set_all_borders.Rd | 2 man/set_cell_properties.Rd | 6 - man/text_color.Rd | 16 +--- tests/testthat/test-attributes.R | 6 + tests/testthat/test-dplyr.R | 47 ++++++++++++ tests/testthat/test-huxreg.R | 9 ++ tests/testthat/test-object-manipulation.R | 8 +- tests/testthat/test-openxlsx.R |only tests/testthat/test-output.R | 28 +++++-- tests/testthat/test-set-interface.R | 4 + tests/testthat/test-with-pandoc.R | 1 vignettes/huxtable.Rmd | 66 +++++++++++++----- 43 files changed, 572 insertions(+), 314 deletions(-)
Title: Bayesian Nonparametric Spectral Density Estimation Using
B-Spline Priors
Description: Implementation of a Metropolis-within-Gibbs MCMC algorithm to flexibly estimate the spectral density of a stationary time series. The algorithm updates a nonparametric B-spline prior using the Whittle likelihood to produce pseudo-posterior samples and is based on the work presented in Edwards, M.C., Meyer, R. and Christensen, N., Statistics and Computing (2018). <doi.org/10.1007/s11222-017-9796-9>.
Author: Matthew C. Edwards [aut, cre],
Renate Meyer [aut],
Nelson Christensen [aut]
Maintainer: Matthew C. Edwards <matt.edwards@auckland.ac.nz>
Diff between bsplinePsd versions 0.1.0 dated 2017-07-18 and 0.2.0 dated 2018-02-23
DESCRIPTION | 10 +++++----- MD5 | 11 ++++++----- NEWS.md |only R/RcppExports.R | 22 +++++++++++----------- R/gibbs_bspline.R | 21 +++++++++++++++------ man/gibbs_bspline.Rd | 10 ++++++---- src/RcppExports.cpp | 42 +++++++++++++++++++++++++++++++----------- 7 files changed, 74 insertions(+), 42 deletions(-)
Title: Infrastructure for Computing with Basis Functions
Description: Some very simple infrastructure for basis functions.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between basefun versions 0.0-39 dated 2017-12-18 and 0.0-40 dated 2018-02-23
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 1 + R/bernstein.R | 16 +++++++++++++--- R/methods.R | 12 +++++++++--- inst/NEWS.Rd | 9 +++++++++ 6 files changed, 42 insertions(+), 16 deletions(-)
Title: Variable Descriptions
Description: Abstract descriptions of (yet) unobserved variables.
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between variables versions 0.0-30 dated 2016-02-19 and 0.0-31 dated 2018-02-23
DESCRIPTION | 12 ++++++------ MD5 | 3 ++- inst |only 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Optimal Exact Tests for Multiple Binary Endpoints
Description: Calculates exact hypothesis tests to compare a treatment and a reference group with respect to multiple binary endpoints.
The tested null hypothesis is an identical multidimensional distribution of successes and failures in both groups. The alternative
hypothesis is a larger success proportion in the treatment group in at least one endpoint. The tests are based on the multivariate
permutation distribution of subjects between the two groups. For this permutation distribution, rejection regions are calculated
that satisfy one of different possible optimization criteria. In particular, regions with maximal exhaustion of the nominal
significance level, maximal power under a specified alternative or maximal number of elements can be found. Optimization is achieved
by a branch-and-bound algorithm. By application of the closed testing principle, the global hypothesis tests are extended to multiple
testing procedures.
Author: Robin Ristl [aut, cre]
Maintainer: Robin Ristl <robin.ristl@meduniwien.ac.at>
Diff between multfisher versions 1.0 dated 2017-04-27 and 1.1 dated 2018-02-23
multfisher-1.0/multfisher/R/multBinExact_2-3.R |only multfisher-1.1/multfisher/DESCRIPTION | 8 ++++---- multfisher-1.1/multfisher/MD5 | 11 ++++++----- multfisher-1.1/multfisher/R/multBinExact_2-4.R |only multfisher-1.1/multfisher/inst |only multfisher-1.1/multfisher/man/mfisher.test.Rd | 5 +++-- multfisher-1.1/multfisher/man/plot.multfisher.Rd | 2 +- multfisher-1.1/multfisher/man/print.multfisher.Rd | 2 +- 8 files changed, 15 insertions(+), 13 deletions(-)
Title: Hierarchical Multinomial Processing Tree Modeling
Description: User-friendly analysis of hierarchical multinomial processing tree (MPT)
models that are often used in cognitive psychology. Implements the latent-trait
MPT approach (Klauer, 2010) <DOI:10.1007/s11336-009-9141-0> and the beta-MPT
approach (Smith & Batchelder, 2010) <DOI:10.1016/j.jmp.2009.06.007> to model
heterogeneity of participants. MPT models are conveniently specified by an
.eqn-file as used by other MPT software and data are provided by a .csv-file
or directly in R. Models are either fitted by calling JAGS or by an MPT-tailored
Gibbs sampler in C++ (only for nonhierarchical and beta MPT models). Provides
tests of heterogeneity and MPT-tailored summaries and plotting functions.
Author: Daniel W. Heck [aut, cre],
Nina R. Arnold [aut, dtc],
Denis Arnold [aut],
Alexander Ly [ctb]
Maintainer: Daniel W. Heck <heck@uni-mannheim.de>
Diff between TreeBUGS versions 1.3.0 dated 2018-02-05 and 1.3.1 dated 2018-02-23
DESCRIPTION | 8 - MD5 | 30 ++--- NEWS | 8 + R/BFslope.R | 200 ++++++++++++++++++++++++++------------ R/callingSampler.R | 19 +-- R/covPredictorHandling.R | 21 ++- R/fitModel.R | 18 +-- R/fitTraitMPT.R | 41 ++++--- R/makeModelDescription.R | 2 inst/CITATION | 15 +- inst/doc/TreeBUGS_1_intro.html | 4 inst/doc/TreeBUGS_2_extended.Rmd | 4 inst/doc/TreeBUGS_2_extended.html | 8 - man/BayesFactorSlope.Rd | 39 +++++-- man/traitMPT.Rd | 41 ++++--- vignettes/TreeBUGS_2_extended.Rmd | 4 16 files changed, 288 insertions(+), 174 deletions(-)
Title: SPatially aUTomatic deNoising for Ims toolKit
Description: A set of tools for the peak filtering of mass spectrometry
imaging data (MSI or IMS) based on spatial distribution of signal. Given a
region-of-interest (ROI), representing the spatial region where the informative signal is expected to be
localized, a series of filters determine which peak signals are characterized by
an implausible spatial distribution. The filters reduce the dataset dimensionality
and increase its information vs noise ratio, improving the quality of the
unsupervised analysis results, reducing data dimensionality and simplifying
the chemical interpretation.
Author: Paolo Inglese [aut, cre],
Goncalo Correia [aut, ctb]
Maintainer: Paolo Inglese <p.inglese14@imperial.ac.uk>
Diff between SPUTNIK versions 1.0.0 dated 2018-02-19 and 1.0.1 dated 2018-02-23
DESCRIPTION | 6 - MD5 | 28 ++-- R/construct_funcs.R | 18 ++- R/examples/msiDataset_binKmeans.R | 7 - R/examples/msiDataset_getters.R | 4 R/examples/msiDataset_transform.R | 13 +- R/is_funcs.R | 153 ++++++++++++-------------- R/msi.dataset_funcs.R | 176 +++++++++++++++++------------- man/binKmeans-msi.dataset-method.Rd | 7 - man/getIntensityMat-msi.dataset-method.Rd | 4 man/getMZ-msi.dataset-method.Rd | 4 man/getShapeMSI-msi.dataset-method.Rd | 4 man/msiDataset.Rd | 5 man/normIntensity-msi.dataset-method.Rd | 13 +- man/varTransform-msi.dataset-method.Rd | 13 +- 15 files changed, 266 insertions(+), 189 deletions(-)
Title: Interactive Add-on Functionality for 'intamap'
Description: Includes additional functionality for spatial interpolation in the intamap package, such as bias correction and network optimization.
Author: Edzer Pebesma <edzer.pebesma@uni-muenster.de>, Jon Skoien <jon.skoien@gmail.com> with contributions from Olivier Baume, A.Chorti, D.T. Hristopulos, S.J. Melles, G. Spiliopoulos
Maintainer: Jon Skoien <jon.skoien@gmail.com>
Diff between intamapInteractive versions 1.1-10 dated 2013-08-21 and 1.1-12 dated 2018-02-23
DESCRIPTION | 17 - MD5 | 37 +- NAMESPACE | 12 R/addManual.R | 8 R/anisotropyChoice.r | 546 +++++++++++++++++++++--------------------- R/bound.R | 5 R/calculateMukv.R | 5 R/common.R | 81 +++--- R/estimateAnisotropy.R |only inst/external/sic2004.shp.xml | 4 man/biasCorr.Rd | 2 man/calculateMukv.Rd | 7 man/findBiasUK.Rd | 1 man/findBoundaryLines.Rd | 2 man/findLocalBias.Rd | 172 ++++++------- man/findRegionalBias.Rd | 2 man/optimizeNetwork.Rd | 10 man/spCovAdd.Rd | 4 man/spCovDel.Rd | 3 man/ssaOptim.Rd | 6 20 files changed, 457 insertions(+), 467 deletions(-)
More information about intamapInteractive at CRAN
Permanent link
Title: Support Functions and Datasets for Venables and Ripley's MASS
Description: Functions and datasets to support Venables and Ripley,
"Modern Applied Statistics with S" (4th edition, 2002).
Author: Brian Ripley [aut, cre, cph],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Kurt Hornik [trl] (partial port ca 1998),
Albrecht Gebhardt [trl] (partial port ca 1998),
David Firth [ctb]
Maintainer: Brian Ripley <ripley@stats.ox.ac.uk>
Diff between MASS versions 7.3-48 dated 2017-12-24 and 7.3-49 dated 2018-02-23
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- man/fitdistr.Rd | 2 +- tests/lme.R | 27 ++++++++++++++------------- 4 files changed, 23 insertions(+), 22 deletions(-)
Title: Bayesian Meta Analysis for Studying Cross-Phenotype Genetic
Associations
Description: A Bayesian meta-analysis method for studying cross-phenotype
genetic associations. It uses summary-level data across multiple phenotypes to
simultaneously measure the evidence of aggregate-level pleiotropic association
and estimate an optimal subset of traits associated with the risk locus. CPBayes
is based on a spike and slab prior and is implemented by Markov chain Monte
Carlo technique Gibbs sampling.
Author: Arunabha Majumdar <statgen.arunabha@gmail.com> [aut, cre],
Tanushree Haldar <tanushree.haldar@gmail.com> [aut],
John Witte [ctb]
Maintainer: Arunabha Majumdar <statgen.arunabha@gmail.com>
Diff between CPBayes versions 0.2.0 dated 2017-04-06 and 0.3.0 dated 2018-02-23
DESCRIPTION | 21 ++--- MD5 | 50 ++++++------ NEWS.md | 13 +++ R/CPBayes.R | 5 - R/FuncUserCor.R | 47 +++++------ R/FuncUserUncor.R | 49 +++++------- R/common_MCMC_functions.R | 85 ++++++++++++--------- R/cor_CPBayes_functions.R | 24 ++++-- R/corln_estimation.R | 7 - R/help.R | 19 +++- R/summary_functions.R | 98 +++++++++++++----------- R/uncor_CPBayes_functions.R | 19 +++- README.md | 71 +++++++++++------ build/vignette.rds |binary inst/doc/cpbayes.R | 4 - inst/doc/cpbayes.Rmd | 30 +++---- inst/doc/cpbayes.html | 140 +++++++++++++++++------------------ man/CPBayes.Rd | 5 - man/cpbayes_cor.Rd | 29 +++---- man/cpbayes_uncor.Rd | 29 +++---- man/estimate_corln.Rd | 7 - man/forest_cpbayes.Rd | 21 ++--- man/post_summaries.Rd | 15 +-- tests/testthat/test-InputRestCor.R | 10 +- tests/testthat/test-InputRestUnCor.R | 8 +- vignettes/cpbayes.Rmd | 30 +++---- 26 files changed, 447 insertions(+), 389 deletions(-)
Title: Recursive Partitioning and Regression Trees
Description: Recursive partitioning for classification,
regression and survival trees. An implementation of most of the
functionality of the 1984 book by Breiman, Friedman, Olshen and Stone.
Author: Terry Therneau [aut],
Beth Atkinson [aut, cre],
Brian Ripley [trl] (producer of the initial R port, maintainer
1999-2017)
Maintainer: Beth Atkinson <atkinson@mayo.edu>
Diff between rpart versions 4.1-12 dated 2018-01-10 and 4.1-13 dated 2018-02-23
DESCRIPTION | 23 +++++++++++------------ MD5 | 6 +++--- inst/doc/longintro.pdf |binary inst/doc/usercode.pdf |binary 4 files changed, 14 insertions(+), 15 deletions(-)