Title: An Implementation of the TSIR Model
Description: An implementation of the time-series Susceptible-Infected-Recovered (TSIR) model using a number of different fitting options for infectious disease time series data. The manuscript based on this package can be found here <https://doi:10.1371/0185528>. The method implemented here is described by Finkenstadt and Grenfell (2000) <DOI: 10.1111/1467-9876.00187>.
Author: Alexander D. Becker [aut, cre],
Sinead E. Morris [ctb],
Ottar N. Bjornstad [ctb]
Maintainer: Alexander D. Becker <adbecker@princeton.edu>
Diff between tsiR versions 0.4.0 dated 2018-12-20 and 0.4.1 dated 2019-01-29
DESCRIPTION | 8 ++--- MD5 | 20 +++++++------- R/derivative_function.R | 4 ++ R/estpars_function.R | 3 +- R/residual.births_function.R | 4 +- R/residual.cases_function.R | 2 - R/runtsir_function.R | 58 ++++++++++++++++++++++++++++++++++++++++++- R/simulatetsir_function.R | 2 - R/subplots_functions.R | 2 - R/tsiRdata_function.R | 6 ++++ README.md | 9 ++---- 11 files changed, 92 insertions(+), 26 deletions(-)
Title: EBGM Disproportionality Scores for Adverse Event Data Mining
Description: An implementation of DuMouchel's (1999)
<doi:10.1080/00031305.1999.10474456> Bayesian data mining method for the
market basket problem. Calculates Empirical Bayes Geometric Mean (EBGM) and
quantile scores from the posterior distribution using the Gamma-Poisson
Shrinker (GPS) model to find unusually large cell counts in large, sparse
contingency tables. Can be used to find unusually high reporting rates of
adverse events associated with products. In general, can be used to mine any
database where the co-occurrence of two variables or items is of interest.
Also calculates relative and proportional reporting ratios. Builds on the work
of the 'PhViD' package, from which much of the code is derived. Some of the
added features include stratification to adjust for confounding variables and
data squashing to improve computational efficiency. Now includes an
implementation of the EM algorithm for hyperparameter estimation loosely
derived from the 'mederrRank' package.
Author: John Ihrie [cre, aut],
Travis Canida [aut],
Ismaïl Ahmed [ctb] (author of 'PhViD' package (derived code)),
Antoine Poncet [ctb] (author of 'PhViD'),
Sergio Venturini [ctb] (author of 'mederrRank' package (derived code)),
Jessica Myers [ctb] (author of 'mederrRank')
Maintainer: John Ihrie <John.Ihrie@fda.hhs.gov>
Diff between openEBGM versions 0.7.0 dated 2018-08-16 and 0.8.0 dated 2019-01-29
DESCRIPTION | 10 +++---- MD5 | 24 ++++++++--------- NEWS | 9 ++++++ R/f_checkInputs.R | 12 +++++--- R/f_transformInput.R | 25 +++++++++++++----- build/vignette.rds |binary inst/doc/x1_introAndDataPrepVignette.html | 28 ++++++++++++++++++-- inst/doc/x2_rawDataProcessingVignette.html | 30 ++++++++++++++++++--- inst/doc/x3_hyperParameterVignette.html | 36 ++++++++++++++++++++------ inst/doc/x4_posteriorCalculationVignette.html | 28 ++++++++++++++++++-- inst/doc/x5_openEBGMObjectVignette.html | 28 ++++++++++++++++++-- man/processRaw.Rd | 9 +++++- tests/testthat/testA_Counts.R | 7 +++-- 13 files changed, 195 insertions(+), 51 deletions(-)
More information about ceterisParibus at CRAN
Permanent link
Title: Electrical Properties of Resistor Networks
Description: Electrical properties of resistor networks using matrix methods.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between ResistorArray versions 1.0-28 dated 2012-11-07 and 1.0-32 dated 2019-01-29
DESCRIPTION | 20 ++++++++++++-------- MD5 | 22 +++++++++++++++++----- R/ResistorArray.R | 20 +++++++++++++++----- build |only data/SquaredSquare.rda |binary inst |only man/ResistorArray-package.Rd | 25 +++++++++---------------- man/array.resistance.Rd | 3 ++- vignettes |only 9 files changed, 55 insertions(+), 35 deletions(-)
Title: Credible Subsets
Description: Functions for constructing simultaneous credible bands and identifying subsets via the "credible subsets" (also called "credible subgroups") method.
Author: Patrick Schnell,
Brad Carlin
Maintainer: Patrick Schnell <schnell.31@osu.edu>
Diff between credsubs versions 1.0 dated 2017-07-14 and 1.0.1 dated 2019-01-29
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/credsubs.R | 4 ++-- inst/shiny/alzheimers/server.R | 2 +- inst/shiny/calc/server.R | 2 +- 5 files changed, 13 insertions(+), 13 deletions(-)
Title: R Interface to the DataONE REST API
Description: Provides read and write access to data and metadata from
the DataONE network <https://www.dataone.org> of data repositories.
Each DataONE repository implements a consistent repository application
programming interface. Users call methods in R to access these remote
repository functions, such as methods to query the metadata catalog, get
access to metadata for particular data packages, and read the data objects
from the data repository. Users can also insert and update data objects on
repositories that support these methods.
Author: Matthew B. Jones [aut, cre],
Peter Slaughter [aut],
Rob Nahf [aut],
Carl Boettiger [aut],
Chris Jones [aut],
Jordan Read [aut],
Lauren Walker [aut],
Edmund Hart [aut],
Scott Chamberlain [aut],
Regents of the University of California [cph]
Maintainer: Matthew B. Jones <jones@nceas.ucsb.edu>
Diff between dataone versions 2.1.1 dated 2018-06-28 and 2.1.2 dated 2019-01-29
DESCRIPTION | 11 +- MD5 | 153 ++++++++++++++++++++------------- NEWS | 7 + R/AbstractTableDescriber.R | 2 R/AuthenticationManager.R | 6 - R/CNode.R | 6 - R/D1Client.R | 8 - README.md | 4 build/vignette.rds |binary inst/doc/dataone-federation.Rmd | 10 +- inst/doc/dataone-federation.html | 38 ++++++-- inst/doc/dataone-overview.Rmd | 4 inst/doc/dataone-overview.html | 34 ++++++- inst/doc/download-data.R | 59 ------------ inst/doc/download-data.Rmd | 4 inst/doc/download-data.html | 30 +++++- inst/doc/known-issues.Rmd | 4 inst/doc/known-issues.html | 30 +++++- inst/doc/searching-dataone.Rmd | 8 - inst/doc/searching-dataone.html | 36 ++++++- inst/doc/update-package.Rmd | 12 +- inst/doc/update-package.html | 60 ++++++++---- inst/doc/upload-data.Rmd | 24 ++--- inst/doc/upload-data.html | 50 +++++++--- man/AuthenticationManager-class.Rd | 2 man/auth_put_post_delete.Rd | 4 man/data.characterEncoding.Rd | 1 man/data.formatFamily.Rd | 1 man/data.tableAttributeNames.Rd | 1 man/data.tableAttributeOrientation.Rd | 1 man/data.tableAttributeStorageTypes.Rd | 1 man/data.tableAttributeTypes.Rd | 1 man/data.tableFieldDelimiter.Rd | 1 man/data.tableMissingValueCodes.Rd | 1 man/data.tableQuoteCharacter.Rd | 1 man/data.tableSkipLinesHeader.Rd | 1 man/documented.d1Identifiers.Rd | 1 man/documented.entityNames.Rd | 1 man/documented.sizes.Rd | 1 man/downloadObject.Rd | 2 man/generateIdentifier.Rd | 3 man/getAuthExpires.Rd | 2 man/getD1Object.Rd | 2 man/getMNode.Rd | 2 man/getMetadataMember.Rd | 4 man/getPackage.Rd | 4 man/getToken.Rd | 3 man/hasReservation.Rd | 2 man/listNodes.Rd | 2 man/obscureAuth.Rd | 2 man/query.Rd | 6 - man/uploadDataObject.Rd | 7 - man/uploadDataPackage.Rd | 10 +- tests/testthat/test.D1Client.R | 20 ++-- vignettes/dataone-federation.Rmd | 10 +- vignettes/dataone-overview.Rmd | 4 vignettes/download-data.Rmd | 4 vignettes/download-data_cache |only vignettes/known-issues.Rmd | 4 vignettes/searching-dataone.Rmd | 8 - vignettes/update-package.Rmd | 12 +- vignettes/upload-data.Rmd | 24 ++--- 62 files changed, 442 insertions(+), 314 deletions(-)
Title: Statistical Package for Analysis Related Cleaning Support
Description: To clean and analyze hospital data, and generate sets for statistical modeling.
Author: Wangjian Zhang, Zhicheng Du, Ziqiang Lin, Jijin Yao, Yanan Jin, Wayne R. Lawrence, Yuantao Hao
Maintainer: Wangjian Zhang <wzhang27@albany.edu>
Diff between rSPARCS versions 0.0.2 dated 2018-12-11 and 0.0.3 dated 2019-01-29
DESCRIPTION | 8 ++++---- MD5 | 8 +++++--- NAMESPACE | 5 +++-- R/desc.comp.R | 22 +++++++++++----------- R/raster_extract.R |only man/raster_extract.Rd |only 6 files changed, 23 insertions(+), 20 deletions(-)
Title: Downloads, Unpacks and Tidies Legislative Data from the
Brazilian Federal Senate and Chamber of Deputies
Description: Downloads and tidies data from the Brazilian Federal Senate and
Chamber of Deputies Application Programming Interfaces available at <http://
legis.senado.gov.br/dadosabertos/> and <http://www.camara.leg.br/SitCamaraWS/>
respectively.
Author: Robert McDonnell [aut, cre],
Guilherme Jardim Duarte [aut],
Danilo Freire [aut],
Julio Trecenti [aut]
Maintainer: Robert McDonnell <mcdonnell.robert5@gmail.com>
Diff between congressbr versions 0.1.7 dated 2019-01-02 and 0.1.8 dated 2019-01-29
DESCRIPTION | 6 ++-- MD5 | 12 ++++---- NEWS.md | 4 ++ R/sen_coalitions.R | 54 +----------------------------------- inst/doc/chamber.html | 26 ++++++++--------- inst/doc/senate.html | 75 ++++++++++++++++++++++---------------------------- man/sen_coalitions.Rd | 12 +------- 7 files changed, 62 insertions(+), 127 deletions(-)
Title: Generation of ENVIREM Variables
Description: Generation of bioclimatic rasters that will be particularly
useful for species distribution modeling.
Author: Pascal O. Title, Jordan B. Bemmels
Maintainer: Pascal Title <ptitle@umich.edu>
Diff between envirem versions 1.3 dated 2018-04-16 and 1.4 dated 2019-01-29
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/envirem-package.R | 4 ++-- R/growingDegDays.R | 39 +++++++++++++++++---------------------- man/envirem.Rd | 4 ++-- 5 files changed, 29 insertions(+), 34 deletions(-)
Title: Judd, McClelland, & Ryan Formatting for ANOVA Output
Description: Produces ANOVA tables in the format used by Judd, McClelland, and Ryan (2017, ISBN:978-1138819832) in their introductory textbook, Data Analysis. This includes proportional reduction in error and formatting to improve ease the transition between the book and R.
Author: Adam Blake [aut],
Jeff Chrabaszcz [aut],
Ji Son [aut],
Jim Stigler [cre, aut]
Maintainer: Jim Stigler <jstigler@gmail.com>
Diff between supernova versions 1.1 dated 2018-06-16 and 2.0.0 dated 2019-01-29
supernova-1.1/supernova/R/functions.R |only supernova-1.1/supernova/man/barHelp.Rd |only supernova-1.1/supernova/man/frameSetup.Rd |only supernova-1.1/supernova/man/insertRow.Rd |only supernova-1.1/supernova/man/printHelp.Rd |only supernova-1.1/supernova/man/superanova.Rd |only supernova-2.0.0/supernova/DESCRIPTION | 29 +++++---- supernova-2.0.0/supernova/MD5 | 43 ++++++++------ supernova-2.0.0/supernova/NAMESPACE | 57 +++++++++---------- supernova-2.0.0/supernova/R/anova_tables.R |only supernova-2.0.0/supernova/R/estimate_extraction.R |only supernova-2.0.0/supernova/README.md |only supernova-2.0.0/supernova/data/Fingers.messy.rda |binary supernova-2.0.0/supernova/data/Fingers.rda |binary supernova-2.0.0/supernova/data/Servers.rda |binary supernova-2.0.0/supernova/data/Survey.rda |binary supernova-2.0.0/supernova/data/TipExperiment.rda |binary supernova-2.0.0/supernova/man/PRE.Rd | 58 +++++++++---------- supernova-2.0.0/supernova/man/b0.Rd | 58 +++++++++---------- supernova-2.0.0/supernova/man/b1.Rd | 58 +++++++++---------- supernova-2.0.0/supernova/man/fVal.Rd | 58 +++++++++---------- supernova-2.0.0/supernova/man/print.supernova.Rd | 36 ++++++------ supernova-2.0.0/supernova/man/supernova.Rd | 65 ++++++++++++---------- supernova-2.0.0/supernova/man/update.Rd |only supernova-2.0.0/supernova/man/variables.Rd |only supernova-2.0.0/supernova/tests |only 26 files changed, 240 insertions(+), 222 deletions(-)
Title: Risk Regression Models and Prediction Scores for Survival
Analysis with Competing Risks
Description: Implementation of the following methods for event history analysis.
Risk regression models for survival endpoints also in the presence of competing
risks are fitted using binomial regression based on a time sequence of binary
event status variables. A formula interface for the Fine-Gray regression model
and an interface for the combination of cause-specific Cox regression models.
A toolbox for assessing and comparing performance of risk predictions (risk
markers and risk prediction models). Prediction performance is measured by the
Brier score and the area under the ROC curve for binary possibly time-dependent
outcome. Inverse probability of censoring weighting and pseudo values are used
to deal with right censored data. Lists of risk markers and lists of risk models
are assessed simultaneously. Cross-validation repeatedly splits the data, trains
the risk prediction models on one part of each split and then summarizes and
compares the performance across splits.
Author: Thomas Alexander Gerds [aut, cre],
Paul Blanche [ctb],
Ulla Brasch Mogensen [ctb],
Brice Ozenne [aut]
Maintainer: Thomas Alexander Gerds <tag@biostat.ku.dk>
Diff between riskRegression versions 2018.10.03 dated 2018-10-04 and 2019.01.29 dated 2019-01-29
DESCRIPTION | 13 MD5 | 118 +++---- R/CSC.R | 2 R/FGR.R | 1 R/Score.R | 608 +++++++++++++++++++++++----------------- R/as.data.table.ate.R | 10 R/as.data.table.influenceTest.R | 8 R/as.data.table.predictCox.R | 8 R/ate.R | 59 ++- R/ateRobust.R | 5 R/autoplot.ate.R | 13 R/autoplot.predictCSC.R | 16 - R/autoplot.predictCox.R | 20 - R/calcBootATE.R | 59 --- R/calcSeATE.R | 20 - R/calcSeCSC.R | 8 R/calcSeCox.R | 12 R/confint.ate.R | 65 ++-- R/confint.predictCSC.R | 8 R/confint.predictCox.R | 16 - R/discreteRoot.R | 50 +-- R/getCoxInfo.R | 4 R/getInfluenceCurve.R | 10 R/getLegendData.R | 11 R/getSplitMethod.R | 6 R/iid.R | 6 R/iidCox.R | 2 R/ipcw.R | 1 R/plot.riskRegression.R | 4 R/plotAUC.R | 6 R/plotBrier.R | 6 R/plotCalibration.R | 36 +- R/plotEffects.R | 2 R/plotROC.R | 10 R/predict.CauseSpecificCox.R | 8 R/predict.FGR.R | 23 + R/predictCox.R | 36 +- R/predictRisk.R | 10 R/print.ate.R | 129 +++----- R/print.ateRobust.R | 12 R/print.influenceTest.R | 22 - R/riskQuantile.R | 8 R/riskRegression.R | 4 R/rsquared.R | 10 R/sampleData.R | 6 R/subjectWeights.R | 3 R/transform.R | 8 man/Score.list.Rd | 140 +++++---- man/ate.Rd | 23 - man/autoplot.ate.Rd | 3 man/confint.ate.Rd | 22 - man/dicreteRoot.Rd | 7 man/plotCalibration.Rd | 4 man/predict.FGR.Rd | 9 man/predictRisk.Rd | 3 tests/test-ate.R | 5 tests/test-ateRobust.R | 8 tests/test-score-bootstrap.R | 16 - tests/test-score.R | 68 +++- tests/testScore.org | 6 60 files changed, 984 insertions(+), 832 deletions(-)
More information about riskRegression at CRAN
Permanent link
Title: Global Sensitivity Analysis in Pharmacokinetic Modeling
Description: Applying the global sensitivity analysis workflow to investigate the parameter uncertainty and sensitivity in pharmacokinetic (PK) models, especially the physiologically-based pharmacokinetic (PBPK) model with multivariate outputs. The package also provide some functions to check the sensitivity measures and its convergence of model parameters.
Author: Nan-Hung Hsieh [aut, cre] (<https://orcid.org/0000-0003-0163-2766>),
Brad Reisfeld [aut],
Weihsueh A. Chiu [aut] (<https://orcid.org/0000-0002-7575-2368>)
Maintainer: Nan-Hung Hsieh <nhsieh@cvm.tamu.edu>
Diff between pksensi versions 1.0.0 dated 2018-10-30 and 1.0.1 dated 2019-01-29
pksensi-1.0.0/pksensi/man/install_mcsim.Rd |only pksensi-1.0.0/pksensi/tests/testthat/Rplots.pdf |only pksensi-1.0.1/pksensi/DESCRIPTION | 23 pksensi-1.0.1/pksensi/LICENSE |only pksensi-1.0.1/pksensi/MD5 | 70 + pksensi-1.0.1/pksensi/NAMESPACE | 83 +- pksensi-1.0.1/pksensi/NEWS.md | 39 + pksensi-1.0.1/pksensi/R/check.R | 718 ++++++++++---------- pksensi-1.0.1/pksensi/R/compile.R | 192 ++--- pksensi-1.0.1/pksensi/R/data.R |only pksensi-1.0.1/pksensi/R/install.R | 303 ++++---- pksensi-1.0.1/pksensi/R/models.R | 82 +- pksensi-1.0.1/pksensi/R/package.R | 50 - pksensi-1.0.1/pksensi/R/pksim.R | 125 +-- pksensi-1.0.1/pksensi/R/rfast99.R | 241 +++--- pksensi-1.0.1/pksensi/R/solve_fun.R | 248 +++--- pksensi-1.0.1/pksensi/R/solve_mcsim.R | 431 ++++++------ pksensi-1.0.1/pksensi/R/tell2.R | 256 +++---- pksensi-1.0.1/pksensi/build |only pksensi-1.0.1/pksensi/data |only pksensi-1.0.1/pksensi/inst |only pksensi-1.0.1/pksensi/man/APAP.Rd |only pksensi-1.0.1/pksensi/man/about-pksensi.Rd | 56 - pksensi-1.0.1/pksensi/man/check.Rd | 202 ++--- pksensi-1.0.1/pksensi/man/compile_model.Rd | 80 +- pksensi-1.0.1/pksensi/man/figures |only pksensi-1.0.1/pksensi/man/mcsim.Rd |only pksensi-1.0.1/pksensi/man/models.Rd | 81 +- pksensi-1.0.1/pksensi/man/pksim.Rd | 52 - pksensi-1.0.1/pksensi/man/rfast99.Rd | 117 +-- pksensi-1.0.1/pksensi/man/solve_fun.Rd | 149 ++-- pksensi-1.0.1/pksensi/man/solve_mcsim.Rd | 193 ++--- pksensi-1.0.1/pksensi/man/tell2.Rd | 44 - pksensi-1.0.1/pksensi/tests/1cpt.model | 166 ++-- pksensi-1.0.1/pksensi/tests/pbpk_apap.model |only pksensi-1.0.1/pksensi/tests/pbtk1cpt.model |only pksensi-1.0.1/pksensi/tests/testthat.R | 8 pksensi-1.0.1/pksensi/tests/testthat/test-rfast99.R | 246 +++--- pksensi-1.0.1/pksensi/vignettes |only 39 files changed, 2191 insertions(+), 2064 deletions(-)
Title: An API Wrapper for the Bureau of Labor Statistics (BLS)
Description: Scrapes various data from <https://www.bls.gov/>. The U.S. Bureau of Labor Statistics is the statistical branch of the United States Department of Labor. The package has additional functions to help parse, analyze and visualize the data.
Author: Kris Eberwein [aut, cre]
Maintainer: Kris Eberwein <eberwein@knights.ucf.edu>
Diff between blscrapeR versions 3.1.5 dated 2019-01-23 and 3.1.6 dated 2019-01-29
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 6 ++++++ inst/doc/Employment_and_Unemployment.html | 28 +++++++++++++++++++++++++--- inst/doc/Inflation_and_Prices.html | 28 +++++++++++++++++++++++++--- inst/doc/Mapping_BLS_Data.html | 28 +++++++++++++++++++++++++--- inst/doc/Pay_and_Benefits.html | 28 +++++++++++++++++++++++++--- inst/doc/QCEW_API.html | 28 +++++++++++++++++++++++++--- tests/testthat/test_bls_api.R | 2 +- tests/testthat/test_qcew_api.R | 2 +- 10 files changed, 146 insertions(+), 30 deletions(-)
Title: Statistical Methods for Life Data Analysis
Description: Contains methods for examining bench test or field data using the
well-known Weibull Analysis. It includes Monte Carlo simulation for
estimating the life span of products that have not failed, taking
account of registering and reporting delays as stated in
(Verband der Automobilindustrie e.V. (VDA), 2016, <ISSN:0943-9412>).
If the products looked upon are vehicles, the covered mileage can
be estimated as well.
It also provides non-parametric estimators like Median Ranks,
Kaplan-Meier (Abernethy, 2006, <ISBN:978-0-9653062-3-2>),
Johnson (Johnson, 1964, <ISBN:978-0444403223>), and Nelson-Aalen
for failure probability estimation within samples that contain
failures as well as censored data.
Methods for estimating the parameters of lifetime distributions, like
Maximum Likelihood and Median-Rank Regression,
(Genschel and Meeker, 2010, <DOI:10.1080/08982112.2010.503447>)
as well as the computation of confidence intervals of quantiles and
probabilities using the delta method related to Fisher's confidence
intervals (Meeker and Escobar, 1998, <ISBN:9780471673279>) and the
beta-binomial confidence bounds are also included.
If desired, the data can automatically be divided into subgroups
using segmented regression. And if the number of subgroups in a
Weibull Mixture Model is known, data can be analyzed using the
EM-Algorithm.
Besides the calculation, methods for interactive visualization of
the edited data using *plotly* are provided as well. These
visualizations include the layout of a probability plot for a
specified distribution, the graphical technique of probability plotting
and the possibility of adding regression lines and confidence bounds
to existing plots.
Author: Hensel Tim-Gunnar [aut, cre]
Maintainer: Hensel Tim-Gunnar <tim-gunnar.hensel@tu-berlin.de>
Diff between weibulltools versions 1.0.0 dated 2019-01-26 and 1.0.1 dated 2019-01-29
DESCRIPTION | 6 ++--- MD5 | 32 +++++++++++++++--------------- NEWS.md | 11 ++++++---- README.md | 4 +-- inst/doc/Life_Data_Analysis_Part_I.R | 1 inst/doc/Life_Data_Analysis_Part_I.Rmd | 1 inst/doc/Life_Data_Analysis_Part_I.html | 8 +++---- inst/doc/Life_Data_Analysis_Part_II.R | 1 inst/doc/Life_Data_Analysis_Part_II.Rmd | 1 inst/doc/Life_Data_Analysis_Part_II.html | 12 +++++------ inst/doc/Life_Data_Analysis_Part_III.R | 1 inst/doc/Life_Data_Analysis_Part_III.Rmd | 1 inst/doc/Life_Data_Analysis_Part_III.html | 14 ++++++------- src/em_mixture.cpp | 2 - vignettes/Life_Data_Analysis_Part_I.Rmd | 1 vignettes/Life_Data_Analysis_Part_II.Rmd | 1 vignettes/Life_Data_Analysis_Part_III.Rmd | 1 17 files changed, 54 insertions(+), 44 deletions(-)
Title: Bagplots, Boxplots and Rainbow Plots for Functional Data
Description: Visualizing functional data and identifying functional outliers.
Author: Han Lin Shang [aut, cre, cph] (<https://orcid.org/0000-0003-1769-6430>),
Rob Hyndman [aut] (<https://orcid.org/0000-0002-2140-5352>)
Maintainer: Han Lin Shang <hanlin.shang@anu.edu.au>
Diff between rainbow versions 3.5 dated 2018-10-18 and 3.6 dated 2019-01-29
rainbow-3.5/rainbow/build |only rainbow-3.5/rainbow/data/ElNino.rda |only rainbow-3.5/rainbow/data/ElNino2011.rda |only rainbow-3.5/rainbow/data/ElNino2011smooth.rda |only rainbow-3.5/rainbow/data/ElNinosmooth.rda |only rainbow-3.5/rainbow/inst/doc/rainbow.R |only rainbow-3.5/rainbow/inst/doc/rainbow.Rnw |only rainbow-3.5/rainbow/man/ElNino.Rd |only rainbow-3.5/rainbow/man/ElNino2011.Rd |only rainbow-3.6/rainbow/ChangeLog | 6 ++ rainbow-3.6/rainbow/DESCRIPTION | 24 ++++---- rainbow-3.6/rainbow/MD5 | 49 ++++++++-------- rainbow-3.6/rainbow/R/summaryfunction.R | 2 rainbow-3.6/rainbow/data/Australiafertility.rda |binary rainbow-3.6/rainbow/data/Australiasmoothfertility.rda |binary rainbow-3.6/rainbow/data/ElNino_ERSST_region_1and2.rda |only rainbow-3.6/rainbow/data/ElNino_ERSST_region_3.rda |only rainbow-3.6/rainbow/data/ElNino_ERSST_region_3and4.rda |only rainbow-3.6/rainbow/data/ElNino_ERSST_region_4.rda |only rainbow-3.6/rainbow/data/ElNino_OISST_region_1and2.rda |only rainbow-3.6/rainbow/data/ElNino_OISST_region_3.rda |only rainbow-3.6/rainbow/data/ElNino_OISST_region_3and4.rda |only rainbow-3.6/rainbow/data/ElNino_OISST_region_4.rda |only rainbow-3.6/rainbow/inst/doc/rainbow.pdf |binary rainbow-3.6/rainbow/man/ElNino_ERSST_region_1and2.Rd |only rainbow-3.6/rainbow/man/ElNino_OISST_region_1and2.Rd |only rainbow-3.6/rainbow/man/SVDplot.Rd | 4 - rainbow-3.6/rainbow/man/fboxplot.Rd | 6 +- rainbow-3.6/rainbow/man/fdepth.Rd | 14 ++-- rainbow-3.6/rainbow/man/fds.Rd | 2 rainbow-3.6/rainbow/man/foutliers.Rd | 2 rainbow-3.6/rainbow/man/plot.fdepth.Rd | 2 rainbow-3.6/rainbow/man/plot.fds.Rd | 6 +- rainbow-3.6/rainbow/man/rainbow-package.Rd | 2 rainbow-3.6/rainbow/vignettes/rainbow.Rnw | 50 ++++++++--------- 35 files changed, 91 insertions(+), 78 deletions(-)
Title: Multivariate Stochastic Linear Ornstein-Uhlenbeck Models for
Phylogenetic Comparative Hypotheses
Description: Fits multivariate Ornstein-Uhlenbeck types of models to continues trait data from species related by a common evolutionary history. See K. Bartoszek, J, Pienaar, P. Mostad, S. Andersson, T. F.Hansen (2012) <doi:10.1016/j.jtbi.2012.08.005>.
Author: Krzysztof Bartoszek <krzbar@protonmail.ch>
Maintainer: Krzysztof Bartoszek <krzbar@protonmail.ch>
Diff between mvSLOUCH versions 2.0.0 dated 2019-01-25 and 2.0.1 dated 2019-01-29
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/evolmodelest.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Tools for Uplift Modeling
Description: Uplift modeling aims at predicting the causal effect of an action such as a medical
treatment or a marketing campaign on a particular individual, by taking into consideration
the response to a treatment. In order to simplify the task for practitioners in uplift modeling,
we propose a combination of tools that can be separated into the following ingredients:
i) quantization, ii) visualization, iii) feature engineering, iv) feature selection and,
v) model validation. For more details, please read Belbahri et Al. (2019)
<https://dms.umontreal.ca/~murua/research/UpliftRegression.pdf>.
Author: Mouloud Belbahri, Olivier Gandouet, Alejandro Murua, Vahid Partovi Nia
Maintainer: Mouloud Belbahri <mouloud.belbahri@gmail.com>
Diff between tools4uplift versions 0.1-0 dated 2019-01-09 and 0.1-1 dated 2019-01-29
DESCRIPTION | 20 +++++++++++++------- MD5 | 32 ++++++++++++++++---------------- build/partial.rdb |binary man/BestFeatures.Rd | 3 +++ man/BinUplift.Rd | 13 ++++++++----- man/BinUpliftEnhanced.Rd | 13 ++++++++----- man/DualPredict.Rd | 5 +++++ man/DualUplift.Rd | 5 +++++ man/InterPredict.Rd | 5 +++++ man/InterUplift.Rd | 5 +++++ man/LassoPath.Rd | 2 +- man/QiniArea.Rd | 4 ++-- man/QiniBarPlot.Rd | 3 +++ man/QiniCurve.Rd | 4 ++-- man/QiniTable.Rd | 4 ++-- man/SplitUplift.Rd | 3 +++ man/SquareUplift.Rd | 13 ++++++++----- 17 files changed, 89 insertions(+), 45 deletions(-)
Title: Generalized Linear Mixed Models using Adaptive Gaussian
Quadrature
Description: Fits generalized linear mixed models for a single grouping factor under
maximum likelihood approximating the integrals over the random effects with an
adaptive Gaussian quadrature rule; Jose C. Pinheiro and Douglas M. Bates (1995)
<doi:10.1080/10618600.1995.10474663>.
Author: Dimitris Rizopoulos [aut, cre]
(<https://orcid.org/0000-0001-9397-0900>)
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between GLMMadaptive versions 0.4-0 dated 2018-11-05 and 0.5-1 dated 2019-01-29
DESCRIPTION | 12 - MD5 | 78 ++++----- NAMESPACE | 16 + NEWS.md | 18 ++ R/Fit_Funs.R | 119 ++++++++++++- R/Functions.R | 3 R/methods.R | 195 +++++++++++++++------- R/mixed_fit.R | 51 +++-- R/mixed_model.R | 45 +++-- README.md | 9 - build/vignette.rds |binary inst/doc/Custom_Models.R | 138 +++++++-------- inst/doc/Custom_Models.Rmd | 22 +- inst/doc/Custom_Models.html | 102 +++++------ inst/doc/Dynamic_Predictions.html | 36 +++- inst/doc/GLMMadaptive_basics.R | 75 ++++++-- inst/doc/GLMMadaptive_basics.Rmd | 73 +++++++- inst/doc/GLMMadaptive_basics.html | 97 +++++++---- inst/doc/Goodness_of_Fit.R |only inst/doc/Goodness_of_Fit.Rmd |only inst/doc/Goodness_of_Fit.html |only inst/doc/Methods_MixMod.R | 29 ++- inst/doc/Methods_MixMod.Rmd | 46 ++++- inst/doc/Methods_MixMod.html | 225 +++++++++++++++----------- inst/doc/Multiple_Comparisons.Rmd | 2 inst/doc/Multiple_Comparisons.html | 95 ++++++---- inst/doc/Optimization.R |only inst/doc/Optimization.Rmd |only inst/doc/Optimization.html |only inst/doc/ZeroInflated_and_TwoPart_Models.R | 136 +++++++++++++-- inst/doc/ZeroInflated_and_TwoPart_Models.Rmd | 104 +++++++++++- inst/doc/ZeroInflated_and_TwoPart_Models.html | 92 ++++++---- man/GLMMadaptive.Rd | 4 man/effectPlotData.Rd | 2 man/extra_fams.Rd | 9 - man/methods.Rd | 28 ++- man/mixed_model.Rd | 9 - vignettes/Custom_Models.Rmd | 22 +- vignettes/GLMMadaptive_basics.Rmd | 73 +++++++- vignettes/Goodness_of_Fit.Rmd |only vignettes/Methods_MixMod.Rmd | 46 ++++- vignettes/Multiple_Comparisons.Rmd | 2 vignettes/Optimization.Rmd |only vignettes/ZeroInflated_and_TwoPart_Models.Rmd | 104 +++++++++++- 44 files changed, 1493 insertions(+), 624 deletions(-)
Title: Main Package of the EMU Speech Database Management System
Description: Provides the next iteration of the EMU Speech
Database Management System (EMU-SDMS) with database management, data
extraction, data preparation and data visualization facilities.
Author: Raphael Winkelmann [aut, cre],
Klaus Jaensch [aut, ctb],
Steve Cassidy [aut, ctb],
Jonathan Harrington [aut, ctb]
Maintainer: Raphael Winkelmann <raphael@phonetik.uni-muenchen.de>
Diff between emuR versions 1.1.1 dated 2018-11-12 and 1.1.2 dated 2019-01-29
DESCRIPTION | 13 +++-- MD5 | 57 +++++++++++++------------ NAMESPACE | 3 + NEWS.md | 19 ++++++++ R/emuR-bas_webservices.R | 34 ++++++++------- R/emuR-crud-helpers.R | 4 - R/emuR-database.files.R | 50 ++++++++++++---------- R/emuR-emuRsegs.R | 40 +++++++++++++++++ R/emuR-emuRtrackdata.R | 57 +++++++++++++++++++++---- R/emuR-get_trackdata.R | 2 R/emuR-query.database.R | 2 R/emuR-server.R | 2 R/epg.class.R | 2 build/vignette.rds |binary inst/doc/EQL.Rmd | 2 inst/doc/EQL.html | 32 ++++++++++++-- inst/doc/emuDB.Rmd | 2 inst/doc/emuDB.html | 78 ++++++++++++++++++++--------------- inst/doc/emuR_intro.Rmd | 2 inst/doc/emuR_intro.html | 36 +++++++++++++--- man/convert_wideToLong.Rd |only man/epgcog.Rd | 2 man/export_seglistToTxtCollection.Rd |only man/import_mediaFiles.Rd | 2 man/make.emuRsegs.Rd | 3 - man/runBASwebservice_all.Rd | 7 ++- man/serve.Rd | 2 tests/testthat/test_emuR-emuRsegs.R |only vignettes/EQL.Rmd | 2 vignettes/emuDB.Rmd | 2 vignettes/emuR_intro.Rmd | 2 31 files changed, 314 insertions(+), 145 deletions(-)
Title: Enhance Shiny Apps with Customizable Modules
Description: Provides highly customizable modules to enhance your shiny apps.
Includes layout independent collapsible boxes and value boxes, a very fast
autocomplete input, rhandsontable extensions for filtering and paging and
much more.
Author: Richard Kunze, Mirjam Rehr
Maintainer: Richard Kunze <richard.kunze@daqana.com>
Diff between dqshiny versions 0.0.1 dated 2018-11-19 and 0.0.2 dated 2019-01-29
dqshiny-0.0.1/dqshiny/man/selectizeRenderer.Rd |only dqshiny-0.0.1/dqshiny/tests/testthat/data/shinySession.RData |only dqshiny-0.0.2/dqshiny/DESCRIPTION | 6 dqshiny-0.0.2/dqshiny/MD5 | 90 ++- dqshiny-0.0.2/dqshiny/NAMESPACE | 1 dqshiny-0.0.2/dqshiny/NEWS.md | 10 dqshiny-0.0.2/dqshiny/R/dq_handsontable.R | 231 +++++----- dqshiny-0.0.2/dqshiny/R/dq_htmltable.R | 203 +++++++- dqshiny-0.0.2/dqshiny/R/dq_icon.R | 4 dqshiny-0.0.2/dqshiny/R/dq_popover.R |only dqshiny-0.0.2/dqshiny/R/dq_space.R | 4 dqshiny-0.0.2/dqshiny/R/dqshiny.R | 44 + dqshiny-0.0.2/dqshiny/R/filter_row.R | 131 +++-- dqshiny-0.0.2/dqshiny/R/filtering.R | 9 dqshiny-0.0.2/dqshiny/R/hot_renderer.R | 14 dqshiny-0.0.2/dqshiny/R/paging.R | 15 dqshiny-0.0.2/dqshiny/R/sorting.R | 67 +- dqshiny-0.0.2/dqshiny/README.md | 42 + dqshiny-0.0.2/dqshiny/demo |only dqshiny-0.0.2/dqshiny/inst/shiny |only dqshiny-0.0.2/dqshiny/inst/www/css/autocomplete.css | 21 dqshiny-0.0.2/dqshiny/inst/www/css/dqshiny.css | 61 ++ dqshiny-0.0.2/dqshiny/inst/www/js/autocomplete-binding.js | 31 - dqshiny-0.0.2/dqshiny/inst/www/js/messageHandler.js | 4 dqshiny-0.0.2/dqshiny/man/dq_hot_date_renderer.Rd | 6 dqshiny-0.0.2/dqshiny/man/dq_htmltable.Rd | 50 +- dqshiny-0.0.2/dqshiny/man/dq_icon.Rd | 4 dqshiny-0.0.2/dqshiny/man/dq_render_handsontable.Rd | 21 dqshiny-0.0.2/dqshiny/man/dq_space.Rd | 4 dqshiny-0.0.2/dqshiny/man/dqshiny.Rd | 9 dqshiny-0.0.2/dqshiny/tests/testthat/shinytest/dq_handsontable/app.R | 2 dqshiny-0.0.2/dqshiny/tests/testthat/shinytest/dq_handsontable/tests/dq_handsontableTest-expected/001.json | 42 + dqshiny-0.0.2/dqshiny/tests/testthat/shinytest/dq_handsontable/tests/dq_handsontableTest-expected/002.json | 42 + dqshiny-0.0.2/dqshiny/tests/testthat/shinytest/dq_handsontable/tests/dq_handsontableTest-expected/003.json | 42 + dqshiny-0.0.2/dqshiny/tests/testthat/shinytest/dq_handsontable/tests/dq_handsontableTest-expected/004.json | 42 + dqshiny-0.0.2/dqshiny/tests/testthat/shinytest/dq_handsontable/tests/dq_handsontableTest.R | 19 dqshiny-0.0.2/dqshiny/tests/testthat/test-css_class.R | 81 ++- dqshiny-0.0.2/dqshiny/tests/testthat/test-display.R | 63 +- dqshiny-0.0.2/dqshiny/tests/testthat/test-dq_handsontable.R | 65 +- dqshiny-0.0.2/dqshiny/tests/testthat/test-dq_htmltable.R | 43 + dqshiny-0.0.2/dqshiny/tests/testthat/test-dq_popover.R |only dqshiny-0.0.2/dqshiny/tests/testthat/test-filter_row.R | 143 ++++-- dqshiny-0.0.2/dqshiny/tests/testthat/test-filtering.R | 50 -- dqshiny-0.0.2/dqshiny/tests/testthat/test-hot_renderer.R | 6 dqshiny-0.0.2/dqshiny/tests/testthat/test-js.R | 23 dqshiny-0.0.2/dqshiny/tests/testthat/test-paging.R | 41 - dqshiny-0.0.2/dqshiny/tests/testthat/test-sorting.R | 54 +- dqshiny-0.0.2/dqshiny/tests/testthat/test-state.R | 60 +- 48 files changed, 1237 insertions(+), 663 deletions(-)
Title: The Moving Epidemic Method Web Application
Description: The Moving Epidemic Method, created by T Vega and JE Lozano (2012, 2015) <doi:10.1111/j.1750-2659.2012.00422.x>, <doi:10.1111/irv.12330>, allows the weekly assessment of the epidemic and intensity status to help in routine respiratory infections surveillance in health systems. Allows the comparison of different epidemic indicators, timing and shape with past epidemics and across different regions or countries with different surveillance systems. Also, it gives a measure of the performance of the method in terms of sensitivity and specificity of the alert week. 'memapp' is a web application created in the Shiny framework for the 'mem' R package.
Author: Jose E. Lozano [aut, cre]
Maintainer: Jose E. Lozano <lozalojo@gmail.com>
Diff between memapp versions 2.11 dated 2018-11-08 and 2.12 dated 2019-01-29
DESCRIPTION | 10 - MD5 | 14 - inst/shinyapp/lang/en_GB.txt | 24 ++ inst/shinyapp/lang/es_ES.txt | 24 ++ inst/shinyapp/lang/fr_FR.txt | 24 ++ inst/shinyapp/lang/ru_RU.txt | 325 ++++++++++++++++++++++++++++++++++- inst/shinyapp/lang/translation.bin |binary inst/shinyapp/server.R | 336 +++++++++++++++++++++++++------------ 8 files changed, 631 insertions(+), 126 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-19 0.1.0
Title: Wrap R Tools for Debugging and Parametric Programming
Description: Tools for writing and debugging R code. Provides:
'let()'
(converts non-standard evaluation interfaces to parametric standard
evaluation interfaces, inspired by 'gtools:strmacro()' and 'base::bquote()'),
'%.>%' dot-pipe (an 'S3' configurable pipe),
'build_frame()'/'draw_frame()' ('data.frame' example tools),
'qc()' (quoting concatenate),
':=' (named map builder),
and more.
Author: John Mount [aut, cre],
Nina Zumel [aut],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between wrapr versions 1.8.2 dated 2019-01-07 and 1.8.3 dated 2019-01-29
DESCRIPTION | 10 +-- MD5 | 67 +++++++++++++---------- NAMESPACE | 3 + NEWS.md | 8 ++ R/UnaryFunctions.R | 2 R/bquotefn.R | 24 ++++++-- R/mk_formula.R | 113 ++++++++++++++++++++++++++++----------- R/string_interpolation.R |only build/vignette.rds |binary inst/doc/CornerCases.html | 4 - inst/doc/DebugFnW.html | 6 +- inst/doc/FrameTools.html | 4 - inst/doc/Function_Objects.html | 4 - inst/doc/Named_Arguments.html | 4 - inst/doc/QuotingConcatinate.html | 4 - inst/doc/SubstitutionModes.html | 4 - inst/doc/bquote.R |only inst/doc/bquote.Rmd |only inst/doc/bquote.html |only inst/doc/dot_pipe.Rmd | 2 inst/doc/dot_pipe.html | 6 +- inst/doc/lambda.html | 13 ++-- inst/doc/let.html | 4 - inst/doc/named_map_builder.html | 4 - inst/doc/wrapr_applicable.html | 4 - inst/doc/wrapr_let.pdf |binary inst/doc/wrapr_pipe.pdf |binary man/bquote_call.Rd | 1 man/bquote_call_args.Rd | 1 man/bquote_function.Rd | 12 ++++ man/evalb.Rd | 6 +- man/mk_formula.Rd | 17 ++++- man/sinterp.Rd |only man/strsplit_capture.Rd |only tests/testthat/test_assoc.R | 11 --- tests/testthat/test_mk_formula.R |only tests/testthat/test_str_stuff.R |only vignettes/bquote.Rmd |only vignettes/dot_pipe.Rmd | 2 39 files changed, 220 insertions(+), 120 deletions(-)
Title: An R Package to Quantify Tree Balance
Description: For a given phylogenetic tree, calculates the Total Cophenetic Index.
Reference: A. Mir, F. Rossello, L. A. Rotger (2013).
A new balance index for phylogenetic trees.
Math. Biosci. 241, 125-136 <doi:10.1016/j.mbs.2012.10.005>.
Author: Martin R. Smith [aut, cre, cph]
(<https://orcid.org/0000-0001-5660-1727>)
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TotalCopheneticIndex versions 1.0.0 dated 2017-11-30 and 1.0.1 dated 2019-01-29
DESCRIPTION | 38 ++++++++++++------ MD5 | 18 ++++---- NAMESPACE | 3 - NEWS.md | 7 +++ R/total.cophenetic.index.R | 93 ++++++++++++++++++++++++++++----------------- README.md | 16 +++++-- man/list.ancestors.Rd | 2 man/tci.Rd | 10 +++- man/tci.context.Rd | 6 ++ tests |only 10 files changed, 129 insertions(+), 64 deletions(-)
More information about TotalCopheneticIndex at CRAN
Permanent link
Title: Analysis of Complex Survey Samples
Description: Summary statistics, two-sample tests, rank tests, generalised linear models, cumulative link models, Cox models, loglinear models, and general maximum pseudolikelihood estimation for multistage stratified, cluster-sampled, unequally weighted survey samples. Variances by Taylor series linearisation or replicate weights. Post-stratification, calibration, and raking. Two-phase subsampling designs. Graphics. PPS sampling without replacement. Principal components, factor analysis.
Author: Thomas Lumley
Maintainer: "Thomas Lumley" <t.lumley@auckland.ac.nz>
Diff between survey versions 3.35 dated 2018-12-17 and 3.35-1 dated 2019-01-29
DESCRIPTION | 6 ++-- MD5 | 61 ++++++++++++++++++++++++----------------------- R/multistage.R | 4 +++ R/surveyrep.R | 2 - R/sysdata.rda |binary R/twophase.R | 4 +-- R/twophase2.R | 55 +++++++++++++++++++++++++++++++++++++++--- THANKS | 2 + build/vignette.rds |binary data/api.rda |binary data/crowd.rda |binary data/election.rda |binary data/fpc.rda |binary data/hospital.rda |binary data/mu284.rda |binary data/nhanes.rda |binary data/scd.rda |binary data/yrbs.rda |binary inst/BUGS | 3 ++ inst/CITATION | 6 ++-- inst/NEWS | 8 ++++++ inst/doc/domain.pdf |binary inst/doc/epi.pdf |binary inst/doc/phase1.pdf |binary inst/doc/pps.pdf |binary inst/doc/survey.pdf |binary man/api.Rd | 2 - tests/3stage2phase.R |only tests/README | 2 + tests/simdata1.RData |only tests/testoutput/README |only tests/twophase.R | 2 - tests/twophase.Rout.save | 12 ++++----- 33 files changed, 119 insertions(+), 50 deletions(-)
Title: Relational Query Generator for Data Manipulation at Scale
Description: A piped query generator based on Edgar F. Codd's relational
algebra, and on production experience using 'SQL' and 'dplyr' at big data
scale. The design represents an attempt to make 'SQL' more teachable by
denoting composition by a sequential pipeline notation instead of nested
queries or functions. The implementation delivers reliable high
performance data processing on large data systems such as 'Spark',
databases, and 'data.table'. Package features include: data processing trees
or pipelines as observable objects (able to report both columns
produced and columns used), optimized 'SQL' generation as an explicit
user visible table modeling step, plus explicit query reasoning and checking.
Author: John Mount [aut, cre],
Win-Vector LLC [cph]
Maintainer: John Mount <jmount@win-vector.com>
Diff between rquery versions 1.2.1 dated 2018-12-16 and 1.3.0 dated 2019-01-29
rquery-1.2.1/rquery/R/split_brace_rq.R |only rquery-1.3.0/rquery/DESCRIPTION | 13 rquery-1.3.0/rquery/MD5 | 158 ++- rquery-1.3.0/rquery/NAMESPACE | 21 rquery-1.3.0/rquery/NEWS.md | 19 rquery-1.3.0/rquery/R/db_def_methods_default.R |only rquery-1.3.0/rquery/R/db_info.R | 214 +++- rquery-1.3.0/rquery/R/db_ops.R | 232 +++-- rquery-1.3.0/rquery/R/drop_columns.R | 26 rquery-1.3.0/rquery/R/ex_data_frame.R | 17 rquery-1.3.0/rquery/R/extend.R | 30 rquery-1.3.0/rquery/R/join_controller.R | 7 rquery-1.3.0/rquery/R/materialize.R | 141 +-- rquery-1.3.0/rquery/R/materialize_node.R |only rquery-1.3.0/rquery/R/natural_join.R | 45 - rquery-1.3.0/rquery/R/non_sql_node.R | 91 +- rquery-1.3.0/rquery/R/null_replace.R | 27 rquery-1.3.0/rquery/R/op_diagram.R | 146 ++- rquery-1.3.0/rquery/R/order_by.R | 38 rquery-1.3.0/rquery/R/order_expr.R | 26 rquery-1.3.0/rquery/R/pre_sql.R | 185 +++- rquery-1.3.0/rquery/R/project.R | 29 rquery-1.3.0/rquery/R/quantile.R | 3 rquery-1.3.0/rquery/R/relop.R | 1 rquery-1.3.0/rquery/R/relop_list.R |only rquery-1.3.0/rquery/R/rename.R | 25 rquery-1.3.0/rquery/R/rlook.R | 23 rquery-1.3.0/rquery/R/row_counts.R |only rquery-1.3.0/rquery/R/rsummary.R | 3 rquery-1.3.0/rquery/R/select_columns.R | 37 rquery-1.3.0/rquery/R/select_rows.R | 36 rquery-1.3.0/rquery/R/set_indicator.R | 26 rquery-1.3.0/rquery/R/sql_node.R | 33 rquery-1.3.0/rquery/R/table_source.R | 29 rquery-1.3.0/rquery/R/theta_join.R | 96 ++ rquery-1.3.0/rquery/R/tokenize_for_sql.R | 249 +++-- rquery-1.3.0/rquery/R/union_all.R | 62 - rquery-1.3.0/rquery/R/utils.R | 9 rquery-1.3.0/rquery/R/zzz.R | 2 rquery-1.3.0/rquery/README.md | 432 +++------- rquery-1.3.0/rquery/inst/doc/AssigmentPartitioner.html | 4 rquery-1.3.0/rquery/inst/doc/Parameterized_rquery.html | 4 rquery-1.3.0/rquery/inst/doc/PipeableSQL.R | 4 rquery-1.3.0/rquery/inst/doc/PipeableSQL.Rmd | 4 rquery-1.3.0/rquery/inst/doc/PipeableSQL.html | 11 rquery-1.3.0/rquery/inst/doc/QueryGeneration.html | 4 rquery-1.3.0/rquery/inst/doc/rquery_intro.html | 9 rquery-1.3.0/rquery/inst/doc/sql_quoting.html | 4 rquery-1.3.0/rquery/man/add_relop.Rd |only rquery-1.3.0/rquery/man/apply_right_S4-ANY-relop_list-method.Rd |only rquery-1.3.0/rquery/man/apply_right_S4-relop_list-rquery_db_info-method.Rd |only rquery-1.3.0/rquery/man/apply_right_S4-rquery_db_info-relop_list-method.Rd |only rquery-1.3.0/rquery/man/commencify.Rd | 9 rquery-1.3.0/rquery/man/example_employee_date.Rd | 5 rquery-1.3.0/rquery/man/execute.Rd | 9 rquery-1.3.0/rquery/man/getDBOption.Rd | 2 rquery-1.3.0/rquery/man/get_relop_list_stages.Rd |only rquery-1.3.0/rquery/man/make_relop_list.Rd |only rquery-1.3.0/rquery/man/materialize.Rd | 17 rquery-1.3.0/rquery/man/materialize_node.Rd | 21 rquery-1.3.0/rquery/man/materialize_relop_list_stages.Rd |only rquery-1.3.0/rquery/man/materialize_sql.Rd | 3 rquery-1.3.0/rquery/man/non_sql_node.Rd | 5 rquery-1.3.0/rquery/man/op_diagram.Rd | 9 rquery-1.3.0/rquery/man/pre_sql_fn.Rd |only rquery-1.3.0/rquery/man/pre_sql_identifier.Rd |only rquery-1.3.0/rquery/man/pre_sql_string.Rd |only rquery-1.3.0/rquery/man/pre_sql_sub_expr.Rd |only rquery-1.3.0/rquery/man/pre_sql_to_query.Rd |only rquery-1.3.0/rquery/man/pre_sql_to_query.pre_sql_sub_expr.Rd |only rquery-1.3.0/rquery/man/pre_sql_to_query.pre_sql_token.Rd |only rquery-1.3.0/rquery/man/pre_sql_token.Rd |only rquery-1.3.0/rquery/man/quantile_node.Rd | 3 rquery-1.3.0/rquery/man/relop_list-class.Rd |only rquery-1.3.0/rquery/man/row_counts.Rd |only rquery-1.3.0/rquery/man/rquery_db_info.Rd | 9 rquery-1.3.0/rquery/man/rquery_default_db_info.Rd | 8 rquery-1.3.0/rquery/man/rquery_default_methods.Rd |only rquery-1.3.0/rquery/man/rsummary_node.Rd | 3 rquery-1.3.0/rquery/man/setDBOpt.Rd |only rquery-1.3.0/rquery/man/setDBOption.Rd | 5 rquery-1.3.0/rquery/man/show-relop_list-method.Rd |only rquery-1.3.0/rquery/man/str_pre_sql_sub_expr.Rd |only rquery-1.3.0/rquery/man/tokenize_for_SQL.Rd | 1 rquery-1.3.0/rquery/tests/testthat/test_NULL_NA_parse.R | 2 rquery-1.3.0/rquery/tests/testthat/test_extend_partition.R | 2 rquery-1.3.0/rquery/tests/testthat/test_materialize_node.R |only rquery-1.3.0/rquery/tests/testthat/test_mod.R |only rquery-1.3.0/rquery/tests/testthat/test_parse.R | 65 - rquery-1.3.0/rquery/tests/testthat/test_partial_fn_parse.R | 4 rquery-1.3.0/rquery/tests/testthat/test_pow.R | 4 rquery-1.3.0/rquery/tests/testthat/test_q.R | 2 rquery-1.3.0/rquery/tools/pipe_diagram.png |binary rquery-1.3.0/rquery/vignettes/PipeableSQL.Rmd | 4 94 files changed, 1728 insertions(+), 1039 deletions(-)
Title: Penalized Multivariate Analysis
Description: Performs Penalized Multivariate Analysis: a penalized
matrix decomposition, sparse principal components analysis, and
sparse canonical correlation analysis, described in the
following papers: (1) Witten, Tibshirani and Hastie (2009) A
penalized matrix decomposition, with applications to sparse
principal components and canonical correlation analysis.
Biostatistics 10(3):515-534. (2) Witten and Tibshirani (2009)
Extensions of sparse canonical correlation analysis, with
applications to genomic data. Statistical Applications in
Genetics and Molecular Biology 8(1): Article 28.
Author: Daniela Witten and Rob Tibshirani and Sam Gross and
Balasubramanian Narasimhan
Maintainer: ORPHANED
Diff between PMA versions 1.0.11 dated 2018-04-20 and 1.1 dated 2019-01-29
PMA-1.0.11/PMA/R/CCA.xlfuns.R |only PMA-1.0.11/PMA/man/notusing |only PMA-1.1/PMA/DESCRIPTION | 18 ++++------ PMA-1.1/PMA/MD5 | 17 ++++----- PMA-1.1/PMA/NAMESPACE | 2 - PMA-1.1/PMA/R/CCA.R | 24 ++++++------- PMA-1.1/PMA/man/PMA-internal.Rd | 18 ---------- PMA-1.1/PMA/man/SPC.Rd | 70 ++++++++++++++++++++-------------------- PMA-1.1/PMA/man/SPC.cv.Rd | 54 +++++++++++++++--------------- PMA-1.1/PMA/src/FLSA.cc | 8 ++-- 10 files changed, 95 insertions(+), 116 deletions(-)
Title: Multidimensional Item Response Theory
Description: Analysis of dichotomous and polytomous response data using
unidimensional and multidimensional latent trait models under the Item
Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>).
Exploratory and confirmatory models can be estimated with quadrature (EM)
or stochastic (MHRM) methods. Confirmatory
bi-factor and two-tier analyses are available for modeling item testlets.
Multiple group analysis and mixed effects designs also are available for
detecting differential item and test functioning as well as modeling
item and person covariates. Finally, latent class models such as the DINA,
DINO, multidimensional latent class, and several other discrete latent
variable models, including mixture and zero-inflated response models,
are supported.
Author: Phil Chalmers [aut, cre, cph],
Joshua Pritikin [ctb],
Alexander Robitzsch [ctb],
Mateusz Zoltak [ctb],
KwonHyun Kim [ctb],
Carl F. Falk [ctb],
Adam Meade [ctb],
Lennart Schneider [ctb],
David King [ctb],
Chen-Wei Liu [ctb],
Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between mirt versions 1.29 dated 2018-08-12 and 1.30 dated 2019-01-29
DESCRIPTION | 8 - MD5 | 109 ++++++++++++------------- NEWS.md | 20 ++++ R/02-item_methods.R | 3 R/03-estimation.R | 20 ---- R/DIF.R | 80 ++++++++++++++---- R/DRF.R | 4 R/LoadPars.R | 50 ++++++++--- R/M2.R | 50 +++++------ R/MDIFF.R | 12 ++ R/MDISC.R | 12 ++ R/SIBTEST.R | 3 R/SingleGroup-methods.R | 6 - R/areainfo.R | 13 ++- R/estfun.R | 155 ++++++++++++++++++++++-------------- R/expand.table.R | 2 R/extract.mirt.R | 2 R/fscores.R | 3 R/itemfit.R | 55 +++++++++--- R/mdirt.R | 27 ++++++ R/mod2values.R | 2 R/multipleGroup.R | 2 R/testinfo.R | 12 ++ R/utils.R | 17 ++- build/partial.rdb |binary man/DIF.Rd | 46 ++++++---- man/DRF.Rd | 13 +-- man/DTF.Rd | 6 - man/M2.Rd | 12 +- man/MDIFF.Rd | 8 + man/MDISC.Rd | 8 + man/SIBTEST.Rd | 7 - man/areainfo.Rd | 9 +- man/bfactor.Rd | 4 man/empirical_ES.Rd | 11 +- man/empirical_plot.Rd | 11 +- man/estfun.AllModelClass.Rd | 45 +++++++++- man/expected.test.Rd | 4 man/extract.mirt.Rd | 1 man/fscores.Rd | 17 ++- man/itemGAM.Rd | 6 - man/itemfit.Rd | 45 ++++++---- man/itemplot.Rd | 12 +- man/mdirt.Rd | 37 +++++++- man/mirt.Rd | 19 ++-- man/multipleGroup.Rd | 2 man/plot-method.Rd | 17 ++- man/residuals-method.Rd | 8 - man/simdata.Rd | 5 - man/testinfo.Rd | 7 - src/Misc.cpp | 26 +++--- src/dpars.cpp | 9 -- tests/tests/test-02-mirtTwo.R | 4 tests/tests/test-04-multipleGroup.R | 2 tests/tests/test-10-extras.R | 12 -- tests/tests/test-17-DIF_DRF.R |only 56 files changed, 697 insertions(+), 383 deletions(-)
Title: Power Analysis for Generalised Linear Mixed Models by Simulation
Description: Calculate power for generalised linear mixed models, using
simulation. Designed to work with models fit using the 'lme4' package.
Described in Green and MacLeod, 2016 <doi:10.1111/2041-210X.12504>.
Author: Green Peter [aut, cre] (<https://orcid.org/0000-0002-0238-9852>),
MacLeod Catriona [aut],
Alday Phillip [ctb]
Maintainer: Green Peter <simr.peter@gmail.com>
Diff between simr versions 1.0.4 dated 2018-04-30 and 1.0.5 dated 2019-01-29
DESCRIPTION | 8 +-- MD5 | 22 +++++----- NEWS.md | 9 +++- R/new.R | 87 +++++++++++++++++++++++++++++++++++++----- R/print.R | 2 build/vignette.rds |binary inst/doc/examples.html | 71 +++++++++++++++++----------------- inst/doc/fromscratch.html | 32 +++++++++++++-- man/print.powerSim.Rd | 4 - man/tests.Rd | 4 - tests/testthat/helper_setup.R | 4 + tests/testthat/test_new.R | 4 + 12 files changed, 176 insertions(+), 71 deletions(-)
Title: 'd3.js' Utilities for R
Description: Provides a suite of functions to help ease the use of 'd3.js' in R.
These helpers include 'htmltools::htmlDependency' functions, hierarchy
builders, and conversion tools for 'partykit', 'igraph,' 'table',
and 'data.frame' R objects into the 'JSON' that 'd3.js' expects.
Author: Mike Bostock [aut, cph] (d3.js library in htmlwidgets/lib,
http://d3js.org),
Kent Russell [aut, cre] (R interface),
Gregor Aisch [aut, cph] (d3-jetpack creator,
https://github.com/gka/d3-jetpack),
Adam Pearce [aut] (core contributor to d3-jetpack),
Ben Ortiz [ctb]
Maintainer: Kent Russell <kent.russell@timelyportfolio.com>
Diff between d3r versions 0.8.4 dated 2018-10-24 and 0.8.5 dated 2019-01-29
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/dependencies.R | 4 ++-- inst/www/d3/v5/API.md | 41 +++++++++++++++++++++++++++++++---------- inst/www/d3/v5/CHANGES.md | 2 +- inst/www/d3/v5/dist/d3.min.js | 4 ++-- man/d3_dep_jetpack.Rd | 1 + man/d3_dep_v3.Rd | 1 + man/d3_dep_v4.Rd | 1 + man/d3_dep_v5.Rd | 1 + 11 files changed, 59 insertions(+), 30 deletions(-)
Title: Customized Training for Lasso and Elastic-Net Regularized
Generalized Linear Models
Description: Customized training is a simple technique for transductive
learning, when the test covariates are known at the time of training. The
method identifies a subset of the training set to serve as the training set
for each of a few identified subsets in the training set. This package
implements customized training for the glmnet() and cv.glmnet() functions.
Author: Scott Powers, Trevor Hastie, Robert Tibshirani
Maintainer: Scott Powers <saberpowers@gmail.com>
Diff between customizedTraining versions 1.1 dated 2016-09-14 and 1.2 dated 2019-01-29
customizedTraining-1.1/customizedTraining/man/customizedTraining-package.Rd |only customizedTraining-1.2/customizedTraining/DESCRIPTION | 10 +++++----- customizedTraining-1.2/customizedTraining/MD5 | 4 ++-- customizedTraining-1.2/customizedTraining/README.md |only 4 files changed, 7 insertions(+), 7 deletions(-)
More information about customizedTraining at CRAN
Permanent link
Title: Statistical Tools for Covariance Analysis
Description: Covariance is of universal prevalence across various disciplines within statistics.
We provide a rich collection of geometric and inferential tools for convenient analysis of
covariance structures, topics including distance measures, mean covariance estimator,
covariance hypothesis test for one-sample and two-sample cases, and covariance estimation.
For an introduction to covariance in multivariate statistical analysis,
see Schervish (1987) <doi:10.1214/ss/1177013111>.
Author: Kyoungjae Lee [aut],
Lizhen Lin [ctb],
Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyou@nd.edu>
Diff between CovTools versions 0.5.0 dated 2018-09-14 and 0.5.1 dated 2019-01-29
CovTools-0.5.0/CovTools/R/BayesTest1.R |only CovTools-0.5.0/CovTools/R/CovTest1.R |only CovTools-0.5.0/CovTools/R/CovTest2.R |only CovTools-0.5.0/CovTools/R/DiagTest1.R |only CovTools-0.5.0/CovTools/R/PreEst.banded1.R |only CovTools-0.5.0/CovTools/R/PreEst.banded2.R |only CovTools-0.5.0/CovTools/R/PreEst.banded3.R |only CovTools-0.5.0/CovTools/R/fns.bayestest1.R |only CovTools-0.5.0/CovTools/R/fns.diagtest1.R |only CovTools-0.5.0/CovTools/R/fns.preest.R |only CovTools-0.5.0/CovTools/R/fns.test1.R |only CovTools-0.5.0/CovTools/R/fns.test2.R |only CovTools-0.5.0/CovTools/man/BayesTest1.Rd |only CovTools-0.5.0/CovTools/man/CovTest1.Rd |only CovTools-0.5.0/CovTools/man/CovTest2.Rd |only CovTools-0.5.0/CovTools/man/DiagTest1.Rd |only CovTools-0.5.0/CovTools/man/PreEst.banded1.Rd |only CovTools-0.5.0/CovTools/man/PreEst.banded2.Rd |only CovTools-0.5.0/CovTools/man/PreEst.banded3.Rd |only CovTools-0.5.1/CovTools/DESCRIPTION | 8 - CovTools-0.5.1/CovTools/MD5 | 54 +++++----- CovTools-0.5.1/CovTools/NAMESPACE | 17 +-- CovTools-0.5.1/CovTools/R/BCovTest1.mxPBF.R |only CovTools-0.5.1/CovTools/R/BDiagTest1.mxPBF.R |only CovTools-0.5.1/CovTools/R/CovTest1.2013Cai.R |only CovTools-0.5.1/CovTools/R/CovTest1.2014Srivastava.R |only CovTools-0.5.1/CovTools/R/CovTest2.2013Cai.R |only CovTools-0.5.1/CovTools/R/DiagTest1.2011Cai.R |only CovTools-0.5.1/CovTools/R/DiagTest1.2015Lan.R |only CovTools-0.5.1/CovTools/R/PreEst.2014An.R |only CovTools-0.5.1/CovTools/R/PreEst.2014Banerjee.R |only CovTools-0.5.1/CovTools/R/PreEst.2017Lee.R |only CovTools-0.5.1/CovTools/R/PreEst.glasso.R | 86 +++++++++++++++++ CovTools-0.5.1/CovTools/R/package-CovTools.R | 41 ++++---- CovTools-0.5.1/CovTools/README.md |only CovTools-0.5.1/CovTools/build/partial.rdb |binary CovTools-0.5.1/CovTools/man/BCovTest1.mxPBF.Rd |only CovTools-0.5.1/CovTools/man/BDiagTest1.mxPBF.Rd |only CovTools-0.5.1/CovTools/man/CovTest1.2013Cai.Rd |only CovTools-0.5.1/CovTools/man/CovTest1.2014Srivastava.Rd |only CovTools-0.5.1/CovTools/man/CovTest2.2013Cai.Rd |only CovTools-0.5.1/CovTools/man/DiagTest1.2011Cai.Rd |only CovTools-0.5.1/CovTools/man/DiagTest1.2015Lan.Rd |only CovTools-0.5.1/CovTools/man/PreEst.2014An.Rd |only CovTools-0.5.1/CovTools/man/PreEst.2014Banerjee.Rd |only CovTools-0.5.1/CovTools/man/PreEst.2017Lee.Rd |only CovTools-0.5.1/CovTools/man/PreEst.glasso.Rd | 2 CovTools-0.5.1/CovTools/man/package-CovTools.Rd | 41 ++++---- 48 files changed, 174 insertions(+), 75 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-15 0.5-9.1
2013-04-09 0.5-9
2013-02-13 0.5-7
2012-02-28 0.5-6
2012-02-24 0.5-5
2012-02-02 0.5-4
2011-11-08 0.5-3
2011-06-27 0.5-2
2011-02-20 0.5-1
2011-01-03 0.4-9
2010-10-20 0.4-8
2010-10-16 0.4-7
2010-09-29 0.4-6
2010-07-24 0.4-4
2010-06-18 0.4-3
2010-06-11 0.4-2
2010-05-29 0.4-1
2010-05-02 0.4-0
2008-11-23 0.3-6
2006-10-10 0.3-5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-08-31 0.8-5
2017-06-24 0.8-4
2016-09-07 0.8-3
2016-04-12 0.8-2
2015-04-21 0.8-1
2015-03-04 0.8-0
2014-04-22 0.2-1
2014-03-28 0.2-0
2014-03-10 0.1-9
2014-01-29 0.1-8
2013-11-23 0.1-7
2013-09-11 0.1-6
2013-03-05 0.1-5
2013-02-05 0.1-4
2013-01-16 0.1-3
2012-12-06 0.1-2
2012-11-01 0.1-1
2012-09-07 0.1-0