Title: Lookup Tables to Generate Poverty Likelihoods and Rates using
the Poverty Probability Index (PPI)
Description: The Poverty Probability Index (PPI) is a poverty measurement tool
for organizations and businesses with a mission to serve the poor. The PPI
is statistically-sound, yet simple to use: the answers to 10 questions about
a household’s characteristics and asset ownership are scored to compute the
likelihood that the household is living below the poverty line – or above by
only a narrow margin. This package contains country-specific lookup data tables
used as reference to determine the poverty likelihood of a household based
on their score from the country-specific PPI questionnaire. These lookup
tables have been extracted from documentation of the PPI found at
<https://www.povertyindex.org> and managed by Innovations for Poverty Action
<https://www.poverty-action.org>.
Author: Ernest Guevarra [aut, cre] (<https://orcid.org/0000-0002-4887-4415>)
Maintainer: Ernest Guevarra <ernestgmd@gmail.com>
Diff between ppitables versions 0.5.0 dated 2019-05-12 and 0.5.1 dated 2019-09-28
DESCRIPTION | 6 LICENSE | 2 MD5 | 208 +++++++++---------- NEWS.md | 17 + R/data.R | 414 ++++++++++++++------------------------- R/find_table.R | 2 R/get_table.R | 2 R/ppitables.R | 3 R/sysdata.rda |binary README.md | 40 ++- data/ppiGHA2019.rda |binary data/ppiMMR2019.rda |only data/ppiMOZ2019.rda |only man/find_table.Rd | 2 man/get_table.Rd | 2 man/ppiAFG2012.Rd | 4 man/ppiAGO2015.Rd | 4 man/ppiBEN2012.Rd | 4 man/ppiBFA2011.Rd | 4 man/ppiBFA2014.Rd | 4 man/ppiBFA2017.Rd | 4 man/ppiBGD2013.Rd | 4 man/ppiBOL2015.Rd | 4 man/ppiBRA2010.Rd | 4 man/ppiCIV2013.Rd | 4 man/ppiCIV2018.Rd | 4 man/ppiCMR2013.Rd | 4 man/ppiCOL2012.Rd | 4 man/ppiCOL2012_a.Rd | 4 man/ppiCOL2018.Rd | 4 man/ppiDOM2010.Rd | 4 man/ppiDOM2018.Rd | 4 man/ppiECU2015.Rd | 4 man/ppiEGY2010.Rd | 4 man/ppiETH2016.Rd | 4 man/ppiFJI2014.Rd | 4 man/ppiGHA2015.Rd | 5 man/ppiGHA2015_a.Rd | 5 man/ppiGHA2015_b.Rd | 7 man/ppiGHA2019.Rd | 4 man/ppiGTM2016.Rd | 4 man/ppiHND2010.Rd | 4 man/ppiHTI2016.Rd | 4 man/ppiIDN2012.Rd | 5 man/ppiIDN2012_a.Rd | 5 man/ppiIND2016_r59.Rd | 5 man/ppiIND2016_r62.Rd | 5 man/ppiIND2016_r66.Rd | 5 man/ppiIND2016_r68.Rd | 5 man/ppiJOR2010.Rd | 4 man/ppiKEN2011.Rd | 4 man/ppiKEN2018.Rd | 4 man/ppiKGZ2015.Rd | 4 man/ppiKHM2015.Rd | 4 man/ppiKHM2015_gov.Rd | 4 man/ppiKHM2015_wb.Rd | 4 man/ppiLKA2016.Rd | 4 man/ppiMAR2013.Rd | 4 man/ppiMDG2015.Rd | 4 man/ppiMEX2017.Rd | 5 man/ppiMEX2017_a.Rd | 5 man/ppiMLI2010.Rd | 4 man/ppiMMR2012.Rd | 4 man/ppiMMR2019.Rd |only man/ppiMNG2016.Rd | 4 man/ppiMOZ2013.Rd | 4 man/ppiMOZ2019.Rd |only man/ppiMWI2015.Rd | 5 man/ppiMWI2015_gov.Rd | 5 man/ppiMWI2015_pbm.Rd | 5 man/ppiNAM2013.Rd | 4 man/ppiNER2013.Rd | 4 man/ppiNGA2015.Rd | 4 man/ppiNIC2013.Rd | 4 man/ppiNPL2013.Rd | 5 man/ppiNPL2013_a.Rd | 5 man/ppiPAK2009.Rd | 4 man/ppiPER2012.Rd | 4 man/ppiPER2018.Rd | 4 man/ppiPHL2014.Rd | 5 man/ppiPHL2014_a.Rd | 5 man/ppiPHL2018.Rd | 4 man/ppiPRY2012.Rd | 4 man/ppiPSE2014.Rd | 4 man/ppiROU2009.Rd | 4 man/ppiRUS2010.Rd | 4 man/ppiRWA2016.Rd | 4 man/ppiSEN2009.Rd | 4 man/ppiSEN2018.Rd | 4 man/ppiSLE2011.Rd | 4 man/ppiSLV2010.Rd | 4 man/ppiSYR2010.Rd | 4 man/ppiTGO2018.Rd | 4 man/ppiTJK2015.Rd | 4 man/ppiTLS2013.Rd | 4 man/ppiTZA2016.Rd | 4 man/ppiUGA2015.Rd | 4 man/ppiVNM2009.Rd | 4 man/ppiYEM2009.Rd | 4 man/ppiZAF2009.Rd | 4 man/ppiZMB2013_cso.Rd | 4 man/ppiZMB2013_got.Rd | 4 man/ppiZMB2017.Rd | 4 man/ppiZMB2017_a.Rd | 4 man/ppitables.Rd | 13 + tests/testthat/test_find_table.R | 2 tests/testthat/test_get_table.R | 2 107 files changed, 515 insertions(+), 568 deletions(-)
Title: Spatial Data Download and Utility Functions
Description: A suite of conversion scripts to create internally standardized
spatial polygons data frames. Utility scripts use these data sets to return
values such as country, state, timezone, watershed, etc. associated with a
set of longitude/latitude pairs. (They also make cool maps.)
Author: Jonathan Callahan [aut, cre],
Tom Bergamaschi [aut],
Ruby Fore [aut],
Will Leahy [aut],
Helen Miller [aut],
Henry Nguyen [aut],
Robin Winstanley [aut],
Alice Yang [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaSpatialUtils versions 0.6.1 dated 2019-01-30 and 0.6.4 dated 2019-09-28
DESCRIPTION | 9 - MD5 | 164 +++++++++++++------------- NAMESPACE | 3 NEWS.md | 190 ++++++++++++++++--------------- R/MazamaSpatialUtils.R | 169 ++++++++++++++++++--------- R/convertNaturalEarthAdm1.R | 2 R/convertStateLegislativeDistricts.R | 3 R/getCountry.R | 57 ++++++--- R/getCountryCode.R | 59 ++++++--- R/getCountryName.R | 57 ++++++--- R/getHUC.R | 49 +++++-- R/getHUCName.R | 52 +++++--- R/getPolygonID.R | 25 ++-- R/getSpatialData.R | 165 ++++++++++++++++---------- R/getState.R | 57 ++++++--- R/getStateCode.R | 57 ++++++--- R/getStateName.R | 57 ++++++--- R/getTimezone.R | 55 +++++--- R/getUSCounty.R | 57 ++++++--- R/getVariable.R | 69 +++++++---- R/installSpatialData.R | 18 +- R/loadSpatialData.R | 36 ++++- R/organizePolygons.R | 56 +++++---- R/runExample.R | 22 ++- R/subsetHUC.R | 41 +++--- R/summarizeByPolygon.R | 37 ++++-- R/utils-pipe.R |only build/vignette.rds |binary data/SimpleCountries.RData |binary data/SimpleCountriesEEZ.RData |binary data/SimpleTimezones.RData |binary data/US_stateCodes.RData |binary inst/doc/MazamaSpatialUtils.html | 15 +- man/CONUS.Rd | 4 man/MazamaSpatialUtils.Rd | 5 man/SimpleCountries.Rd | 2 man/SimpleCountriesEEZ.Rd | 2 man/SimpleTimezones.Rd | 2 man/SpatialDataDir.Rd | 2 man/US_52.Rd | 4 man/US_stateCodes.Rd | 2 man/codeToCountry.Rd | 5 man/codeToState.Rd | 8 - man/convertNaturalEarthAdm1.Rd | 2 man/countryToCode.Rd | 5 man/dissolve.Rd | 9 - man/getCountry.Rd | 15 +- man/getCountryCode.Rd | 15 +- man/getCountryName.Rd | 15 +- man/getHUC.Rd | 6 man/getHUCName.Rd | 6 man/getPolygonID.Rd | 15 +- man/getSpatialData.Rd | 19 +-- man/getSpatialDataDir.Rd | 2 man/getState.Rd | 15 +- man/getStateCode.Rd | 15 +- man/getStateName.Rd | 15 +- man/getTimezone.Rd | 13 +- man/getUSCounty.Rd | 21 +-- man/getVariable.Rd | 14 +- man/installSpatialData.Rd | 6 man/iso2ToIso3.Rd | 5 man/iso3ToIso2.Rd | 5 man/loadSpatialData.Rd | 14 +- man/organizePolygons.Rd | 4 man/pipe.Rd |only man/removeSpatialDataDir.Rd | 2 man/runExample.Rd | 8 - man/setSpatialDataDir.Rd | 2 man/simplify.Rd | 4 man/stateToCode.Rd | 8 - man/subsetHUC.Rd | 21 +-- tests/testthat.R | 13 -- tests/testthat/test-MazamaSpatialUtils.R | 21 ++- tests/testthat/test-getCountry.R | 1 tests/testthat/test-getCountryName.R | 1 tests/testthat/test-getHUC.R | 27 +++- tests/testthat/test-getHUCName.R | 27 +++- tests/testthat/test-getState.R | 30 +++- tests/testthat/test-getStateCode.R | 30 +++- tests/testthat/test-getStateName.R | 30 +++- tests/testthat/test-getUSCounty.R | 33 ++++- tests/testthat/test-getVariable.R | 3 tests/testthat/test-summarizePolygons.R | 21 ++- 84 files changed, 1316 insertions(+), 819 deletions(-)
More information about MazamaSpatialUtils at CRAN
Permanent link
Title: Data Used to Illustrate 'Loon' Functionality
Description: Data used as examples in the 'loon' package.
Author: R. Wayne Oldford [aut, cre],
Adrian Waddell [aut]
Maintainer: R. Wayne Oldford <rwoldford@uwaterloo.ca>
Diff between loon.data versions 0.0.5 dated 2019-07-18 and 0.0.6 dated 2019-09-28
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/alaska_forest.R | 6 +++--- data/alaska_forest.rda |binary man/alaska_forest.Rd | 6 +++--- 6 files changed, 18 insertions(+), 14 deletions(-)
Title: Stepwise Elimination and Term Reordering for Mixed-Effects
Regression
Description: Finds the largest possible regression model that will still converge
for various types of regression analyses (including mixed models and generalized
additive models) and then optionally performs stepwise elimination similar to the
forward and backward effect-selection methods in SAS, based on the change in
log-likelihood or its significance, Akaike's Information Criterion, or the Bayesian
Information Criterion.
Author: Cesko C. Voeten [aut, cre] (<https://orcid.org/0000-0003-4687-9973>)
Maintainer: Cesko C. Voeten <cvoeten@gmail.com>
Diff between buildmer versions 1.2.1 dated 2019-09-03 and 1.3 dated 2019-09-28
ChangeLog | 20 +++++- DESCRIPTION | 17 ++--- MD5 | 41 ++++++------ NAMESPACE | 1 R/buildmer-S4.R | 8 +- R/buildmer-private.R | 36 ++++++----- R/buildmer.R | 150 +++++++++++++++++++++++++++++++++-------------- R/directions.R | 88 ++++++++++++++++----------- R/fitters.R | 90 ++++++++++++++++++++++------ R/patchers.R | 11 +++ R/utility.R | 1 inst/doc/buildmer.Rmd | 6 - inst/doc/buildmer.pdf |binary man/buildGLMMadaptive.Rd |only man/buildbam.Rd | 2 man/buildgam.Rd | 2 man/buildgamm4.Rd | 5 + man/buildgls.Rd | 2 man/buildlme.Rd | 24 ++++--- man/buildmer.Rd | 14 +++- man/buildmertree.Rd | 19 +++-- vignettes/buildmer.Rmd | 6 - 22 files changed, 372 insertions(+), 171 deletions(-)
Title: Retail Shopping Data
Description: Retail shopping transactions for 2,469 households over one year.
Originates from the 84.51° Complete Journey 2.0 source files
<https://www.8451.com/area51> which also includes useful metadata on
products, coupons, campaigns, and promotions.
Author: Brad Boehmke [aut, cre] (<https://orcid.org/0000-0002-3611-8516>),
Steven M. Mortimer [aut]
Maintainer: Brad Boehmke <bradleyboehmke@gmail.com>
Diff between completejourney versions 1.0.0 dated 2019-08-23 and 1.1.0 dated 2019-09-28
DESCRIPTION | 8 +++--- MD5 | 52 +++++++++++++++++++++++---------------- NEWS.md | 23 ++++++++++++----- R/campaign_descriptions.R | 5 ++- R/campaigns.R | 5 ++- R/coupon_redemptions.R | 5 --- R/coupons.R | 7 +++-- R/demographics.R | 7 +++-- R/products.R | 7 +++-- R/promotions.R | 9 +++--- R/transactions.R | 7 +++-- R/utils.R | 7 +++++ README.md | 28 +++++++++++++-------- data |only inst/doc/completejourney.html | 10 +++++-- man/campaign_descriptions.Rd | 7 +++++ man/campaigns.Rd | 7 +++++ man/coupon_redemptions.Rd | 4 +++ man/coupons.Rd | 9 ++++++ man/demographics.Rd | 9 ++++++ man/products.Rd | 9 ++++++ man/promotions_sample.Rd | 11 ++++++-- man/transactions_sample.Rd | 9 ++++++ tests/testthat/test_dimensions.R |only 24 files changed, 171 insertions(+), 74 deletions(-)
More information about completejourney at CRAN
Permanent link
Title: Child Anthropometry z-Score Calculator
Description: A tool for calculating z-scores and centiles for weight-for-age,
length/height-for-age, weight-for-length/height, BMI-for-age,
head circumference-for-age, age circumference-for-age,
subscapular skinfold-for-age, triceps skinfold-for-age based on the
WHO Child Growth Standards.
Author: Mark Myatt [aut],
Ernest Guevarra [aut, cre] (<https://orcid.org/0000-0002-4887-4415>)
Maintainer: Ernest Guevarra <ernestgmd@gmail.com>
Diff between zscorer versions 0.2.0 dated 2018-11-26 and 0.3.0 dated 2019-09-28
zscorer-0.2.0/zscorer/data/wgsrData.rda |only zscorer-0.2.0/zscorer/inst/zscorer/zscorer.png |only zscorer-0.2.0/zscorer/man/wgsrData.Rd |only zscorer-0.3.0/zscorer/DESCRIPTION | 10 zscorer-0.3.0/zscorer/MD5 | 60 ++--- zscorer-0.3.0/zscorer/NAMESPACE | 1 zscorer-0.3.0/zscorer/NEWS.md | 14 + zscorer-0.3.0/zscorer/R/addWGSR.R | 220 ++++++++----------- zscorer-0.3.0/zscorer/R/getAllWGS.R | 113 ++------- zscorer-0.3.0/zscorer/R/getCohortWGS.R | 1 zscorer-0.3.0/zscorer/R/getWGS.R | 1 zscorer-0.3.0/zscorer/R/runApp.R | 9 zscorer-0.3.0/zscorer/R/sysdata.rda |only zscorer-0.3.0/zscorer/R/zscorer.R | 64 +---- zscorer-0.3.0/zscorer/README.md | 21 + zscorer-0.3.0/zscorer/build/vignette.rds |binary zscorer-0.3.0/zscorer/data/wgsData.rda |binary zscorer-0.3.0/zscorer/inst/doc/anthropometry.html | 13 - zscorer-0.3.0/zscorer/inst/doc/calculate_zscore.html | 165 ++++++++------ zscorer-0.3.0/zscorer/inst/zscorer/ui.R | 2 zscorer-0.3.0/zscorer/man/addWGSR.Rd | 114 ++++----- zscorer-0.3.0/zscorer/man/anthro1.Rd | 2 zscorer-0.3.0/zscorer/man/anthro2.Rd | 3 zscorer-0.3.0/zscorer/man/anthro3.Rd | 2 zscorer-0.3.0/zscorer/man/figures/zscorer.png |binary zscorer-0.3.0/zscorer/man/getAllWGS.Rd | 3 zscorer-0.3.0/zscorer/man/getCohortWGS.Rd | 3 zscorer-0.3.0/zscorer/man/getWGS.Rd | 3 zscorer-0.3.0/zscorer/man/getWGSR.Rd | 107 ++++----- zscorer-0.3.0/zscorer/man/run_zscorer.Rd | 6 zscorer-0.3.0/zscorer/man/wgsData.Rd | 2 zscorer-0.3.0/zscorer/man/zscorer.Rd | 34 ++ zscorer-0.3.0/zscorer/tests/testthat/test_getWGSR.R | 57 ++++ 33 files changed, 528 insertions(+), 502 deletions(-)
Title: Wrap R Tools for Debugging and Parametric Programming
Description: Tools for writing and debugging R code. Provides:
'%.>%' dot-pipe (an 'S3' configurable pipe),
'let()'
(converts non-standard evaluation interfaces to parametric standard
evaluation interfaces, inspired by 'gtools:strmacro()' and 'base::bquote()'),
'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 1.8.9 dated 2019-07-24 and 1.9.0 dated 2019-09-28
DESCRIPTION | 8 ++++---- MD5 | 39 +++++++++++++++++++++++---------------- NAMESPACE | 6 ++++++ NEWS.md | 4 ++++ R/locum.R |only inst/doc/CornerCases.html | 10 +++++++--- inst/doc/DebugFnW.html | 12 ++++++++---- inst/doc/FrameTools.html | 10 +++++++--- inst/doc/Function_Objects.html | 10 +++++++--- inst/doc/Named_Arguments.html | 10 +++++++--- inst/doc/QuotingConcatinate.html | 10 +++++++--- inst/doc/SubstitutionModes.html | 10 +++++++--- inst/doc/bquote.html | 12 ++++++++---- inst/doc/dot_pipe.html | 10 +++++++--- inst/doc/lambda.html | 10 +++++++--- inst/doc/let.html | 10 +++++++--- inst/doc/named_map_builder.html | 10 +++++++--- inst/doc/wrapr_applicable.html | 10 +++++++--- man/apply_left.locum.Rd |only man/apply_right.locum.Rd |only man/as.character.locum.Rd |only man/format.locum.Rd |only man/locum.Rd |only man/print.locum.Rd |only 24 files changed, 130 insertions(+), 61 deletions(-)
Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.5.8 dated 2019-09-12 and 1.5.9 dated 2019-09-28
SSDforR-1.5.8/SSDforR/R/IRD.R |only SSDforR-1.5.8/SSDforR/man/ird.rd |only SSDforR-1.5.9/SSDforR/DESCRIPTION | 10 +++---- SSDforR-1.5.9/SSDforR/MD5 | 14 +++++---- SSDforR-1.5.9/SSDforR/NAMESPACE | 3 -- SSDforR-1.5.9/SSDforR/R/IRDabove.R |only SSDforR-1.5.9/SSDforR/R/IRDbelow.R |only SSDforR-1.5.9/SSDforR/R/PANDabove.R | 48 +++++++++++++++++----------------- SSDforR-1.5.9/SSDforR/R/PANDbelow.R | 48 +++++++++++++++++----------------- SSDforR-1.5.9/SSDforR/man/IRDabove.Rd |only SSDforR-1.5.9/SSDforR/man/IRDbelow.Rd |only 11 files changed, 64 insertions(+), 59 deletions(-)
Title: Functions for Epidemiological Analysis using Population Data
Description: Enables computation of epidemiological statistics, including those
where counts or mortality rates of the reference population are used.
Currently supported: excess hazard models, rates, mean survival times,
relative survival, and standardized incidence and mortality ratios
(SIRs/SMRs), all of which can be easily adjusted for by covariates such as
age. Fast splitting and aggregation of 'Lexis' objects (from package 'Epi')
and other computations achieved using 'data.table'.
Author: Joonas Miettinen [cre, aut] (<https://orcid.org/0000-0001-8624-6754>),
Matti Rantanen [aut],
Karri Seppa [ctb]
Maintainer: Joonas Miettinen <joonas.miettinen@cancer.fi>
Diff between popEpi versions 0.4.7 dated 2019-03-18 and 0.4.8 dated 2019-09-28
DESCRIPTION | 22 +- MD5 | 82 +++++----- NAMESPACE | 1 NEWS.md | 97 ++++++++--- R/S3_definitions.R | 1 R/Surv.R |only R/data_document.R | 3 R/mean_survival.R | 5 R/nse2.R |only R/relative_poisson_net_survival.R | 34 ++-- R/splitMulti.R | 7 R/splitting_utility_functions.R | 26 ++- R/survival_lexis.R | 6 R/weighted_table.R | 1 build/vignette.rds |binary inst/doc/sir.html | 244 ++++++++++++++++++++++++++--- inst/doc/survtab_examples.R | 1 inst/doc/survtab_examples.Rmd | 1 inst/doc/survtab_examples.html | 269 ++++++++++++++++++++++++++++----- man/Surv.Rd |only man/lines.survmean.Rd | 4 man/lines.survtab.Rd | 4 man/makeWeightsDT.Rd | 1 man/meanpop_fi.Rd | 2 man/plot.survmean.Rd | 4 man/plot.survtab.Rd | 4 man/print.survtab.Rd | 4 man/rate.Rd | 9 - man/relpois.Rd | 9 - man/relpois_ag.Rd | 9 - man/sir.Rd | 9 - man/sirspline.Rd | 9 - man/splitMulti.Rd | 7 man/summary.survtab.Rd | 8 man/survmean.Rd | 14 - man/survtab.Rd | 17 +- man/survtab_ag.Rd | 14 - tests/testthat/test_Surv.R |only tests/testthat/test_survmean.R | 1 tests/testthat/test_survtab_observed.R | 18 +- tests/testthat/test_survtab_relative.R | 6 tests/testthat/test_survtab_usage.R | 9 - tests/testthat/test_utils.R | 1 vignettes/survtab_examples.Rmd | 1 44 files changed, 711 insertions(+), 253 deletions(-)
Title: Sensitivity Analysis of Neural Networks
Description: Analysis functions to quantify inputs importance in neural network models.
Functions are available for calculating and plotting the inputs importance and obtaining
the activation function of each neuron layer and its derivatives. The importance of a given
input is defined as the distribution of the derivatives of the output with respect to that
input in each training data point.
Author: José Portela González [aut],
Antonio Muñoz San Roque [aut],
Jaime Pizarroso Gonzalo [ctb, cre]
Maintainer: Jaime Pizarroso Gonzalo <jpizarroso@alu.comillas.edu>
Diff between NeuralSens versions 0.0.7 dated 2019-09-13 and 0.0.8 dated 2019-09-28
DESCRIPTION | 6 - MD5 | 16 ++- NAMESPACE | 3 R/SensAnalysisMLP.R | 192 ++++++++++++++++++++--------------------------- R/SensTimePlot.R |only R/SensitivityPlots.R |only R/data.R | 28 ++++++ data/syntheticdata.rdata |only man/SensAnalysisMLP.Rd | 35 +++++--- man/SensTimePlot.Rd |only man/SensitivityPlots.Rd |only man/syntheticdata.Rd |only 12 files changed, 150 insertions(+), 130 deletions(-)
Title: Exploratory Graphics for Pharmacometrics
Description: Supports a structured approach
for exploring PKPD data <https://opensource.nibr.com/xgx>. It also
contains helper functions for enabling the modeler to follow best R
practices (by appending the program name, figure name location, and
draft status to each plot). In addition, it enables the modeler to
follow best graphical practices (by providing a theme that
reduces chart ink, and by providing time-scale, log-scale, and
reverse-log-transform-scale functions for more readable axes).
Finally, it provides some data checking and summarizing functions for
rapidly exploring pharmacokinetics and pharmacodynamics (PKPD) datasets.
Author: Andrew Stein [aut, cre],
Alison Margolskee [aut],
Fariba Khanshan [aut],
Konstantin Krismer [aut] (<https://orcid.org/0000-0001-8994-3416>),
Matthew Fidler [ctb] (<https://orcid.org/0000-0001-8538-6691>),
Novartis Pharma AG [cph, fnd]
Maintainer: Andrew Stein <andy.stein@gmail.com>
Diff between xgxr versions 1.0.2 dated 2019-08-21 and 1.0.3 dated 2019-09-28
DESCRIPTION | 8 MD5 | 26 +- NEWS | 6 data/case1_pkpd.rda |binary data/mad.rda |binary data/mad_missing_duplicates.rda |binary data/mad_nca.rda |binary data/nlmixr_theo_sd.rda |binary data/sad.rda |binary inst/doc/sad_pkpd.html | 460 +++++++++++++++++++-------------------- inst/doc/theoph.html | 470 ++++++++++++++++++++-------------------- inst/doc/xgxr_overview.Rmd | 4 inst/doc/xgxr_overview.html | 309 +++++++++++++------------- vignettes/xgxr_overview.Rmd | 4 14 files changed, 641 insertions(+), 646 deletions(-)
Title: Exact Sequential Analysis for Poisson and Binomial Data
Description: Functions to calculate exact critical values, statistical power, expected time to signal, and required sample sizes for performing exact sequential analysis. All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled.
Author: Ivair Ramos Silva and Martin Kulldorff
Maintainer: Ivair Ramos Silva <jamesivair@yahoo.com.br>
Diff between Sequential versions 3.0.1 dated 2019-02-08 and 3.1 dated 2019-09-28
Sequential-3.0.1/Sequential/R/CV.G.Binomial.R |only Sequential-3.0.1/Sequential/R/CV.G.Poisson.R |only Sequential-3.0.1/Sequential/R/Performance.G.Binomial.R |only Sequential-3.0.1/Sequential/R/Performance.G.Poisson.R |only Sequential-3.0.1/Sequential/man/CV.G.Binomial.Rd |only Sequential-3.0.1/Sequential/man/CV.G.Poisson.Rd |only Sequential-3.0.1/Sequential/man/Performance.G.Binomial.Rd |only Sequential-3.0.1/Sequential/man/Performance.G.Poisson.Rd |only Sequential-3.1/Sequential/DESCRIPTION | 8 Sequential-3.1/Sequential/MD5 | 88 - Sequential-3.1/Sequential/NAMESPACE | 2 Sequential-3.1/Sequential/R/Analyze.wBinomial.R | 14 Sequential-3.1/Sequential/R/AnalyzeSetUp.Binomial.R | 4 Sequential-3.1/Sequential/R/AnalyzeSetUp.CondPoisson.R | 3 Sequential-3.1/Sequential/R/AnalyzeSetUp.Poisson.R | 4 Sequential-3.1/Sequential/R/AnalyzeSetUp.wBinomial.R | 2 Sequential-3.1/Sequential/R/CV.Binomial.R | 242 ++ Sequential-3.1/Sequential/R/CV.CondPoisson.R | 3 Sequential-3.1/Sequential/R/CV.Poisson.R | 865 +++++++++- Sequential-3.1/Sequential/R/Performance.AlphaSpend.Binomial.R |only Sequential-3.1/Sequential/R/Performance.AlphaSpend.CondPoisson.R |only Sequential-3.1/Sequential/R/Performance.AlphaSpend.Poisson.R |only Sequential-3.1/Sequential/R/Performance.Binomial.R | 178 ++ Sequential-3.1/Sequential/R/Performance.CondPoisson.R | 6 Sequential-3.1/Sequential/R/Performance.Poisson.R | 670 +++++++ Sequential-3.1/Sequential/R/Performance.Threshold.Binomial.R |only Sequential-3.1/Sequential/R/Performance.Threshold.CondPoisson.R |only Sequential-3.1/Sequential/R/Performance.Threshold.Poisson.R |only Sequential-3.1/Sequential/R/SampleSize.Binomial.R | 3 Sequential-3.1/Sequential/R/SampleSize.CondPoisson.R | 6 Sequential-3.1/Sequential/R/SampleSize.Poisson.R | 38 Sequential-3.1/Sequential/man/Analyze.Binomial.Rd | 3 Sequential-3.1/Sequential/man/Analyze.CondPoisson.Rd | 12 Sequential-3.1/Sequential/man/Analyze.Poisson.Rd | 2 Sequential-3.1/Sequential/man/Analyze.wBinomial.Rd | 2 Sequential-3.1/Sequential/man/AnalyzeSetUp.Binomial.Rd | 3 Sequential-3.1/Sequential/man/AnalyzeSetUp.CondPoisson.Rd | 25 Sequential-3.1/Sequential/man/AnalyzeSetUp.Poisson.Rd | 3 Sequential-3.1/Sequential/man/AnalyzeSetUp.wBinomial.Rd | 4 Sequential-3.1/Sequential/man/CV.Binomial.Rd | 42 Sequential-3.1/Sequential/man/CV.CondPoisson.Rd | 7 Sequential-3.1/Sequential/man/CV.Poisson.Rd | 20 Sequential-3.1/Sequential/man/Performance.AlphaSpend.Binomial.Rd |only Sequential-3.1/Sequential/man/Performance.AlphaSpend.CondPoisson.Rd |only Sequential-3.1/Sequential/man/Performance.AlphaSpend.Poisson.Rd |only Sequential-3.1/Sequential/man/Performance.Binomial.Rd | 34 Sequential-3.1/Sequential/man/Performance.CondPoisson.Rd | 7 Sequential-3.1/Sequential/man/Performance.Poisson.Rd | 30 Sequential-3.1/Sequential/man/Performance.Threshold.Binomial.Rd |only Sequential-3.1/Sequential/man/Performance.Threshold.CondPoisson.Rd |only Sequential-3.1/Sequential/man/Performance.Threshold.Poisson.Rd |only Sequential-3.1/Sequential/man/SampleSize.Binomial.Rd | 3 Sequential-3.1/Sequential/man/SampleSize.CondPoisson.Rd | 7 Sequential-3.1/Sequential/man/SampleSize.Poisson.Rd | 5 Sequential-3.1/Sequential/man/Sequential-package.Rd | 102 - 55 files changed, 2216 insertions(+), 231 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp and Paule-Mandel method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression;
- generalised linear mixed models;
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 4.9-6 dated 2019-08-06 and 4.9-7 dated 2019-09-28
DESCRIPTION | 10 - MD5 | 46 +++--- NEWS | 21 +++ R/forest.R | 22 ++- R/metabin.R | 207 ++++++++++++++++------------- R/metacont.R | 3 R/metacor.R | 3 R/metagen.R | 57 ++++++-- R/metainc.R | 126 +++++++++--------- R/metamean.R | 3 R/metaprop.R | 362 +++++++++++++++++++++++++++++++--------------------- R/metarate.R | 311 +++++++++++++++++++++++++++----------------- R/subgroup.R | 130 ++++++++++++++---- R/summary.meta.R | 3 man/forest.Rd | 6 man/metabin.Rd | 131 ++++++++++-------- man/metacont.Rd | 3 man/metacor.Rd | 3 man/metagen.Rd | 57 ++++++-- man/metainc.Rd | 54 +++---- man/metamean.Rd | 3 man/metaprop.Rd | 276 ++++++++++++++++++++++++--------------- man/metarate.Rd | 236 +++++++++++++++++++++------------ man/summary.meta.Rd | 3 24 files changed, 1280 insertions(+), 796 deletions(-)
Title: A Package for Graphical Modelling in R
Description: The 'gRbase' package provides graphical modelling features
used by e.g. the packages 'gRain', 'gRim' and 'gRc'.
'gRbase' contains data sets relevant for use in connection with
graphical models (in particular all data sets used in the book Graphical
Models with R (2012)).
'gRbase' implements graph algorithms including
(i) maximum cardinality search (for marked and unmarked graphs).
(ii) moralize.
(iii) triangulate.
(iv) junction tree.
'gRbase' facilitates array operations,
'gRbase' implements functions for testing for conditional independence.
'gRbase' illustrates how hierarchical log-linear models may be
implemented and describes concept of graphical meta
data. These features, however, are not maintained anymore and
remains in 'gRbase' only because there exists a paper describing
these facilities: A Common Platform for Graphical Models in R:
The 'gRbase' Package, Journal of Statistical Software, Vol 14,
No 17, 2005.
NOTICE 'gRbase' requires that the packages graph,
'Rgraphviz' and 'RBGL' are installed from 'bioconductor'; for
installation instructions please refer to the web page given below.
Author: Søren Højsgaard <sorenh@math.aau.dk>
Maintainer: Søren Højsgaard <sorenh@math.aau.dk>
Diff between gRbase versions 1.8-3.4 dated 2018-08-07 and 1.8-4.5 dated 2019-09-28
gRbase-1.8-3.4/gRbase/R/gRbase-internal.R |only gRbase-1.8-3.4/gRbase/R/gRbase-package.R |only gRbase-1.8-3.4/gRbase/R/graph-triang.R |only gRbase-1.8-3.4/gRbase/R/graph-xxx2yyy.R |only gRbase-1.8-3.4/gRbase/R/t_arDist.R |only gRbase-1.8-3.4/gRbase/R/t_array-algebra.R |only gRbase-1.8-3.4/gRbase/R/t_array-create.R |only gRbase-1.8-3.4/gRbase/R/t_array-lowlevel-ops.R |only gRbase-1.8-3.4/gRbase/R/t_array-operations.R |only gRbase-1.8-3.4/gRbase/R/t_array-properties.R |only gRbase-1.8-3.4/gRbase/R/t_array-simulate-R.R |only gRbase-1.8-3.4/gRbase/R/t_array-slice.R |only gRbase-1.8-3.4/gRbase/R/u_utilities-c.R |only gRbase-1.8-3.4/gRbase/inst/doc/gRbase-arrays.R |only gRbase-1.8-3.4/gRbase/inst/doc/gRbase-arrays.Rnw |only gRbase-1.8-3.4/gRbase/inst/doc/gRbase-arrays.pdf |only gRbase-1.8-3.4/gRbase/inst/doc/gRbase-graphs.R |only gRbase-1.8-3.4/gRbase/inst/doc/gRbase-graphs.Rnw |only gRbase-1.8-3.4/gRbase/inst/doc/gRbase-graphs.pdf |only gRbase-1.8-3.4/gRbase/man/BodyFat.Rd |only gRbase-1.8-3.4/gRbase/man/Nutrimouse.Rd |only gRbase-1.8-3.4/gRbase/man/ashtrees.Rd |only gRbase-1.8-3.4/gRbase/man/breastcancer.Rd |only gRbase-1.8-3.4/gRbase/man/cad.Rd |only gRbase-1.8-3.4/gRbase/man/carcass.Rd |only gRbase-1.8-3.4/gRbase/man/chestSim.Rd |only gRbase-1.8-3.4/gRbase/man/combnPrim.Rd |only gRbase-1.8-3.4/gRbase/man/dietox.Rd |only gRbase-1.8-3.4/gRbase/man/dumping.Rd |only gRbase-1.8-3.4/gRbase/man/gRbase-internal.Rd |only gRbase-1.8-3.4/gRbase/man/gRbase-utilities.Rd |only gRbase-1.8-3.4/gRbase/man/graph-minimaltriang.Rd |only gRbase-1.8-3.4/gRbase/man/graph-triang.Rd |only gRbase-1.8-3.4/gRbase/man/graph-xxx2yyy.Rd |only gRbase-1.8-3.4/gRbase/man/lizard.Rd |only gRbase-1.8-3.4/gRbase/man/mathmark.Rd |only gRbase-1.8-3.4/gRbase/man/mildew.Rd |only gRbase-1.8-3.4/gRbase/man/milkcomp.Rd |only gRbase-1.8-3.4/gRbase/man/old-array-operations.Rd |only gRbase-1.8-3.4/gRbase/man/old-parray.Rd |only gRbase-1.8-3.4/gRbase/man/rats.Rd |only gRbase-1.8-3.4/gRbase/man/reinis.Rd |only gRbase-1.8-3.4/gRbase/man/removeRedundant.Rd |only gRbase-1.8-3.4/gRbase/man/simulateArray.Rd |only gRbase-1.8-3.4/gRbase/man/wine.Rd |only gRbase-1.8-3.4/gRbase/src/_g_triangulateMAT.cpp |only gRbase-1.8-3.4/gRbase/src/_m_MAT2ftM.cpp |only gRbase-1.8-3.4/gRbase/src/_m_matrix2dgCMatrix.cpp |only gRbase-1.8-3.4/gRbase/src/_m_misc.cpp |only gRbase-1.8-3.4/gRbase/src/_m_rowmat2list.cpp |only gRbase-1.8-3.4/gRbase/src/_m_ugdag2MAT.cpp |only gRbase-1.8-3.4/gRbase/src/_t_array_properties.cpp |only gRbase-1.8-3.4/gRbase/src/_t_array_properties.h |only gRbase-1.8-3.4/gRbase/src/_t_arrayops.c |only gRbase-1.8-3.4/gRbase/src/_t_tableCell.cpp |only gRbase-1.8-3.4/gRbase/src/_t_tableClass.cpp |only gRbase-1.8-3.4/gRbase/src/_t_tableCore.cpp |only gRbase-1.8-3.4/gRbase/src/_t_tableCore.h |only gRbase-1.8-3.4/gRbase/src/_u_setops.c |only gRbase-1.8-3.4/gRbase/src/_u_utilities.c |only gRbase-1.8-3.4/gRbase/src/_u_utility.cpp |only gRbase-1.8-3.4/gRbase/src/allSubsets.cpp |only gRbase-1.8-3.4/gRbase/src/mcsMAT2.h |only gRbase-1.8-3.4/gRbase/src/names2pairsM.cpp |only gRbase-1.8-3.4/gRbase/src/toBeRemoved.cpp |only gRbase-1.8-3.4/gRbase/vignettes/gRbase-arrays.Rnw |only gRbase-1.8-3.4/gRbase/vignettes/gRbase-graphs.Rnw |only gRbase-1.8-3.4/gRbase/vignettes/gRbase.bib |only gRbase-1.8-4.5/gRbase/ChangeLog | 26 gRbase-1.8-4.5/gRbase/DESCRIPTION | 34 gRbase-1.8-4.5/gRbase/MD5 | 323 +-- gRbase-1.8-4.5/gRbase/NAMESPACE | 363 ++-- gRbase-1.8-4.5/gRbase/R/RcppExports.R | 589 +++--- gRbase-1.8-4.5/gRbase/R/combnC-c.R | 88 gRbase-1.8-4.5/gRbase/R/data-description.R | 91 - gRbase-1.8-4.5/gRbase/R/gRbase-utilities.R | 265 +-- gRbase-1.8-4.5/gRbase/R/graph-coerce-api.R |only gRbase-1.8-4.5/gRbase/R/graph-coerce-list.R |only gRbase-1.8-4.5/gRbase/R/graph-coerce-misc.R |only gRbase-1.8-4.5/gRbase/R/graph-coerce.R | 262 ++ gRbase-1.8-4.5/gRbase/R/graph-create-ugdag.R | 56 gRbase-1.8-4.5/gRbase/R/graph-mcs.R | 62 gRbase-1.8-4.5/gRbase/R/graph-mintriang.R | 197 +- gRbase-1.8-4.5/gRbase/R/graph-moralize.R | 6 gRbase-1.8-4.5/gRbase/R/graph-mpd.R | 8 gRbase-1.8-4.5/gRbase/R/graph-properties.R | 103 - gRbase-1.8-4.5/gRbase/R/graph-querygraph.R | 45 gRbase-1.8-4.5/gRbase/R/graph-rip.R | 175 - gRbase-1.8-4.5/gRbase/R/graph-topoSort.R | 95 - gRbase-1.8-4.5/gRbase/R/graph-triangulate.R | 154 + gRbase-1.8-4.5/gRbase/R/graph-utilities.R | 163 + gRbase-1.8-4.5/gRbase/R/internal.R |only gRbase-1.8-4.5/gRbase/R/processFormula.R | 64 gRbase-1.8-4.5/gRbase/R/t_array-operations-bristol.R | 42 gRbase-1.8-4.5/gRbase/R/t_array-parray.R | 115 - gRbase-1.8-4.5/gRbase/R/t_array_api_cpp.R |only gRbase-1.8-4.5/gRbase/R/t_array_cell_cpp.R |only gRbase-1.8-4.5/gRbase/R/t_array_core_algebra_cpp.R |only gRbase-1.8-4.5/gRbase/R/t_array_core_operations_cpp.R |only gRbase-1.8-4.5/gRbase/R/t_array_create.R |only gRbase-1.8-4.5/gRbase/R/t_array_misc.R |only gRbase-1.8-4.5/gRbase/R/t_array_properties_cpp.R |only gRbase-1.8-4.5/gRbase/R/t_array_simulate.R |only gRbase-1.8-4.5/gRbase/R/t_array_slice.R |only gRbase-1.8-4.5/gRbase/R/u_setops-c.R | 374 +++- gRbase-1.8-4.5/gRbase/R/xxx_downstream.R |only gRbase-1.8-4.5/gRbase/R/yyOLD-gRbase.R | 20 gRbase-1.8-4.5/gRbase/R/yyyPrim.R | 22 gRbase-1.8-4.5/gRbase/R/zzz.R |only gRbase-1.8-4.5/gRbase/README.md | 4 gRbase-1.8-4.5/gRbase/build/vignette.rds |binary gRbase-1.8-4.5/gRbase/data/BodyFat.RData |binary gRbase-1.8-4.5/gRbase/data/Nutrimouse.rda |binary gRbase-1.8-4.5/gRbase/data/ashtrees.RData |binary gRbase-1.8-4.5/gRbase/data/breastcancer.rda |binary gRbase-1.8-4.5/gRbase/data/cad1.RData |binary gRbase-1.8-4.5/gRbase/data/cad2.RData |binary gRbase-1.8-4.5/gRbase/data/carcass.RData |binary gRbase-1.8-4.5/gRbase/data/carcassall.RData |binary gRbase-1.8-4.5/gRbase/data/chestSim1000.RData |binary gRbase-1.8-4.5/gRbase/data/chestSim10000.rda |binary gRbase-1.8-4.5/gRbase/data/chestSim100000.rda |binary gRbase-1.8-4.5/gRbase/data/chestSim500.RData |binary gRbase-1.8-4.5/gRbase/data/chestSim50000.rda |binary gRbase-1.8-4.5/gRbase/data/dietox.RData |binary gRbase-1.8-4.5/gRbase/data/dumping.RData |binary gRbase-1.8-4.5/gRbase/data/lizard.RData |binary gRbase-1.8-4.5/gRbase/data/math.RData |binary gRbase-1.8-4.5/gRbase/data/mathmark.RData |binary gRbase-1.8-4.5/gRbase/data/mildew.RData |binary gRbase-1.8-4.5/gRbase/data/milkcomp.RData |binary gRbase-1.8-4.5/gRbase/data/milkcomp1.RData |binary gRbase-1.8-4.5/gRbase/data/rats.RData |binary gRbase-1.8-4.5/gRbase/data/reinis.RData |binary gRbase-1.8-4.5/gRbase/data/wine.RData |binary gRbase-1.8-4.5/gRbase/inst/doc/grbase-arrays.R |only gRbase-1.8-4.5/gRbase/inst/doc/grbase-arrays.Rnw |only gRbase-1.8-4.5/gRbase/inst/doc/grbase-arrays.pdf |only gRbase-1.8-4.5/gRbase/inst/doc/grbase-graphs.R |only gRbase-1.8-4.5/gRbase/inst/doc/grbase-graphs.Rnw |only gRbase-1.8-4.5/gRbase/inst/doc/grbase-graphs.pdf |only gRbase-1.8-4.5/gRbase/inst/include/gRbase.h | 36 gRbase-1.8-4.5/gRbase/inst/include/gRbase_RcppExports.h | 857 +++++---- gRbase-1.8-4.5/gRbase/inst/include/gRbase_typedefs.h | 14 gRbase-1.8-4.5/gRbase/man/all-subsets.Rd |only gRbase-1.8-4.5/gRbase/man/all_pairs.Rd |only gRbase-1.8-4.5/gRbase/man/array-algebra.Rd | 40 gRbase-1.8-4.5/gRbase/man/array-api.Rd |only gRbase-1.8-4.5/gRbase/man/array-cell.Rd |only gRbase-1.8-4.5/gRbase/man/array-create.Rd | 46 gRbase-1.8-4.5/gRbase/man/array-dimnames.Rd | 9 gRbase-1.8-4.5/gRbase/man/array-distribution.Rd | 11 gRbase-1.8-4.5/gRbase/man/array-normalize.Rd | 9 gRbase-1.8-4.5/gRbase/man/array-operations-07.Rd |only gRbase-1.8-4.5/gRbase/man/array-operations.Rd | 122 - gRbase-1.8-4.5/gRbase/man/array-parray.Rd |only gRbase-1.8-4.5/gRbase/man/array-properties.Rd | 5 gRbase-1.8-4.5/gRbase/man/array-simulate.Rd |only gRbase-1.8-4.5/gRbase/man/array-slice.Rd | 39 gRbase-1.8-4.5/gRbase/man/combn_prim.Rd |only gRbase-1.8-4.5/gRbase/man/compareModels.Rd | 1 gRbase-1.8-4.5/gRbase/man/cov2pcor.Rd | 3 gRbase-1.8-4.5/gRbase/man/data-BodyFat.Rd |only gRbase-1.8-4.5/gRbase/man/data-Nutrimouse.Rd |only gRbase-1.8-4.5/gRbase/man/data-ashtrees.Rd |only gRbase-1.8-4.5/gRbase/man/data-breastcancer.Rd |only gRbase-1.8-4.5/gRbase/man/data-cad.Rd |only gRbase-1.8-4.5/gRbase/man/data-carcass.Rd |only gRbase-1.8-4.5/gRbase/man/data-chestSim.Rd |only gRbase-1.8-4.5/gRbase/man/data-dietox.Rd |only gRbase-1.8-4.5/gRbase/man/data-dumping.Rd |only gRbase-1.8-4.5/gRbase/man/data-lizard.Rd |only gRbase-1.8-4.5/gRbase/man/data-mathmark.Rd |only gRbase-1.8-4.5/gRbase/man/data-mildew.Rd |only gRbase-1.8-4.5/gRbase/man/data-milkcomp.Rd |only gRbase-1.8-4.5/gRbase/man/data-rats.Rd |only gRbase-1.8-4.5/gRbase/man/data-reinis.Rd |only gRbase-1.8-4.5/gRbase/man/data-wine.Rd |only gRbase-1.8-4.5/gRbase/man/df2xtabs.Rd |only gRbase-1.8-4.5/gRbase/man/downstream-aliases.Rd |only gRbase-1.8-4.5/gRbase/man/gRbase-generics.Rd | 11 gRbase-1.8-4.5/gRbase/man/gRbase_utilities.Rd |only gRbase-1.8-4.5/gRbase/man/graph-cliques.Rd | 33 gRbase-1.8-4.5/gRbase/man/graph-coerce-api.Rd |only gRbase-1.8-4.5/gRbase/man/graph-coerce-list.Rd |only gRbase-1.8-4.5/gRbase/man/graph-coerce-misc.Rd |only gRbase-1.8-4.5/gRbase/man/graph-coerce.Rd | 23 gRbase-1.8-4.5/gRbase/man/graph-create.Rd | 21 gRbase-1.8-4.5/gRbase/man/graph-edgeList.Rd | 13 gRbase-1.8-4.5/gRbase/man/graph-gcproperties.Rd | 11 gRbase-1.8-4.5/gRbase/man/graph-iplot.Rd | 1 gRbase-1.8-4.5/gRbase/man/graph-is.Rd | 39 gRbase-1.8-4.5/gRbase/man/graph-mcs.Rd | 27 gRbase-1.8-4.5/gRbase/man/graph-minimal_triang.Rd |only gRbase-1.8-4.5/gRbase/man/graph-moralize.Rd | 13 gRbase-1.8-4.5/gRbase/man/graph-mpd.Rd | 18 gRbase-1.8-4.5/gRbase/man/graph-query.Rd | 22 gRbase-1.8-4.5/gRbase/man/graph-randomdag.Rd | 11 gRbase-1.8-4.5/gRbase/man/graph-rip.Rd | 37 gRbase-1.8-4.5/gRbase/man/graph-toposort.Rd | 30 gRbase-1.8-4.5/gRbase/man/graph-triangulate.Rd | 70 gRbase-1.8-4.5/gRbase/man/graph-ug2dag.Rd |only gRbase-1.8-4.5/gRbase/man/graph-vpar.Rd | 13 gRbase-1.8-4.5/gRbase/man/internal.Rd |only gRbase-1.8-4.5/gRbase/man/set_operations.Rd |only gRbase-1.8-4.5/gRbase/src/RcppExports.cpp | 1410 ++++++++-------- gRbase-1.8-4.5/gRbase/src/_g_mcsMAT.cpp | 70 gRbase-1.8-4.5/gRbase/src/_g_mcsMAT2.cpp | 152 - gRbase-1.8-4.5/gRbase/src/_g_mcsMAT2.h |only gRbase-1.8-4.5/gRbase/src/_g_rip-cliques.cpp | 15 gRbase-1.8-4.5/gRbase/src/_g_topoSortMAT.cpp | 2 gRbase-1.8-4.5/gRbase/src/_g_triangulate-elo-MAT.cpp | 115 + gRbase-1.8-4.5/gRbase/src/_g_triangulate-mcwh-MAT.cpp |only gRbase-1.8-4.5/gRbase/src/_m_coerce-M2ftM.cpp |only gRbase-1.8-4.5/gRbase/src/_m_coerce-dense-sparse.cpp |only gRbase-1.8-4.5/gRbase/src/_m_coerce-list2M.cpp |only gRbase-1.8-4.5/gRbase/src/_m_colmat2list_etc.cpp |only gRbase-1.8-4.5/gRbase/src/_m_isadjMAT.cpp | 244 -- gRbase-1.8-4.5/gRbase/src/_u_rowsums_etc.c |only gRbase-1.8-4.5/gRbase/src/_u_setops.cpp |only gRbase-1.8-4.5/gRbase/src/_u_setops_c.c |only gRbase-1.8-4.5/gRbase/src/combnC.c | 30 gRbase-1.8-4.5/gRbase/src/combnPrimC.c | 27 gRbase-1.8-4.5/gRbase/src/concatenate.h | 34 gRbase-1.8-4.5/gRbase/src/init.c | 302 +-- gRbase-1.8-4.5/gRbase/src/t_array_cell.cpp |only gRbase-1.8-4.5/gRbase/src/t_array_core.cpp |only gRbase-1.8-4.5/gRbase/src/t_array_properties.cpp |only gRbase-1.8-4.5/gRbase/src/t_array_properties.h |only gRbase-1.8-4.5/gRbase/vignettes/grbase-arrays.Rnw |only gRbase-1.8-4.5/gRbase/vignettes/grbase-graphs.Rnw |only gRbase-1.8-4.5/gRbase/vignettes/grbase.bib |only 232 files changed, 4062 insertions(+), 3670 deletions(-)
Title: Fast Generators and Iterators for Permutations, Combinations and
Partitions
Description: Fast generators and iterators for permutations, combinations
and partitions. The iterators allow users to generate arrangements in
a memory efficient manner and the generated arrangements are in
lexicographical (dictionary) order. Permutations and combinations can
be drawn with/without replacement and support multisets. It has been
demonstrated that 'arrangements' outperforms most of the existing
packages of similar kind. Some benchmarks could be found at
<https://randy3k.github.io/arrangements/articles/benchmark.html>.
Author: Randy Lai [aut, cre]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between arrangements versions 1.1.5 dated 2018-11-08 and 1.1.6 dated 2019-09-28
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- R/combinations.R | 2 +- R/partitions.R | 2 +- R/permutations.R | 2 +- man/icombinations.Rd | 2 +- man/ipartitions.Rd | 2 +- man/ipermutations.Rd | 2 +- src/combinations.h | 2 +- src/partitions.h | 2 +- src/permutations.h | 2 +- 11 files changed, 24 insertions(+), 24 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-03-03 0.13.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-30 0.1.1
2017-09-05 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-01 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-21 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-02-01 0.19.1
2018-08-20 0.18.08-02
2018-07-02 0.18.06-02
Title: Interface to the 'Open Tree of Life' API
Description: An interface to the 'Open Tree of Life' API to retrieve
phylogenetic trees, information about studies used to assemble the
synthetic tree, and utilities to match taxonomic names to 'Open Tree
identifiers'. The 'Open Tree of Life' aims at assembling a
comprehensive phylogenetic tree for all named species.
Author: Francois Michonneau [aut, cre]
(<https://orcid.org/0000-0002-9092-966X>),
Joseph Brown [aut] (<https://orcid.org/0000-0002-3835-8062>),
David Winter [aut] (<https://orcid.org/0000-0002-6165-0029>),
Scott Chamberlain [rev] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Francois Michonneau <francois.michonneau@gmail.com>
Diff between rotl versions 3.0.9 dated 2019-06-14 and 3.0.10 dated 2019-09-28
DESCRIPTION | 58 +- MD5 | 132 ++--- NAMESPACE | 2 NEWS.md | 6 R/api-collections.R | 37 - R/api-studies.R | 256 +++++----- R/api-taxonomy.R | 81 +-- R/api-tnrs.R | 121 ++--- R/api-tol.R | 200 ++++---- R/base.R | 280 ++++++----- R/deduplicate_labels.R | 49 +- R/external_data.R | 113 ++-- R/is_in_tree.R | 15 R/match_names.R | 372 ++++++++------- R/methods.R | 12 R/studies-methods.R | 17 R/studies-utils.R | 108 ++-- R/studies.R | 331 +++++++------ R/tax_utils.R | 82 +-- R/taxonomy.R | 145 +++--- R/tnrs.R | 248 +++++----- R/tol.R | 274 +++++------ R/tree_to_labels.R | 77 +-- README.md | 218 ++++----- build/vignette.rds |binary inst/doc/data_mashups.R | 21 inst/doc/data_mashups.Rmd | 26 - inst/doc/data_mashups.html | 447 ++++++++++-------- inst/doc/meta-analysis.R | 54 +- inst/doc/meta-analysis.Rmd | 59 +- inst/doc/meta-analysis.html | 72 +-- inst/doc/rotl.R | 26 - inst/doc/rotl.Rmd | 27 - inst/doc/rotl.html | 46 + man/get_study.Rd | 9 man/get_study_meta.Rd | 14 man/get_study_subtree.Rd | 14 man/get_study_tree.Rd | 13 man/list_trees.Rd | 4 man/match_names.Rd | 6 man/rotl.Rd | 1 man/studies_find_studies.Rd | 10 man/studies_find_trees.Rd | 10 man/taxonomy_subtree.Rd | 9 man/taxonomy_taxon_info.Rd | 9 man/tnrs_match_names.Rd | 11 man/tol_induced_subtree.Rd | 9 man/tol_node_info.Rd | 58 -- man/tol_subtree.Rd | 3 tests/test-all.R | 2 tests/testthat/test-API.R | 240 +++++----- tests/testthat/test-api-studies.R | 233 ++++++--- tests/testthat/test-api-taxonomy.R | 104 ++-- tests/testthat/test-api-tnrs.R | 72 +-- tests/testthat/test-api-tol.R | 64 +- tests/testthat/test-base.R | 59 +- tests/testthat/test-deduplicate_labels.R | 28 - tests/testthat/test-external.R | 40 - tests/testthat/test-match_names.R | 494 ++++++++++++-------- tests/testthat/test-studies.R | 737 +++++++++++++++++-------------- tests/testthat/test-taxonomy.R | 510 ++++++++++++--------- tests/testthat/test-tnrs.R | 75 +-- tests/testthat/test-tol.R | 606 ++++++++++++++----------- tests/testthat/test-tree_to_labels.R | 56 +- vignettes/data_mashups.Rmd | 26 - vignettes/meta-analysis.Rmd | 59 +- vignettes/rotl.Rmd | 27 - 67 files changed, 4215 insertions(+), 3409 deletions(-)
Title: The Integration Between 'IBM COGNOS TM1' and R
Description: Useful functions to connect to 'TM1' <https://www.ibm.com/uk-en/marketplace/planning-and-analytics> instance from R via REST API. With the functions in the package, data can be imported from 'TM1' via mdx view or native view, data can be sent to 'TM1', processes and chores can be executed, and cube and dimension metadata information can be taken.
Author: Muhammed Ali Onder
Maintainer: Muhammed Ali Onder <muhammedalionder@gmail.com>
Diff between tm1r versions 1.1.2 dated 2019-04-09 and 1.1.3 dated 2019-09-28
DESCRIPTION | 6 +++--- MD5 | 6 ++++-- R/tm1_get_subset_elements.R |only man/tm1_get_element.Rd | 2 +- man/tm1_get_subset_elements.Rd |only 5 files changed, 8 insertions(+), 6 deletions(-)
Title: Estimation and Projection of Age-Specific Mortality Rates
Description: Age-specific mortality rates are estimated and projected using
the Kannisto, Lee-Carter and related methods as described in
Sevcikova et al. (2016) <doi:10.1007/978-3-319-26603-9_15>.
Author: Hana Sevcikova, Nan Li and Patrick Gerland
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between MortCast versions 2.1-1 dated 2019-06-11 and 2.1-2 dated 2019-09-28
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- build/partial.rdb |binary src/life_tables.c | 4 ++-- 5 files changed, 14 insertions(+), 10 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions
used in 'mlr3' and its companion packages. Comes with helper functions
for functional programming, for printing, to work with 'data.table',
as well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3misc versions 0.1.4 dated 2019-09-17 and 0.1.5 dated 2019-09-28
mlr3misc-0.1.4/mlr3misc/R/which_min.R |only mlr3misc-0.1.4/mlr3misc/man/dictionary_sugar.Rd |only mlr3misc-0.1.4/mlr3misc/tests/testthat/test_which_min.R |only mlr3misc-0.1.5/mlr3misc/DESCRIPTION | 10 +-- mlr3misc-0.1.5/mlr3misc/MD5 | 38 ++++++++------- mlr3misc-0.1.5/mlr3misc/NAMESPACE | 3 + mlr3misc-0.1.5/mlr3misc/NEWS.md | 9 +++ mlr3misc-0.1.5/mlr3misc/R/cite_bib.R |only mlr3misc-0.1.5/mlr3misc/R/dictionary_sugar.R | 31 +++++++++++- mlr3misc-0.1.5/mlr3misc/R/ids.R | 13 +++-- mlr3misc-0.1.5/mlr3misc/R/rcbind.R | 6 +- mlr3misc-0.1.5/mlr3misc/R/unnest.R | 36 ++++++++++++-- mlr3misc-0.1.5/mlr3misc/R/which_max.R |only mlr3misc-0.1.5/mlr3misc/README.md | 2 mlr3misc-0.1.5/mlr3misc/inst |only mlr3misc-0.1.5/mlr3misc/man/cite_bib.Rd |only mlr3misc-0.1.5/mlr3misc/man/dictionary_sugar_get.Rd |only mlr3misc-0.1.5/mlr3misc/man/ids.Rd | 13 +++-- mlr3misc-0.1.5/mlr3misc/man/macros |only mlr3misc-0.1.5/mlr3misc/man/unnest.Rd | 4 + mlr3misc-0.1.5/mlr3misc/man/which_min.Rd | 2 mlr3misc-0.1.5/mlr3misc/src/which_max.c | 2 mlr3misc-0.1.5/mlr3misc/tests/testthat/test_Dictionary.R | 28 ++++++++--- mlr3misc-0.1.5/mlr3misc/tests/testthat/test_unnest.R | 30 +++++++++++ mlr3misc-0.1.5/mlr3misc/tests/testthat/test_which_max.R |only 25 files changed, 176 insertions(+), 51 deletions(-)
Title: A Future API for Parallel Processing using 'callr'
Description: Implementation of the Future API on top of the 'callr' package. This allows you to process futures, as defined by the 'future' package, in parallel out of the box, on your local (Linux, macOS, Windows, ...) machine. Contrary to backends relying on the 'parallel' package (e.g. 'future::multisession'), the 'callr' backend provided here can run more than 125 parallel R processes.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between future.callr versions 0.4.0 dated 2019-01-07 and 0.5.0 dated 2019-09-28
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS | 11 +++++++++++ R/CallrFuture-class.R | 12 ++++++------ R/utils.R | 24 ++++++++++++++++++++---- R/waitForWorker.R | 3 +-- build/vignette.rds |binary 7 files changed, 48 insertions(+), 22 deletions(-)