Title: Tools for Analyzing Shapes and Patterns
Description: This is an evolving and growing collection of tools for the quantification, assessment, and comparison of shape and pattern. This collection provides tools for: (1) the spatial decomposition of planar shapes using 'ShrinkShape' to incrementally shrink shapes to extinction while computing area, perimeter, and number of parts at each iteration of shrinking; the spectra of results are returned in graphic and tabular formats (Remmel 2015) <doi:10.1111/cag.12222>, (2) simulating landscape patterns, (3) provision of tools for estimating composition and configuration parameters from a categorical (binary) landscape map (grid) and then simulates a selected number of statistically similar landscapes. Class-focused pattern metrics are computed for each simulated map to produce empirical distributions against which statistical comparisons can be made. The code permits the analysis of single maps or pairs of maps (Remmel and Fortin 2013) <doi:10.1007/s10980-013-9905-x>, (4) counting th [...truncated...]
Author: Tarmo K. Remmel [aut, cre] ,
Marie-Josee Fortin [ctb],
Ferenc Csillag [ctb],
Sandor Kabos [ctb]
Maintainer: Tarmo K. Remmel <remmelt@yorku.ca>
Diff between ShapePattern versions 3.0.1 dated 2023-08-22 and 3.1.0 dated 2024-12-09
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/ssr.R | 13 +++++++------ build/partial.rdb |binary man/ssr.Rd | 2 +- 6 files changed, 23 insertions(+), 15 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson [aut, cre] ,
Evan Sergeant [aut],
Cord Heuer [ctb],
Telmo Nunes [ctb],
Cord Heuer [ctb],
Jonathon Marshall [ctb],
Javier Sanchez [ctb],
Ron Thornton [ctb],
Jeno Reiczigel [ctb],
Jim Robison-Cox [ctb],
Paola Sebastiani [ctb],
Peter Soly [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.77 dated 2024-11-19 and 2.0.78 dated 2024-12-09
DESCRIPTION | 8 - MD5 | 24 +-- NEWS | 7 R/epi.insthaz.R | 219 ++++++++++++++--------------- build/vignette.rds |binary inst/doc/epiR_descriptive.R | 2 inst/doc/epiR_descriptive.Rmd | 2 inst/doc/epiR_descriptive.html | 22 +- inst/doc/epiR_measures_of_association.html | 28 ++- inst/doc/epiR_sample_size.html | 4 inst/doc/epiR_surveillance.html | 27 ++- man/epi.insthaz.Rd | 90 ++++++----- vignettes/epiR_descriptive.Rmd | 2 13 files changed, 239 insertions(+), 196 deletions(-)
Title: Statistical Tests of Familial Hypotheses
Description: Provides functionality for testing familial hypotheses. Supports testing centers
belonging to the Huber family. Testing is carried out using the Bayesian bootstrap. One- and
two-sample tests are supported, as are directional tests. Methods for visualizing output are
provided.
Author: Ryan Thompson [aut, cre]
Maintainer: Ryan Thompson <ryan.thompson-1@uts.edu.au>
Diff between familial versions 1.0.6 dated 2024-11-28 and 1.0.7 dated 2024-12-09
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 3 +++ R/fit-family.R | 2 +- man/plot.fit.family.Rd | 2 +- 5 files changed, 12 insertions(+), 9 deletions(-)
Title: Summarise Patient-Level Drug Utilisation in Data Mapped to the
OMOP Common Data Model
Description: Summarise patient-level drug utilisation cohorts using data mapped
to the Observational Medical Outcomes Partnership (OMOP) common data model.
New users and prevalent users cohorts can be generated and their
characteristics, indication and drug use summarised.
Author: Marti Catala [aut, cre] ,
Mike Du [ctb] ,
Yuchen Guo [aut] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Xintong Li [ctb] ,
Marta Alcalde-Herraiz [ctb] ,
Nuria Mercade-Besora [aut] ,
Xihang Chen [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between DrugUtilisation versions 0.7.1 dated 2024-09-06 and 0.8.0 dated 2024-12-09
DrugUtilisation-0.7.1/DrugUtilisation/R/addIndication.R |only DrugUtilisation-0.7.1/DrugUtilisation/R/assert.R |only DrugUtilisation-0.7.1/DrugUtilisation/R/checkInputs.R |only DrugUtilisation-0.7.1/DrugUtilisation/R/plotProportionOfPatientsCovered.R |only DrugUtilisation-0.7.1/DrugUtilisation/R/summariseIndication.R |only DrugUtilisation-0.7.1/DrugUtilisation/R/summariseTreatment.R |only DrugUtilisation-0.7.1/DrugUtilisation/man/defaultTableOptions.Rd |only DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-drugUse.R |only DrugUtilisation-0.8.0/DrugUtilisation/DESCRIPTION | 19 DrugUtilisation-0.8.0/DrugUtilisation/MD5 | 254 DrugUtilisation-0.8.0/DrugUtilisation/NAMESPACE | 152 DrugUtilisation-0.8.0/DrugUtilisation/NEWS.md | 72 DrugUtilisation-0.8.0/DrugUtilisation/R/addDrugUse.R | 1095 DrugUtilisation-0.8.0/DrugUtilisation/R/addDrugUtilisation.R | 2286 - DrugUtilisation-0.8.0/DrugUtilisation/R/addIntersect.R |only DrugUtilisation-0.8.0/DrugUtilisation/R/benchmarkDrugUtilisation.R | 409 DrugUtilisation-0.8.0/DrugUtilisation/R/cohortUtilities.R | 260 DrugUtilisation-0.8.0/DrugUtilisation/R/dailyDose.R | 598 DrugUtilisation-0.8.0/DrugUtilisation/R/data.R | 68 DrugUtilisation-0.8.0/DrugUtilisation/R/documentationHelpers.R |only DrugUtilisation-0.8.0/DrugUtilisation/R/erafyCohort.R |only DrugUtilisation-0.8.0/DrugUtilisation/R/generateAtcCohortSet.R | 237 DrugUtilisation-0.8.0/DrugUtilisation/R/generateDrugUtilisationCohortSet.R | 448 DrugUtilisation-0.8.0/DrugUtilisation/R/generateIngredientCohortSet.R | 420 DrugUtilisation-0.8.0/DrugUtilisation/R/mockDrugUtilisation.R | 1112 DrugUtilisation-0.8.0/DrugUtilisation/R/pattern.R | 640 DrugUtilisation-0.8.0/DrugUtilisation/R/plots.R | 995 DrugUtilisation-0.8.0/DrugUtilisation/R/readConceptList.R | 79 DrugUtilisation-0.8.0/DrugUtilisation/R/reexports.R | 86 DrugUtilisation-0.8.0/DrugUtilisation/R/require.R | 720 DrugUtilisation-0.8.0/DrugUtilisation/R/summariseDrugRestart.R | 775 DrugUtilisation-0.8.0/DrugUtilisation/R/summariseDrugUse.R | 166 DrugUtilisation-0.8.0/DrugUtilisation/R/summariseDrugUtilisation.R | 410 DrugUtilisation-0.8.0/DrugUtilisation/R/summariseIntersect.R |only DrugUtilisation-0.8.0/DrugUtilisation/R/summariseProportionOfPatientsCovered.R | 638 DrugUtilisation-0.8.0/DrugUtilisation/R/tables.R | 1310 DrugUtilisation-0.8.0/DrugUtilisation/R/validate.R |only DrugUtilisation-0.8.0/DrugUtilisation/README.md | 427 DrugUtilisation-0.8.0/DrugUtilisation/build/vignette.rds |binary DrugUtilisation-0.8.0/DrugUtilisation/inst/CITATION | 22 DrugUtilisation-0.8.0/DrugUtilisation/inst/Concept/asthma.json | 36 DrugUtilisation-0.8.0/DrugUtilisation/inst/acetaminophen.json | 24 DrugUtilisation-0.8.0/DrugUtilisation/inst/concepts/acetaminophen.json | 24 DrugUtilisation-0.8.0/DrugUtilisation/inst/concepts/influenza.json | 24 DrugUtilisation-0.8.0/DrugUtilisation/inst/doc/create_cohorts.R | 764 DrugUtilisation-0.8.0/DrugUtilisation/inst/doc/create_cohorts.Rmd | 1288 DrugUtilisation-0.8.0/DrugUtilisation/inst/doc/create_cohorts.html | 2000 - DrugUtilisation-0.8.0/DrugUtilisation/inst/doc/drug_utilisation.R | 331 DrugUtilisation-0.8.0/DrugUtilisation/inst/doc/drug_utilisation.Rmd | 578 DrugUtilisation-0.8.0/DrugUtilisation/inst/doc/drug_utilisation.html |15119 +++++----- DrugUtilisation-0.8.0/DrugUtilisation/inst/pattern_assessment_for_dose_final.csv | 84 DrugUtilisation-0.8.0/DrugUtilisation/man/DrugUtilisation-package.Rd | 81 DrugUtilisation-0.8.0/DrugUtilisation/man/addCumulativeDose.Rd | 119 DrugUtilisation-0.8.0/DrugUtilisation/man/addCumulativeQuantity.Rd | 124 DrugUtilisation-0.8.0/DrugUtilisation/man/addDailyDose.Rd | 74 DrugUtilisation-0.8.0/DrugUtilisation/man/addDaysExposed.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/addDaysPrescribed.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/addDrugRestart.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/addDrugUse.Rd | 226 DrugUtilisation-0.8.0/DrugUtilisation/man/addDrugUtilisation.Rd | 204 DrugUtilisation-0.8.0/DrugUtilisation/man/addExposedTime.Rd | 114 DrugUtilisation-0.8.0/DrugUtilisation/man/addIndication.Rd | 152 DrugUtilisation-0.8.0/DrugUtilisation/man/addInitialDailyDose.Rd | 119 DrugUtilisation-0.8.0/DrugUtilisation/man/addInitialExposureDuration.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/addInitialQuantity.Rd | 124 DrugUtilisation-0.8.0/DrugUtilisation/man/addNumberEras.Rd | 132 DrugUtilisation-0.8.0/DrugUtilisation/man/addNumberExposures.Rd | 124 DrugUtilisation-0.8.0/DrugUtilisation/man/addRoute.Rd | 58 DrugUtilisation-0.8.0/DrugUtilisation/man/addTimeToExposure.Rd | 124 DrugUtilisation-0.8.0/DrugUtilisation/man/addTreatment.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/benchmarkDrugUtilisation.Rd | 30 DrugUtilisation-0.8.0/DrugUtilisation/man/cdmDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/censorDateDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/cohortDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/cohortGapEra.Rd | 86 DrugUtilisation-0.8.0/DrugUtilisation/man/cohortIdDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/compNameDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/conceptSetDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/dailyDoseCoverage.Rd | 43 DrugUtilisation-0.8.0/DrugUtilisation/man/daysPrescribedDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/drugUtilisationDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/erafyCohort.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/gapEraDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/generateAtcCohortSet.Rd | 169 DrugUtilisation-0.8.0/DrugUtilisation/man/generateDrugUtilisationCohortSet.Rd | 170 DrugUtilisation-0.8.0/DrugUtilisation/man/generateIngredientCohortSet.Rd | 198 DrugUtilisation-0.8.0/DrugUtilisation/man/indexDateDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/ingredientConceptIdDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/mockDrugUtilisation.Rd | 88 DrugUtilisation-0.8.0/DrugUtilisation/man/nameStyleDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/newNameDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/numberExposuresDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/patternTable.Rd | 57 DrugUtilisation-0.8.0/DrugUtilisation/man/patternsWithFormula.Rd | 38 DrugUtilisation-0.8.0/DrugUtilisation/man/plotDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/plotDrugRestart.Rd | 111 DrugUtilisation-0.8.0/DrugUtilisation/man/plotDrugUtilisation.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/plotIndication.Rd | 115 DrugUtilisation-0.8.0/DrugUtilisation/man/plotProportionOfPatientsCovered.Rd | 83 DrugUtilisation-0.8.0/DrugUtilisation/man/plotTreatment.Rd | 98 DrugUtilisation-0.8.0/DrugUtilisation/man/readConceptList.Rd | 50 DrugUtilisation-0.8.0/DrugUtilisation/man/reexports.Rd | 56 DrugUtilisation-0.8.0/DrugUtilisation/man/requireDrugInDateRange.Rd | 106 DrugUtilisation-0.8.0/DrugUtilisation/man/requireIsFirstDrugEntry.Rd | 84 DrugUtilisation-0.8.0/DrugUtilisation/man/requireObservationBeforeDrug.Rd | 98 DrugUtilisation-0.8.0/DrugUtilisation/man/requirePriorDrugWashout.Rd | 104 DrugUtilisation-0.8.0/DrugUtilisation/man/restrictIncidentDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/resultDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/strataDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/stratifyByUnit.Rd | 71 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseDoseCoverage.Rd | 89 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseDrugRestart.Rd | 139 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseDrugUse.Rd | 88 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseDrugUtilisation.Rd | 211 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseIndication.Rd | 163 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseProportionOfPatientsCovered.Rd | 69 DrugUtilisation-0.8.0/DrugUtilisation/man/summariseTreatment.Rd | 124 DrugUtilisation-0.8.0/DrugUtilisation/man/tableDoc.Rd |only DrugUtilisation-0.8.0/DrugUtilisation/man/tableDoseCoverage.Rd | 111 DrugUtilisation-0.8.0/DrugUtilisation/man/tableDrugRestart.Rd | 130 DrugUtilisation-0.8.0/DrugUtilisation/man/tableDrugUtilisation.Rd | 128 DrugUtilisation-0.8.0/DrugUtilisation/man/tableIndication.Rd | 115 DrugUtilisation-0.8.0/DrugUtilisation/man/tableProportionOfPatientsCovered.Rd | 105 DrugUtilisation-0.8.0/DrugUtilisation/man/tableTreatment.Rd | 114 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat.R | 24 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/_snaps/addDrugUtilisation.md | 144 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/setup.R | 85 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-addDrugUtilisation.R | 774 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-benchmarkDrugUtilisation.R | 60 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-dailyDose.R | 540 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-erafyCohort.R |only DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-generateDrugUtilisationCohortSet.R | 345 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-generatedAtcCohortSet.R | 56 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-generatedIngredientCohortSet.R | 258 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-indication.R | 1354 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-patterns.R | 128 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-plotProportionOfPatientsCovered.R | 292 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-plotTreatment.R | 182 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-plots.R | 214 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-readConceptList.R | 39 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-require.R | 1265 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-summariseDrugRestart.R | 449 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-summariseDrugUtilisation.R | 235 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-summariseProportionOfPatientsCovered.R | 1200 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-summariseTreatment.R | 108 DrugUtilisation-0.8.0/DrugUtilisation/tests/testthat/test-tables.R | 956 DrugUtilisation-0.8.0/DrugUtilisation/vignettes/create_cohorts.Rmd | 1288 DrugUtilisation-0.8.0/DrugUtilisation/vignettes/drug_utilisation.Rmd | 578 148 files changed, 24986 insertions(+), 24774 deletions(-)
More information about DrugUtilisation at CRAN
Permanent link
Title: Phase I/II CRM Based Drug Combination Design
Description: Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.
Author: Junying Wang [cre, aut],
Song Wu [aut],
Jie Yang [aut]
Maintainer: Junying Wang <junying.wang@stonybrook.edu>
Diff between crm12Comb versions 0.1.8 dated 2024-11-03 and 0.1.9 dated 2024-12-09
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/priorSkeletons.R | 4 ++-- data/examples_results.RData |binary inst/doc/crm12Comb.R | 2 +- inst/doc/crm12Comb.Rmd | 2 +- inst/doc/crm12Comb.html | 10 +++++----- vignettes/crm12Comb.Rmd | 2 +- 8 files changed, 20 insertions(+), 20 deletions(-)
Title: Download Air Quality and Meteorological Information of Chile
Description: Download air quality and meteorological information of Chile from the National Air Quality System (S.I.N.C.A.)<https://sinca.mma.gob.cl/> dependent on the Ministry of the Environment and the Meteorological Directorate of Chile (D.M.C.)<https://www.meteochile.gob.cl/> dependent on the Directorate General of Civil Aeronautics.
Author: Francisco Catalan Meyer [aut, cre]
,
Manuel Leiva [aut] ,
Richard Toro [aut]
Maintainer: Francisco Catalan Meyer <francisco.catalan@ug.uchile.cl>
Diff between AtmChile versions 1.0.1 dated 2022-08-29 and 1.0.2 dated 2024-12-09
DESCRIPTION | 12 - MD5 | 16 - R/ChileAirQuality.R | 431 ++++++++++++++---------------------- R/ChileAirQualityApp.R | 16 + README.md | 8 inst/CITATION | 29 +- inst/shiny/app.R | 21 - inst/shiny/complementaryFunctions.R | 92 +++---- man/ChileClimateData.Rd | 92 +++---- 9 files changed, 331 insertions(+), 386 deletions(-)
Title: Measuring Association with Recursive Binning
Description: An iterative implementation of a recursive binary partitioning algorithm to measure pairwise dependence with a modular design that allows user specification of the splitting logic and stop criteria. Helper functions provide suggested versions of both and support visualization and the computation of summary statistics on final binnings. For a complete description of the functionality and algorithm, see Salahub and Oldford (2023) <doi:10.48550/arXiv.2311.08561>.
Author: Chris Salahub [aut, cre]
Maintainer: Chris Salahub <chris.salahub@uwaterloo.ca>
Diff between AssocBin versions 1.0-0 dated 2024-06-28 and 1.0-2 dated 2024-12-09
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/dispatch.R | 26 ++++++++++++++------------ R/splitters.R | 41 +++++++++++++++++++++++++---------------- build/vignette.rds |binary data/heart.rda |binary data/sp500pseudo.rda |binary inst/doc/AssocBin.html | 2 +- inst/doc/complex.html | 16 ++++++++-------- man/methods.Rd | 8 +++++--- 10 files changed, 65 insertions(+), 52 deletions(-)
Title: Classification and Regression Training
Description: Misc functions for training and plotting classification and
regression models.
Author: Max Kuhn [aut, cre] ,
Jed Wing [ctb],
Steve Weston [ctb],
Andre Williams [ctb],
Chris Keefer [ctb],
Allan Engelhardt [ctb],
Tony Cooper [ctb],
Zachary Mayer [ctb],
Brenton Kenkel [ctb],
R Core Team [ctb],
Michael Benesty [ctb],
Reynald Lescarbeau [ct [...truncated...]
Maintainer: Max Kuhn <mxkuhn@gmail.com>
Diff between caret versions 6.0-94 dated 2023-03-21 and 7.0-1 dated 2024-12-09
DESCRIPTION | 11 MD5 | 136 ++-- NAMESPACE | 14 R/aaa.R | 2 R/adaptive.R | 56 +- R/additive.R | 4 R/avNNet.R | 2 R/bag.R | 4 R/bagEarth.R | 2 R/bagFDA.R | 2 R/calibration.R | 4 R/classDist.R | 2 R/classLevels.R | 2 R/confusionMatrix.R | 2 R/createDataPartition.R | 28 - R/createResample.R | 2 R/expoTrans.R | 28 - R/extractPrediction.R | 2 R/extractProb.R | 2 R/featurePlot.R | 2 R/findCorrelation.R | 74 +- R/findLinearCombos.R | 27 R/gafs.R | 22 R/ggplot.R | 2 R/heldout.R | 2 R/knn3.R | 3 R/learning_curve.R | 2 R/lift.R | 10 R/maxDissim.R | 8 R/misc.R | 47 - R/modelLookup.R | 4 R/panel.needle.R | 2 R/plsda.R | 6 R/preProcess.R | 8 R/predict.PLS.R | 21 R/predictors.R | 6 R/print.mars.R | 9 R/print.train.R | 4 R/resamples.R | 44 - R/rfe.R | 20 R/safs.R | 22 R/sampling.R | 2 R/selectByFilter.R | 14 R/sensitivity.R | 3 R/sortImp.R | 2 R/specificity.R | 1 R/train.default.R | 17 R/train_recipes.R | 36 - R/twoClassSim.R | 4 R/varImp.R | 2 R/varImp.train.R | 2 R/workflows.R | 30 - build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 11 inst/doc/caret.html | 868 +++++++++---------------------- man/calibration.Rd | 4 man/findCorrelation.Rd | 14 man/findLinearCombos.Rd | 6 man/maxDissim.Rd | 2 man/plsda.Rd | 2 man/sensitivity.Rd | 2 man/train.Rd | 2 tests/testthat/test_Dummies.R | 11 tests/testthat/test_misc.R | 3 tests/testthat/test_multiclassSummary.R | 2 tests/testthat/test_preProcess_methods.R | 9 tests/testthat/test_recipe_upsample.R | 25 tests/testthat/test_resamples.R | 2 69 files changed, 694 insertions(+), 1032 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-03-08 0.1.2
Title: Generalised Linear Mixed Models in R
Description: Specification, analysis, simulation, and fitting of generalised linear mixed models.
Includes Markov Chain Monte Carlo Maximum likelihood and Laplace approximation model fitting for a range of models,
non-linear fixed effect specifications, a wide range of flexible covariance functions that can be combined arbitrarily,
robust and bias-corrected standard error estimation, power calculation, data simulation, and more.
See <https://samuel-watson.github.io/glmmr-web/> for a detailed manual.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
Diff between glmmrBase versions 0.10.5 dated 2024-09-07 and 0.11.1 dated 2024-12-09
glmmrBase-0.10.5/glmmrBase/data/yexample312a.rda |only glmmrBase-0.10.5/glmmrBase/data/yexample312b.rda |only glmmrBase-0.10.5/glmmrBase/data/yexample312c.rda |only glmmrBase-0.10.5/glmmrBase/data/ytest1.rda |only glmmrBase-0.10.5/glmmrBase/man/yexample312a.Rd |only glmmrBase-0.10.5/glmmrBase/man/yexample312b.Rd |only glmmrBase-0.10.5/glmmrBase/man/yexample312c.Rd |only glmmrBase-0.10.5/glmmrBase/man/ytest1.Rd |only glmmrBase-0.10.5/glmmrBase/src/heckman.cpp |only glmmrBase-0.11.1/glmmrBase/DESCRIPTION | 12 glmmrBase-0.11.1/glmmrBase/MD5 | 116 +- glmmrBase-0.11.1/glmmrBase/R/R6Model.R | 484 ++++++---- glmmrBase-0.11.1/glmmrBase/R/R6covariance.R | 81 + glmmrBase-0.11.1/glmmrBase/R/R6meanfunction.R | 1 glmmrBase-0.11.1/glmmrBase/R/RcppExports.R | 36 glmmrBase-0.11.1/glmmrBase/R/extrafunctions.R | 55 - glmmrBase-0.11.1/glmmrBase/R/lme4_functions.R | 16 glmmrBase-0.11.1/glmmrBase/R/printfunctions.R | 7 glmmrBase-0.11.1/glmmrBase/README.md |only glmmrBase-0.11.1/glmmrBase/build/partial.rdb |binary glmmrBase-0.11.1/glmmrBase/data/Salamanders.rda |only glmmrBase-0.11.1/glmmrBase/data/SimGeospat.rda |only glmmrBase-0.11.1/glmmrBase/data/SimTrial.rda |only glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/covariance.hpp | 89 + glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/formula.hpp | 6 glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/general.h | 42 glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/linearpredictor.hpp | 12 glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/matrixfield.h | 6 glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/model.hpp | 36 glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/modelbits.hpp | 32 glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/modelmatrix.hpp | 401 ++++++-- glmmrBase-0.11.1/glmmrBase/inst/include/glmmr/modeloptim.hpp | 179 +++ glmmrBase-0.11.1/glmmrBase/man/Beta.Rd | 34 glmmrBase-0.11.1/glmmrBase/man/MeanFunction.Rd | 8 glmmrBase-0.11.1/glmmrBase/man/Model.Rd | 187 +++ glmmrBase-0.11.1/glmmrBase/man/Salamanders.Rd |only glmmrBase-0.11.1/glmmrBase/man/SimGeospat.Rd |only glmmrBase-0.11.1/glmmrBase/man/SimTrial.Rd |only glmmrBase-0.11.1/glmmrBase/man/coef.Model.Rd | 38 glmmrBase-0.11.1/glmmrBase/man/coef.mcml.Rd | 38 glmmrBase-0.11.1/glmmrBase/man/confint.mcml.Rd | 38 glmmrBase-0.11.1/glmmrBase/man/family.Model.Rd | 40 glmmrBase-0.11.1/glmmrBase/man/family.mcml.Rd | 38 glmmrBase-0.11.1/glmmrBase/man/fitted.Model.Rd | 44 glmmrBase-0.11.1/glmmrBase/man/fitted.mcml.Rd | 40 glmmrBase-0.11.1/glmmrBase/man/fixed.effects.Rd | 34 glmmrBase-0.11.1/glmmrBase/man/formula.Model.Rd | 40 glmmrBase-0.11.1/glmmrBase/man/formula.mcml.Rd | 44 glmmrBase-0.11.1/glmmrBase/man/lme4_to_glmmr.Rd | 60 - glmmrBase-0.11.1/glmmrBase/man/logLik.Model.Rd | 38 glmmrBase-0.11.1/glmmrBase/man/logLik.mcml.Rd | 50 - glmmrBase-0.11.1/glmmrBase/man/mcml_glmer.Rd | 132 +- glmmrBase-0.11.1/glmmrBase/man/mcml_lmer.Rd | 132 +- glmmrBase-0.11.1/glmmrBase/man/predict.Model.Rd | 62 - glmmrBase-0.11.1/glmmrBase/man/predict.mcml.Rd | 40 glmmrBase-0.11.1/glmmrBase/man/random.effects.Rd | 34 glmmrBase-0.11.1/glmmrBase/man/residuals.Model.Rd | 56 - glmmrBase-0.11.1/glmmrBase/man/residuals.mcml.Rd | 50 - glmmrBase-0.11.1/glmmrBase/man/setParallel.Rd | 42 glmmrBase-0.11.1/glmmrBase/man/summary.Model.Rd | 42 glmmrBase-0.11.1/glmmrBase/man/vcov.Model.Rd | 44 glmmrBase-0.11.1/glmmrBase/man/vcov.mcml.Rd | 46 glmmrBase-0.11.1/glmmrBase/src/RcppExports.cpp | 105 +- glmmrBase-0.11.1/glmmrBase/src/covariance_module.cpp | 3 glmmrBase-0.11.1/glmmrBase/src/model_module.cpp | 12 glmmrBase-0.11.1/glmmrBase/src/model_module_2.cpp | 56 + glmmrBase-0.11.1/glmmrBase/src/model_module_extension.cpp | 56 - 67 files changed, 2131 insertions(+), 1163 deletions(-)
Title: (Robust) Mediation Analysis
Description: Perform mediation analysis via the fast-and-robust bootstrap test ROBMED (Alfons, Ates & Groenen, 2022a; <doi:10.1177/1094428121999096>), as well as various other methods. Details on the implementation and code examples can be found in Alfons, Ates, and Groenen (2022b) <doi:10.18637/jss.v103.i13>.
Author: Andreas Alfons [aut, cre] ,
Nufer Y. Ates [ctb]
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between robmed versions 1.1.0 dated 2024-11-03 and 1.2.0 dated 2024-12-09
DESCRIPTION | 8 +- MD5 | 62 +++++++++--------- NAMESPACE | 2 NEWS | 11 +++ R/control.R | 73 ++++++++++++++++++---- R/fit_mediation.R | 42 +++++++----- R/regression.R | 9 +- R/test_mediation.R | 39 +++++++---- build/partial.rdb |binary inst/CITATION | 37 ++++++++++- inst/doc/robmed-intro.pdf |binary man/fit_mediation.Rd | 19 +++-- man/reg_control.Rd | 57 ++++++++++++++--- man/test_mediation.Rd | 19 +++-- tests/testthat/test_boot_multiple_covariates.R | 12 ++- tests/testthat/test_boot_multiple_no_covariates.R | 12 ++- tests/testthat/test_boot_parallel_covariates.R | 12 ++- tests/testthat/test_boot_parallel_no_covariates.R | 12 ++- tests/testthat/test_boot_serial_covariates.R | 12 ++- tests/testthat/test_boot_serial_no_covariates.R | 12 ++- tests/testthat/test_boot_simple_covariates.R | 12 ++- tests/testthat/test_boot_simple_no_covariates.R | 12 ++- tests/testthat/test_fit_multiple_covariates.R | 10 +-- tests/testthat/test_fit_multiple_no_covariates.R | 10 +-- tests/testthat/test_fit_parallel_covariates.R | 10 +-- tests/testthat/test_fit_parallel_no_covariates.R | 10 +-- tests/testthat/test_fit_serial_covariates.R | 10 +-- tests/testthat/test_fit_serial_no_covariates.R | 10 +-- tests/testthat/test_fit_simple_covariates.R | 10 +-- tests/testthat/test_fit_simple_no_covariates.R | 10 +-- tests/testthat/test_sobel_simple_covariates.R | 12 ++- tests/testthat/test_sobel_simple_no_covariates.R | 12 ++- 32 files changed, 389 insertions(+), 189 deletions(-)
Title: Recognize and Parse Dates in Various Formats, Including All ISO
8601 Formats
Description: Parse dates automatically, without the need of specifying a
format. Currently it includes the git date parser. It can also
recognize and parse all ISO 8601 formats.
Author: Gabor Csardi [aut, cre],
Linus Torvalds [aut]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between parsedate versions 1.3.1 dated 2022-10-27 and 1.3.2 dated 2024-12-09
DESCRIPTION | 24 +++++++++++++++--------- MD5 | 24 ++++++++++++------------ NEWS.md | 4 ++++ R/parsedate-package.r | 5 ++--- README.md | 25 ++++++++++++------------- man/parse_date.Rd | 2 +- man/parsedate-package.Rd | 9 +++++++++ src/rdate.c | 5 +++-- tests/testthat.R | 25 +++++++++++++++++-------- tests/testthat/test-corner-cases.R | 15 +++++++-------- tests/testthat/test-git.r | 5 ++--- tests/testthat/test-iso8601.r | 9 ++++----- tests/testthat/test-time-zones.R | 3 +-- 13 files changed, 89 insertions(+), 66 deletions(-)
Title: Processing and Analysing Animal Trajectories
Description: Tools to handle, manipulate and explore trajectory data, with an emphasis on data from tracked animals. The package is designed to support large studies with several million location records and keep track of units where possible. Data import directly from 'movebank' <https://www.movebank.org/cms/movebank-main> and files is facilitated.
Author: Bart Kranstauber [aut, cre] ,
Kamran Safi [aut] ,
Anne K. Scharf [aut]
Maintainer: Bart Kranstauber <b.kranstauber@uva.nl>
Diff between move2 versions 0.3.0 dated 2024-05-22 and 0.4.0 dated 2024-12-09
DESCRIPTION | 10 MD5 | 152 ++- NEWS.md | 10 R/assertions.R | 8 R/movebank_api.R | 44 - R/movebank_api_helper.R | 50 - R/movebank_constants.R | 553 +++++++------ R/movebank_credentials.R | 12 R/movebank_get_vocabulary.R | 25 R/mt_aeqd_crs.R | 16 R/mt_as_track_attribute.R | 4 R/mt_distance.R | 4 R/mt_filter_per_interval.R | 4 R/mt_filter_unique.R | 13 R/mt_interpolate.R | 2 R/mt_read.R | 8 R/mt_segments.R | 2 R/mt_sim_brownian_motion.R | 42 - R/mt_time.R | 2 R/mt_track_id.R | 10 R/new_move.R | 14 inst/CITATION |only inst/WORDLIST | 4 inst/doc/albatross.R | 42 - inst/doc/albatross.Rmd | 42 - inst/doc/albatross.html | 869 +++++++++----------- inst/doc/convert.html | 246 ++--- inst/doc/filtering_tracks.R | 4 inst/doc/filtering_tracks.Rmd | 6 inst/doc/filtering_tracks.html | 1086 ++++++++++++-------------- inst/doc/movebank.R | 101 +- inst/doc/movebank.Rmd | 194 +++- inst/doc/movebank.html | 1044 ++++++++++++------------ inst/doc/programming_move2_object.Rmd | 8 inst/doc/programming_move2_object.html | 416 +++------ inst/doc/trajectory_analysis.R | 15 inst/doc/trajectory_analysis.Rmd | 15 inst/doc/trajectory_analysis.html | 552 ++++++------- man/movebank_download_study.Rd | 2 man/movebank_get_vocabulary.Rd | 7 man/mt_filter_unique.Rd | 11 tests/testthat/test-assertions.R | 42 - tests/testthat/test-calculate_properties.R | 102 +- tests/testthat/test-movebank_api.R | 60 - tests/testthat/test-movebank_constants.R |only tests/testthat/test-movebank_get_vocabulary.R | 32 tests/testthat/test-movebank_speed.R | 23 tests/testthat/test-mt_aeqd_crs.R | 26 tests/testthat/test-mt_as_move2.R | 41 tests/testthat/test-mt_as_track_attribute.R | 30 tests/testthat/test-mt_filter_unique.R | 80 - tests/testthat/test-mt_interpolate.R | 85 +- tests/testthat/test-mt_read.R | 19 tests/testthat/test-mt_read_speed.R | 6 tests/testthat/test-mt_set_track_id.R | 2 tests/testthat/test-mt_sim_brownian_motion.R | 68 - tests/testthat/test-mt_stack.R | 160 ++- tests/testthat/test-mt_track_id.R | 4 tests/testthat/test-print.R | 49 - tests/testthat/test-round_trip_rbind.R | 10 tests/testthat/test-segments.R | 20 tests/testthat/test-sf.R | 2 tests/testthat/test-subset.R | 20 tests/testthat/test-tidyr.R | 12 vignettes/albatross.Rmd | 42 - vignettes/filtering_tracks.Rmd | 6 vignettes/movebank.Rmd | 194 +++- vignettes/programming_move2_object.Rmd | 8 vignettes/rosm.cache |only vignettes/trajectory_analysis.Rmd | 15 70 files changed, 3560 insertions(+), 3247 deletions(-)
Title: Toolbox for Model Building and Forecasting
Description: Implements functions and instruments for regression model building and its
application to forecasting. The main scope of the package is in variables selection
and models specification for cases of time series data. This includes promotional
modelling, selection between different dynamic regressions with non-standard
distributions of errors, selection based on cross validation, solutions to the fat
regression model problem and more. Models developed in the package are tailored
specifically for forecasting purposes. So as a results there are several methods
that allow producing forecasts from these models and visualising them.
Author: Ivan Svetunkov [aut, cre] ,
Yves R. Sagaert [ctb]
Maintainer: Ivan Svetunkov <ivan@svetunkov.com>
Diff between greybox versions 2.0.2 dated 2024-08-27 and 2.0.3 dated 2024-12-09
greybox-2.0.2/greybox/R/nemenyi.R |only greybox-2.0.3/greybox/DESCRIPTION | 16 greybox-2.0.3/greybox/MD5 | 131 ++-- greybox-2.0.3/greybox/NAMESPACE | 3 greybox-2.0.3/greybox/NEWS | 14 greybox-2.0.3/greybox/R/AutomaticDemandIdentifier.R | 42 + greybox-2.0.3/greybox/R/coefbootstrap.R | 28 greybox-2.0.3/greybox/R/dsrboot.R | 14 greybox-2.0.3/greybox/R/greybox-package.R | 3 greybox-2.0.3/greybox/R/ro.R | 63 +- greybox-2.0.3/greybox/R/tableplot.R | 1 greybox-2.0.3/greybox/inst/doc/alm.html | 581 ++++++++++---------- greybox-2.0.3/greybox/inst/doc/greybox.html | 217 +++---- greybox-2.0.3/greybox/inst/doc/maUsingGreybox.html | 242 ++++---- greybox-2.0.3/greybox/inst/doc/ro.html | 113 +-- greybox-2.0.3/greybox/man/ALaplace.Rd | 2 greybox-2.0.3/greybox/man/BCNormal.Rd | 2 greybox-2.0.3/greybox/man/Distributions.Rd | 2 greybox-2.0.3/greybox/man/FNormal.Rd | 2 greybox-2.0.3/greybox/man/InformationCriteria.Rd | 2 greybox-2.0.3/greybox/man/Laplace.Rd | 2 greybox-2.0.3/greybox/man/LogitNormal.Rd | 2 greybox-2.0.3/greybox/man/SDistribution.Rd | 2 greybox-2.0.3/greybox/man/TPLNormal.Rd | 2 greybox-2.0.3/greybox/man/accuracy.Rd | 2 greybox-2.0.3/greybox/man/actuals.Rd | 2 greybox-2.0.3/greybox/man/aid.Rd | 2 greybox-2.0.3/greybox/man/alm.Rd | 2 greybox-2.0.3/greybox/man/association.Rd | 2 greybox-2.0.3/greybox/man/coef.alm.Rd | 2 greybox-2.0.3/greybox/man/coefbootstrap.Rd | 2 greybox-2.0.3/greybox/man/cramer.Rd | 2 greybox-2.0.3/greybox/man/detectdst.Rd | 2 greybox-2.0.3/greybox/man/determination.Rd | 2 greybox-2.0.3/greybox/man/dsrboot.Rd | 4 greybox-2.0.3/greybox/man/error-measures.Rd | 2 greybox-2.0.3/greybox/man/errorType.Rd | 2 greybox-2.0.3/greybox/man/extractScale.Rd | 2 greybox-2.0.3/greybox/man/greybox.Rd | 4 greybox-2.0.3/greybox/man/hm.Rd | 2 greybox-2.0.3/greybox/man/implant.Rd | 2 greybox-2.0.3/greybox/man/isFunctions.Rd | 2 greybox-2.0.3/greybox/man/lmCombine.Rd | 2 greybox-2.0.3/greybox/man/lmDynamic.Rd | 2 greybox-2.0.3/greybox/man/mcor.Rd | 2 greybox-2.0.3/greybox/man/measures.Rd | 2 greybox-2.0.3/greybox/man/nparam.Rd | 2 greybox-2.0.3/greybox/man/outlierdummy.Rd | 2 greybox-2.0.3/greybox/man/pcor.Rd | 2 greybox-2.0.3/greybox/man/pinball.Rd | 2 greybox-2.0.3/greybox/man/plot.greybox.Rd | 2 greybox-2.0.3/greybox/man/pointIC.Rd | 2 greybox-2.0.3/greybox/man/pointLik.Rd | 2 greybox-2.0.3/greybox/man/polyprod.Rd | 2 greybox-2.0.3/greybox/man/predict.greybox.Rd | 2 greybox-2.0.3/greybox/man/rectNormal.Rd | 2 greybox-2.0.3/greybox/man/rmcb.Rd | 2 greybox-2.0.3/greybox/man/ro.Rd | 12 greybox-2.0.3/greybox/man/sm.Rd | 2 greybox-2.0.3/greybox/man/spread.Rd | 2 greybox-2.0.3/greybox/man/stepwise.Rd | 2 greybox-2.0.3/greybox/man/tableplot.Rd | 2 greybox-2.0.3/greybox/man/temporaldummy.Rd | 2 greybox-2.0.3/greybox/man/xregExpander.Rd | 2 greybox-2.0.3/greybox/man/xregMultiplier.Rd | 2 greybox-2.0.3/greybox/man/xregTransformer.Rd | 2 greybox-2.0.3/greybox/src/polyMult.cpp | 4 67 files changed, 823 insertions(+), 765 deletions(-)
Title: Tools for Cleaning Rectangular Data
Description: A dependency-free collection of simple functions for cleaning
rectangular data. This package allows to detect, count and replace
values or discard rows/columns using a predicate function. In
addition, it provides tools to check conditions and return informative
error messages.
Author: Nicolas Frerebeau [aut, cre] ,
Brice Lebrun [ctb] ,
Universite Bordeaux Montaigne [fnd],
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between arkhe versions 1.8.0 dated 2024-11-07 and 1.9.0 dated 2024-12-09
DESCRIPTION | 7 ++-- MD5 | 52 +++++++++++++++++----------------- NAMESPACE | 9 ++++-- NEWS.md | 9 +++++- R/AllGenerics.R | 20 ++++++------- R/arkhe-deprecated.R | 25 +++++++++++++++- R/arkhe-package.R | 6 ++-- R/assert.R | 9 ++++-- R/compact.R | 4 +- R/discard.R | 4 +- R/keep.R | 4 +- R/seek.R | 13 ++------ README.md | 64 +++++++++++++++++++++++++++---------------- build/partial.rdb |binary inst/tinytest/test_assert.R | 1 inst/tinytest/test_compact.R | 10 +++--- inst/tinytest/test_discard.R | 8 ++--- inst/tinytest/test_keep.R | 10 +++--- inst/tinytest/test_seek.R | 8 ++--- man/arkhe-deprecated.Rd | 11 ++++++- man/arkhe-package.Rd | 6 ++-- man/assert_length.Rd | 12 ++++++-- man/assert_type.Rd | 2 - man/compact.Rd | 10 +++--- man/discard.Rd | 10 +++--- man/keep.Rd | 10 +++--- man/seek.Rd | 2 - 27 files changed, 194 insertions(+), 132 deletions(-)
Title: Extract 'REDCap' Databases into Tidy 'Tibble's
Description: Convert 'REDCap' exports into tidy tables for easy handling of 'REDCap' repeat instruments and event arms.
Author: Richard Hanna [aut, cre] ,
Stephan Kadauke [aut] ,
Ezra Porter [aut]
Maintainer: Richard Hanna <richardshanna91@gmail.com>
Diff between REDCapTidieR versions 1.2.0 dated 2024-10-23 and 1.2.1 dated 2024-12-09
DESCRIPTION | 8 +++---- MD5 | 24 +++++++++++------------ NAMESPACE | 1 NEWS.md | 7 +++++- R/REDCapTidieR-package.R | 1 R/checks.R | 10 ++++----- R/clean_redcap_long.R | 2 - R/combine_checkboxes.R | 18 ++++++++--------- R/read_redcap.R | 39 ++++++++++++++++++++++---------------- R/utils.R | 6 ++++- inst/doc/REDCapTidieR.R | 2 - tests/testthat/test-read_redcap.R | 14 ++++++++++++- tests/testthat/test-utils.R | 6 +++++ 13 files changed, 87 insertions(+), 51 deletions(-)
Title: Agreement of Nominal Scale Raters (with a Gold Standard)
Description: Estimate agreement of a group of raters with a gold standard rating
on a nominal scale. For a single gold standard rater the average pairwise
agreement of raters with this gold standard is provided. For a group of (gold
standard) raters the approach of S. Vanbelle, A. Albert (2009)
<doi:10.1007/s11336-009-9116-1> is implemented. Bias and standard error are
estimated via delete-1 jackknife.
Author: Matthias Kuhn [aut, cre] ,
Jonas Breidenstein [aut]
Maintainer: Matthias Kuhn <matthias.kuhn@tu-dresden.de>
Diff between kappaGold versions 0.3.2 dated 2024-09-30 and 0.4.0 dated 2024-12-09
DESCRIPTION | 17 ++-- MD5 | 37 +++++---- NAMESPACE | 5 + NEWS.md | 8 +- R/data.R | 42 ++++++++++ R/kappa.R | 135 ++++++++++------------------------- R/kappaGold-package.R | 4 - R/kappa_inference.R |only R/vanbelle.R | 34 ++++---- README.md | 69 +++++++++++++---- build/partial.rdb |binary data/agreem_binary.rda |only data/depression.rda |only man/agreem_binary.Rd |only man/depression.Rd |only man/kappa2.Rd | 18 ++-- man/kappa_test.Rd | 26 +++--- man/kappa_test_corr.Rd |only man/kappam_gold.Rd | 25 ++++-- man/kappam_vanbelle.Rd | 16 +--- tests/testthat/test-kappa.R | 30 +------ tests/testthat/test-kappaInference.R |only tests/testthat/test-vanbelle.R | 14 ++- 23 files changed, 266 insertions(+), 214 deletions(-)
Title: Client for World Banks's 'Indicators' and 'Poverty and
Inequality Platform (PIP)' APIs
Description: Download and search data from the 'World Bank Indicators
API', which provides access to nearly 16,000 time series indicators.
See
<https://datahelpdesk.worldbank.org/knowledgebase/articles/889392-about-the-indicators-api-documentation>
for further details about the API.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between worldbank versions 0.3.0 dated 2024-08-26 and 0.4.0 dated 2024-12-09
worldbank-0.3.0/worldbank/tests/testthat/_snaps/api.md |only worldbank-0.4.0/worldbank/DESCRIPTION | 10 worldbank-0.4.0/worldbank/MD5 | 23 + worldbank-0.4.0/worldbank/NAMESPACE | 2 worldbank-0.4.0/worldbank/NEWS.md | 6 worldbank-0.4.0/worldbank/R/assertions.R | 4 worldbank-0.4.0/worldbank/R/fone.R |only worldbank-0.4.0/worldbank/R/indicators.R | 28 +- worldbank-0.4.0/worldbank/R/pip.R | 14 - worldbank-0.4.0/worldbank/R/utils.R | 9 worldbank-0.4.0/worldbank/README.md | 125 +++++----- worldbank-0.4.0/worldbank/man/figures/README-plotting-1.png |binary worldbank-0.4.0/worldbank/man/fone.Rd |only worldbank-0.4.0/worldbank/tests/testthat/_snaps/indicators.md |only worldbank-0.4.0/worldbank/tests/testthat/test-fone.R |only 15 files changed, 121 insertions(+), 100 deletions(-)
Title: 'shiny' App to Analyze Pakistan's Population Census Data
Description: Provides tools for analyzing Pakistan's Population Censuses data via the 'PakPC2023' and 'PakPC2017' R packages. Designed for researchers, policymakers, and professionals, the app enables in-depth numerical and graphical analysis, including detailed cross-tabulations and insights. With diverse statistical models and visualization options, it supports informed decision-making in social and economic policy. This tool enhances users' ability to explore and interpret census data, providing valuable insights for effective planning and analysis across various fields.
Author: Muhammad Yaseen [aut, cre, cph]
,
Muhammad Arfan Dilber [ctb],
Zahid Asghar [ctb]
Maintainer: Muhammad Yaseen <myaseen208@gmail.com>
Diff between PakPC versions 0.2.0 dated 2024-11-11 and 0.3.0 dated 2024-12-09
DESCRIPTION | 6 MD5 | 10 - NEWS.md | 8 + README.md | 16 ++ inst/shinyapp/rsconnect/shinyapps.io/myaseen208/PakPC.dcf | 2 inst/shinyapp/ui.R | 87 ++++++++++++-- 6 files changed, 105 insertions(+), 24 deletions(-)
More information about warehouseTools at CRAN
Permanent link
Title: OPTICS K-Xi Density-Based Clustering
Description: Density-based clustering methods are well adapted to the clustering of high-dimensional data and enable the discovery of core groups of various shapes despite large amounts of noise. This package provides a novel density-based cluster extraction method, OPTICS k-Xi, and a framework to compare k-Xi models using distance-based metrics to investigate datasets with unknown number of clusters. The vignette first introduces density-based algorithms with simulated datasets, then presents and evaluates the k-Xi cluster extraction method. Finally, the models comparison framework is described and experimented on 2 genetic datasets to identify groups and their discriminating features. The k-Xi algorithm is a novel OPTICS cluster extraction method that specifies directly the number of clusters and does not require fine-tuning of the steepness parameter as the OPTICS Xi method. Combined with a framework that compares models with varying parameters, the OPTICS k-Xi method can identify groups in nois [...truncated...]
Author: Thomas Charlon [aut, cre]
Maintainer: Thomas Charlon <charlon@protonmail.com>
Diff between opticskxi versions 0.1 dated 2019-07-18 and 1.1.0 dated 2024-12-09
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Title: Real-Time Disease Surveillance
Description: Supports modelling real-time case data to facilitate the real-time
surveillance of infectious diseases and other point phenomena. The package provides automated computational grid generation over
an area of interest with methods to map covariates between geographies, model fitting including spatially aggregated case counts,
and predictions and visualisation. Both Bayesian and maximum likelihood methods are provided. Log-Gaussian Cox Processes are described by
Diggle et al. (2013) <doi:10.1214/13-STS441> and we provide both the low-rank approximation for Gaussian processes
described by Solin and Särkkä (2020) <doi:10.1007/s11222-019-09886-w> and Riutort-Mayol et al (2023) <doi:10.1007/s11222-022-10167-2> and the
nearest neighbour Gaussian process described by Datta et al (2016) <doi:10.1080/01621459.2015.1044091>. 'cmdstanr' can be downloaded at <https://mc-stan.org/cmdstanr/>.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <s.i.watson@bham.ac.uk>
Diff between rts2 versions 0.7.6 dated 2024-09-06 and 0.7.7 dated 2024-12-09
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Title: Econometric Tools for Performance and Risk Analysis
Description: Collection of econometric functions for performance and risk
analysis. In addition to standard risk and performance metrics, this
package aims to aid practitioners and researchers in utilizing the latest
research in analysis of non-normal return streams. In general, it is most
tested on return (rather than price) data on a regular scale, but most
functions will work with irregular return data as well, and increasing
numbers of functions will work with P&L or price data where possible.
Author: Brian G. Peterson [cre, aut, cph],
Peter Carl [aut, cph],
Kris Boudt [ctb, cph],
Ross Bennett [ctb],
Joshua Ulrich [ctb],
Eric Zivot [ctb],
Dries Cornilly [ctb],
Eric Hung [ctb],
Matthieu Lestel [ctb],
Kyle Balkissoon [ctb],
Diethelm Wuertz [ctb],
An [...truncated...]
Maintainer: Brian G. Peterson <brian@braverock.com>
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PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/edhec.Rd | 9 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/legend.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/managers.Rd | 2 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/mean.geometric.Rd | 8 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/portfolio-moments.Rd |only PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.AnnualizedReturns.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.Autocorrelation.Rd | 7 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.CAPM.Rd | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.CalendarReturns.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.Correlation.Rd | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.Distributions.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.DownsideRisk.Rd | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.DownsideRiskRatio.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.DrawdownsRatio.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.HigherMoments.Rd | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.InformationRatio.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.MonthlyReturns.Rd | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.RollingPeriods.Rd | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.SpecificRisk.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/table.Variability.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/test_returns.Rd | 6 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/test_weights.Rd | 6 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/textplot.Rd | 4 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/to.period.contributions.Rd | 6 PerformanceAnalytics-2.0.8/PerformanceAnalytics/man/unique-comoments.Rd |only PerformanceAnalytics-2.0.8/PerformanceAnalytics/src/NCEHelper.c |only PerformanceAnalytics-2.0.8/PerformanceAnalytics/src/comomentsEstimators.c | 6 PerformanceAnalytics-2.0.8/PerformanceAnalytics/src/init.c | 11 PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/EstimationComoments.Rnw | 13 PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/PA-Bacon.Rmd |only PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/PA-Bacon.pdf |only PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/PA-charts.Rnw | 11 PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/PerformanceAnalyticsChartsPresentation-Meielisalp-2007.Rnw | 5 PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/PerformanceAnalyticsPresentation-UseR-2007.Rnw | 9 PerformanceAnalytics-2.0.8/PerformanceAnalytics/vignettes/textplotPresentation-CRUG-2011.pdf.asis |only 283 files changed, 2856 insertions(+), 1636 deletions(-)
More information about PerformanceAnalytics at CRAN
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Title: Copernicus Digital Elevation Models
Description: Copernicus Digital Elevation Model datasets (DEM) of 90 and 30 meters resolution using the 'awscli' command line tool. The Copernicus (DEM) is included in the Registry of Open Data on 'AWS (Amazon Web Services)' and represents the surface of the Earth including buildings, infrastructure and vegetation.
Author: Lampros Mouselimis [aut, cre]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between CopernicusDEM versions 1.0.4 dated 2024-08-17 and 1.0.5 dated 2024-12-09
DESCRIPTION | 11 MD5 | 22 - NEWS.md | 6 README.md | 2 inst/doc/Copernicus_Digital_Elevation_Models.R | 289 ++++++++++------------ inst/doc/Copernicus_Digital_Elevation_Models.Rmd | 143 +++++----- inst/doc/Copernicus_Digital_Elevation_Models.html | 206 ++++++++------- vignettes/Copernicus_Digital_Elevation_Models.Rmd | 143 +++++----- vignettes/leaflet_map.png |binary vignettes/progress_logs.png |binary vignettes/tarandus_elevation.png |binary vignettes/wolves_elevation.png |binary 12 files changed, 421 insertions(+), 401 deletions(-)
Title: Fitting Latent Class Vector-Autoregressive (VAR) Models
Description: Estimates latent class vector-autoregressive models via EM algorithm on time-series data for model-based clustering and classification. Includes model selection criteria for selecting the number of lags and clusters.
Author: Anja Ernst [aut, cre],
Jonas Haslbeck [aut]
Maintainer: Anja Ernst <a.f.ernst@rug.nl>
Diff between ClusterVAR versions 0.0.7 dated 2024-07-10 and 0.0.8 dated 2024-12-09
ClusterVAR-0.0.7/ClusterVAR/data/datalist |only ClusterVAR-0.0.8/ClusterVAR/DESCRIPTION | 6 - ClusterVAR-0.0.8/ClusterVAR/MD5 | 28 ++--- ClusterVAR-0.0.8/ClusterVAR/NEWS | 12 +- ClusterVAR-0.0.8/ClusterVAR/R/LCVAR.R | 21 ++-- ClusterVAR-0.0.8/ClusterVAR/R/callEMFuncsPARALLELIZED.R | 2 ClusterVAR-0.0.8/ClusterVAR/R/checkSingularitySigma.R | 2 ClusterVAR-0.0.8/ClusterVAR/R/checkVarianceY.R |only ClusterVAR-0.0.8/ClusterVAR/R/createX.R | 22 ++-- ClusterVAR-0.0.8/ClusterVAR/R/plot.ClusterVAR.R | 35 +++++-- ClusterVAR-0.0.8/ClusterVAR/R/plotHeat.R | 75 ++++------------ ClusterVAR-0.0.8/ClusterVAR/build/partial.rdb |binary ClusterVAR-0.0.8/ClusterVAR/man/LCVAR.Rd | 17 +++ ClusterVAR-0.0.8/ClusterVAR/man/clusterVAR_internal.Rd | 3 ClusterVAR-0.0.8/ClusterVAR/man/coef.ClusterVAR.Rd | 2 ClusterVAR-0.0.8/ClusterVAR/man/plot.ClusterVAR.Rd | 4 16 files changed, 118 insertions(+), 111 deletions(-)
Title: Methods for Quantitative Magnetic Resonance Imaging ('qMRI')
Description: Implementation of methods for estimation of quantitative maps
from Multi-Parameter Mapping (MPM) acquisitions (Weiskopf et al. (2013)
<doi:10.3389/fnins.2013.00095>) and analysis of Inversion Recovery MRI data.
Usage of the package is described in
Polzehl and Tabelow (2023),
"Magnetic Resonance Brain Imaging", 2nd Edition, Chapter 6 and 7, Springer, Use R! Series.
<doi:10.1007/978-3-031-38949-8>.
J. Polzehl and K. Tabelow (2023), "Magnetic Resonance Brain Imaging - Modeling and Data Analysis Using R: Code and Data."
<doi:10.20347/WIAS.DATA.6> provides extensive example code and data.
Author: Joerg Polzehl [aut],
Karsten Tabelow [aut, cre],
WIAS Berlin [cph, fnd]
Maintainer: Karsten Tabelow <karsten.tabelow@wias-berlin.de>
Diff between qMRI versions 1.2.7.6 dated 2024-05-22 and 1.2.7.8 dated 2024-12-09
qMRI-1.2.7.6/qMRI/tests |only qMRI-1.2.7.8/qMRI/DESCRIPTION | 8 +++---- qMRI-1.2.7.8/qMRI/MD5 | 26 +++++++++++------------- qMRI-1.2.7.8/qMRI/R/estimateIR.R | 6 ++--- qMRI-1.2.7.8/qMRI/build/partial.rdb |binary qMRI-1.2.7.8/qMRI/inst/doc/IRMRI-Example.R | 2 - qMRI-1.2.7.8/qMRI/inst/doc/IRMRI-Example.Rnw | 2 - qMRI-1.2.7.8/qMRI/inst/doc/IRMRI-Example.pdf |binary qMRI-1.2.7.8/qMRI/inst/doc/qMRI-Example.pdf |binary qMRI-1.2.7.8/qMRI/vignettes/IRMRI-Example-2.pdf |binary qMRI-1.2.7.8/qMRI/vignettes/IRMRI-Example-9.pdf |binary qMRI-1.2.7.8/qMRI/vignettes/IRMRI-Example.Rnw | 2 - qMRI-1.2.7.8/qMRI/vignettes/qMRI-Example-11.pdf |binary qMRI-1.2.7.8/qMRI/vignettes/qMRI-Example-8.pdf |binary 14 files changed, 22 insertions(+), 24 deletions(-)
Title: Library Search Against Electron Ionization Mass Spectral
Databases
Description: Perform library searches against electron ionization mass spectral
databases using either the API provided by 'MS Search' software
(<https://chemdata.nist.gov/dokuwiki/doku.php?id=chemdata:nistlibs>) or
custom implementations of the Identity and Similarity algorithms.
Author: Andrey Samokhin [aut, cre, cph]
Maintainer: Andrey Samokhin <andrey.s.samokhin@gmail.com>
Diff between mssearchr versions 0.1.1 dated 2024-06-25 and 0.2.0 dated 2024-12-09
mssearchr-0.1.1/mssearchr/tests/testthat/data/SRCRESLT.TXT |only mssearchr-0.1.1/mssearchr/tests/testthat/data/intst_presence.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/library_search_alkanes.rda |only mssearchr-0.1.1/mssearchr/tests/testthat/data/library_search_synthetic.rda |only mssearchr-0.1.1/mssearchr/tests/testthat/data/merging_synon_fields.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/ms_delimiters.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/ms_number_format.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/mz_presence.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/name_absence.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/nonunique_field.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/numpeaks_absence.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/numpeaks_incorrect.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/reading_cas_and_nist.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/reading_cas_and_nist2.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/reading_ordinary_fields.msp |only mssearchr-0.1.1/mssearchr/tests/testthat/data/srcreslt.rda |only mssearchr-0.1.1/mssearchr/tests/testthat/data/synthetic_spectra.rda |only mssearchr-0.1.1/mssearchr/tests/testthat/test-msp_format.R |only mssearchr-0.2.0/mssearchr/DESCRIPTION | 8 mssearchr-0.2.0/mssearchr/MD5 | 71 +-- mssearchr-0.2.0/mssearchr/NAMESPACE | 18 mssearchr-0.2.0/mssearchr/NEWS.md | 18 mssearchr-0.2.0/mssearchr/R/RcppExports.R | 7 mssearchr-0.2.0/mssearchr/R/library_search_nist_api.R | 11 mssearchr-0.2.0/mssearchr/R/library_search_r.R | 50 +- mssearchr-0.2.0/mssearchr/R/mass_spectra_preprocessing.R | 80 ++- mssearchr-0.2.0/mssearchr/R/msp_format.R | 10 mssearchr-0.2.0/mssearchr/inst/CITATION |only mssearchr-0.2.0/mssearchr/man/LibrarySearch.Rd | 175 ++++--- mssearchr-0.2.0/mssearchr/man/LibrarySearchUsingNistApi.Rd | 224 +++++----- mssearchr-0.2.0/mssearchr/man/PreprocessMassSpectra.Rd | 161 +++---- mssearchr-0.2.0/mssearchr/man/WriteMsp.Rd | 108 ++-- mssearchr-0.2.0/mssearchr/src/RcppExports.cpp | 9 mssearchr-0.2.0/mssearchr/src/identity_algorithm.cpp | 66 +- mssearchr-0.2.0/mssearchr/tests/testthat/data/library_search |only mssearchr-0.2.0/mssearchr/tests/testthat/data/parse_srcreslt |only mssearchr-0.2.0/mssearchr/tests/testthat/data/read_msp |only mssearchr-0.2.0/mssearchr/tests/testthat/test-library_search_nist_api.R | 4 mssearchr-0.2.0/mssearchr/tests/testthat/test-library_search_r.R | 24 - mssearchr-0.2.0/mssearchr/tests/testthat/test-mass_spectra_preprocessing.R | 2 mssearchr-0.2.0/mssearchr/tests/testthat/test-read_msp.R |only mssearchr-0.2.0/mssearchr/tests/testthat/test-write_msp.R |only 42 files changed, 557 insertions(+), 489 deletions(-)
Title: Classes for Relational Data
Description: Tools to create and modify network objects. The network class can represent a range of relational data types, and supports arbitrary vertex/edge/graph attributes.
Author: Carter T. Butts [aut, cre],
David Hunter [ctb],
Mark Handcock [ctb],
Skye Bender-deMoll [ctb],
Jeffrey Horner [ctb],
Li Wang [ctb],
Pavel N. Krivitsky [ctb] ,
Brendan Knapp [ctb] ,
Michal Bojanowski [ctb] ,
Chad Klumb [ctb]
Maintainer: Carter T. Butts <buttsc@uci.edu>
Diff between network versions 1.18.2 dated 2023-12-05 and 1.19.0 dated 2024-12-09
ChangeLog | 15 ++ DESCRIPTION | 10 - MD5 | 105 +++++++------- NAMESPACE | 2 R/access.R | 148 +++++++------------- R/as.edgelist.R | 2 R/coercion.R | 20 +- R/constructors.R | 7 R/fileio.R | 6 R/layout.R | 2 R/misc.R | 5 R/network-package.R | 8 - R/operators.R | 8 - R/plot.R | 6 build/partial.rdb |only build/vignette.rds |binary inst/doc/networkVignette.pdf |binary man/add.edges.Rd | 2 man/add.vertices.Rd | 2 man/as.edgelist.Rd | 2 man/as.matrix.network.Rd | 6 man/as.network.matrix.Rd | 2 man/as.sociomatrix.Rd | 2 man/attribute.methods.Rd | 2 man/deletion.methods.Rd | 2 man/edgeset.constructors.Rd | 2 man/get.edges.Rd | 2 man/get.inducedSubgraph.Rd | 7 man/get.neighborhood.Rd | 2 man/is.adjacent.Rd | 2 man/loading.attributes.Rd | 2 man/network-internal.Rd | 1 man/network-operators.Rd | 2 man/network-package.Rd | 7 man/network.Rd | 2 man/network.arrow.Rd | 2 man/network.density.Rd | 2 man/network.dyadcount.Rd | 2 man/network.edgecount.Rd | 2 man/network.extraction.Rd | 2 man/network.indicators.Rd | 2 man/network.initialize.Rd | 2 man/network.layout.Rd | 2 man/network.naedgecount.Rd | 2 man/network.size.Rd | 2 man/network.vertex.Rd | 2 man/permute.vertexIDs.Rd | 9 - man/plot.network.Rd | 2 man/prod.network.Rd | 2 man/read.paj.Rd | 6 man/sum.network.Rd | 2 man/which.matrix.type.Rd | 2 src/access.c | 75 +++++++--- tests/testthat/test-read.paj.R | 302 ++++++++++++++++++++--------------------- 54 files changed, 422 insertions(+), 393 deletions(-)
Title: Get Data from the Swiss Federal Statistical Office
Description: Search and download data from the Swiss Federal Statistical Office (BFS) APIs <https://www.bfs.admin.ch/>.
Author: Felix Luginbuhl [aut, cre, cph]
,
Janosch Brenzel-Weiss [ctb],
Joao Martins [ctb],
Philipp Baumann [ctb]
Maintainer: Felix Luginbuhl <felix.luginbuhl@protonmail.ch>
Diff between BFS versions 0.5.11 dated 2024-11-27 and 0.5.12 dated 2024-12-09
DESCRIPTION | 6 ++-- MD5 | 14 ++++----- NEWS.md | 5 +++ R/bfs_get_base_maps.R | 25 +++++++++-------- README.md | 45 +++++++++++++++++++++++++++++++- man/bfs_get_base_maps.Rd | 5 ++- man/figures/base_maps.png |binary tests/testthat/test-bfs_get_base_maps.R | 16 +++++++++++ 8 files changed, 93 insertions(+), 23 deletions(-)
Title: Tabular Data Suppression using Gaussian Elimination
Description: A statistical disclosure control tool to protect tables by suppression
using the Gaussian elimination secondary suppression algorithm
(Langsrud, 2024) <doi:10.1007/978-3-031-69651-0_6>. A suggestion is
to start by working with functions SuppressSmallCounts() and
SuppressDominantCells(). These functions use primary suppression functions for
the minimum frequency rule and the dominance rule, respectively. Novel
functionality for suppression of disclosive cells is also included. General
primary suppression functions can be supplied as input to the general working
horse function, GaussSuppressionFromData(). Suppressed frequencies can be
replaced by synthetic decimal numbers as described in
Langsrud (2019) <doi:10.1007/s11222-018-9848-9>.
Author: Oeyvind Langsrud [aut, cre] ,
Daniel Lupp [aut] ,
Hege Boevelstad [ctb] ,
Vidar Norstein Klungre [rev] ,
Statistics Norway [cph]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>
Diff between GaussSuppression versions 0.9.0 dated 2024-09-24 and 0.9.2 dated 2024-12-09
DESCRIPTION | 10 - MD5 | 46 ++--- NAMESPACE | 6 NEWS.md | 50 ++++++ R/Candidates.R | 2 R/GaussSuppressionFromData.R | 27 ++- R/MagnitudeRule.R | 211 +++++++++++++++++++++++---- R/MaxContribution.R | 15 + R/SuppressDominantCells.R | 27 +++ R/SuppressSmallCounts.R | 11 + R/reexport.R | 12 + inst/doc/Magnitude_table_suppression.R | 2 inst/doc/Magnitude_table_suppression.Rmd | 2 inst/doc/Magnitude_table_suppression.html | 63 +++++--- man/FindDominantCells.Rd | 6 man/GaussSuppressionFromData.Rd | 6 man/MagnitudeRule.Rd | 51 +++++- man/SuppressDominantCells.Rd | 32 +++- man/SuppressFewContributors.Rd | 4 man/SuppressSmallCounts.Rd | 15 + man/reexports.Rd | 4 tests/testthat/test-DominanceRule.R | 133 ++++++++++++++++- tests/testthat/test-Wrappers.R | 234 ++++++++++++++++++++++++++++++ vignettes/Magnitude_table_suppression.Rmd | 2 24 files changed, 856 insertions(+), 115 deletions(-)
More information about GaussSuppression at CRAN
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Title: Small Count Rounding of Tabular Data
Description: A statistical disclosure control tool to protect frequency tables in cases where small values are sensitive. The function PLSrounding() performs small count rounding of necessary inner cells so that all small frequencies of cross-classifications to be published (publishable cells) are rounded. This is equivalent to changing micro data since frequencies of unique combinations are changed. Thus, additivity and consistency are guaranteed. The methodology is described in Langsrud and Heldal (2018) <https://www.researchgate.net/publication/327768398_An_Algorithm_for_Small_Count_Rounding_of_Tabular_Data>.
Author: Oeyvind Langsrud [aut, cre],
Johan Heldal [aut]
Maintainer: Oeyvind Langsrud <oyl@ssb.no>
Diff between SmallCountRounding versions 1.0.8 dated 2024-10-22 and 1.1.0 dated 2024-12-09
DESCRIPTION | 10 ++++---- MD5 | 18 +++++++-------- NEWS.md | 27 +++++++++++++++++++++++ R/PLSrounding.R | 25 ++++++++++++++++++--- inst/doc/Introduction_to_SmallCountRounding.R | 11 +++++---- inst/doc/Introduction_to_SmallCountRounding.Rmd | 17 +++++++------- inst/doc/Introduction_to_SmallCountRounding.html | 27 +++++++++++------------ man/PLSrounding.Rd | 15 ++++++++++-- tests/testthat/test-PLSrounding.R | 25 ++++++++++++--------- vignettes/Introduction_to_SmallCountRounding.Rmd | 17 +++++++------- 10 files changed, 128 insertions(+), 64 deletions(-)
More information about SmallCountRounding at CRAN
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Title: Transcriptomic Atlas of Neuroimaging Derived Phenotypes
Description: Contains functions to query and visualize the Neuroimaging features
associated with genetically regulated gene expression (GReX). The primary utility,
neuroimaGene(), relies on a list of user-defined genes and returns a table of
neuroimaging features (NIDPs) associated with each gene. This resource
is designed to assist in the interpretation of genome-wide and transcriptome-wide
association studies that evaluate brain related traits. Bledsoe (2024)
<doi:10.1016/j.ajhg.2024.06.002>. In addition there are several visualization
functions that generate summary plots and 2-dimensional visualizations of regional
brain measures. Mowinckel (2020).
Author: Xavier Bledsoe [aut, cre] ,
Eric Gamazon [aut]
Maintainer: Xavier Bledsoe <xavier.bledsoe@vanderbilt.edu>
Diff between neuroimaGene versions 0.1.1 dated 2024-09-20 and 0.1.2 dated 2024-12-09
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ R/anno_doc.R | 4 ++-- R/plot_gn_nidp.R | 6 +++--- R/plot_nidps.R | 7 +++---- README.md |only data/nidp_anno.RData |binary man/anno.Rd | 4 ++-- 8 files changed, 21 insertions(+), 21 deletions(-)
Title: Mean Comparison in 'ggplot2'
Description: Add mean comparison annotations to a 'ggplot'.
This package provides an easy way to indicate if two or more groups are significantly different in a 'ggplot'.
Usually you do not need to specify the test method, you only need to tell stat_compare() whether you want to perform a parametric test or a nonparametric test, and stat_compare() will automatically choose the appropriate test method based on your data.
For comparisons between two groups, the p-value is calculated by t-test (parametric) or Wilcoxon rank sum test (nonparametric). For comparisons among more than two groups, the p-value is calculated by One-way ANOVA (parametric) or Kruskal-Wallis test (nonparametric).
Author: Hao Wang [aut, cre]
Maintainer: Hao Wang <wanghao8772@gmail.com>
Diff between ggcompare versions 0.0.2 dated 2024-10-07 and 0.0.3 dated 2024-12-09
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 8 ++++++-- R/GGExtensions.R | 10 +++++++--- man/geom_bracket.Rd | 2 ++ man/stat_compare.Rd | 8 +++++--- 6 files changed, 28 insertions(+), 16 deletions(-)
Title: An Extension of the Gap Statistic for Ordinal/Categorical Data
Description: The gap statistic approach is extended to estimate the number of clusters for categorical response format data. This approach and accompanying software is designed to be used with the output of any clustering algorithm and with distances specifically designed for categorical (i.e. multiple choice) or ordinal survey response data.
Author: Jeffrey Miecznikowski [aut],
Eduardo Cortes [aut, cre]
Maintainer: Eduardo Cortes <ecortesg@buffalo.edu>
Diff between DiscreteGapStatistic versions 0.1.0 dated 2024-10-25 and 1.0.0 dated 2024-12-09
DESCRIPTION | 11 - MD5 | 29 ++- NAMESPACE | 2 R/AuxFuns.R |only R/DiscreteClusGapFuns.R | 243 +++++++++++++++++++++++++++---- R/VisualFuns.R | 39 ++++ README.md | 210 +++++++++++++++++++++++--- man/ResHeatmap.Rd | 12 + man/clusGapDiscr.Rd | 18 +- man/clusGapDiscr0.Rd |only man/clusterFunSel.Rd |only man/figures/README-clusGapDiscrFit-1.png |binary man/figures/README-clusGapDiscrFit-2.png |binary man/figures/README-clusGapDiscrFit-3.png |binary man/figures/README-clusterRun-1.png |only man/figures/README-clusterRun-2.png |only man/figures/README-hclustRun-1.png |only man/figures/README-hclustRun-2.png |only man/figures/README-hclustRun-3.png |only man/kmodesD.Rd |only 20 files changed, 482 insertions(+), 82 deletions(-)
More information about DiscreteGapStatistic at CRAN
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