Title: Citizen Voting Age Population
Description: Works with the Citizen Voting Age Population special tabulation from the US Census Bureau <https://www.census.gov/programs-surveys/decennial-census/about/voting-rights/cvap.html>. Provides tools to download and process raw data. Also provides a downloading interface to processed data. Implements a very basic approach to estimate block level citizen voting age population from block group data.
Author: Christopher T. Kenny [aut, cre]
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Diff between cvap versions 0.1.4 dated 2023-07-01 and 0.1.5 dated 2024-03-21
cvap-0.1.4/cvap/R/utils-pipe.R |only cvap-0.1.4/cvap/man/pipe.Rd |only cvap-0.1.5/cvap/DESCRIPTION | 13 - cvap-0.1.5/cvap/LICENSE | 4 cvap-0.1.5/cvap/MD5 | 58 ++--- cvap-0.1.5/cvap/NAMESPACE | 24 +- cvap-0.1.5/cvap/NEWS.md | 3 cvap-0.1.5/cvap/R/data.R | 56 ++--- cvap-0.1.5/cvap/R/distribute.R | 24 +- cvap-0.1.5/cvap/R/geomander_borrow.R | 22 +- cvap-0.1.5/cvap/R/get.R | 14 - cvap-0.1.5/cvap/R/get_raw.R | 54 ++--- cvap-0.1.5/cvap/R/process.R | 26 +- cvap-0.1.5/cvap/R/url.R | 4 cvap-0.1.5/cvap/R/utils.R | 10 - cvap-0.1.5/cvap/R/vest_crosswalk.R | 48 ++-- cvap-0.1.5/cvap/README.md | 240 ++++++++++++------------ cvap-0.1.5/cvap/inst/extdata/County.csv | 80 ++++---- cvap-0.1.5/cvap/inst/extdata/Nation.csv | 28 +- cvap-0.1.5/cvap/man/cvap_census_url.Rd | 42 ++-- cvap-0.1.5/cvap/man/cvap_distribute.Rd | 82 ++++---- cvap-0.1.5/cvap/man/cvap_distribute_censable.Rd | 80 ++++---- cvap-0.1.5/cvap/man/cvap_get.Rd | 106 +++++----- cvap-0.1.5/cvap/man/cvap_get_raw.Rd | 54 ++--- cvap-0.1.5/cvap/man/cvap_process_dir.Rd | 60 +++--- cvap-0.1.5/cvap/man/cvap_process_file.Rd | 60 +++--- cvap-0.1.5/cvap/man/de_block.Rd | 36 +-- cvap-0.1.5/cvap/man/de_block_group.Rd | 38 +-- cvap-0.1.5/cvap/man/vest_crosswalk.Rd | 50 ++--- cvap-0.1.5/cvap/tests/testthat.R | 8 cvap-0.1.5/cvap/tests/testthat/test-get.R | 5 31 files changed, 666 insertions(+), 663 deletions(-)
Title: Tidy Characterizations of Model Performance
Description: Tidy tools for quantifying how well model fits to a data set
such as confusion matrices, class probability curve summaries, and
regression metrics (e.g., RMSE).
Author: Max Kuhn [aut],
Davis Vaughan [aut],
Emil Hvitfeldt [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>
Diff between yardstick versions 1.3.0 dated 2024-01-19 and 1.3.1 dated 2024-03-21
DESCRIPTION | 6 MD5 | 30 - NEWS.md | 8 R/surv-roc_curve_survival.R | 48 +- README.md | 24 - build/vignette.rds |binary inst/doc/grouping.html | 401 ++++++++++++------------- inst/doc/metric-types.html | 261 ++++++++-------- inst/doc/multiclass.html | 18 - tests/testthat/_snaps/aaa-metrics.md | 2 tests/testthat/_snaps/conf_mat.md | 8 tests/testthat/_snaps/error-handling.md | 6 tests/testthat/_snaps/template.md | 22 - tests/testthat/data/ref_roc_auc_survival.rds |binary tests/testthat/data/ref_roc_curve_survival.rds |binary tests/testthat/test-surv-roc_curve_survival.R | 100 ++++-- 16 files changed, 487 insertions(+), 447 deletions(-)
Title: Stepwise Regression Analysis
Description: The stepwise regression analysis is a statistical technique used to identify a subset of predictor variables essential for constructing predictive models. This package performs stepwise regression analysis across various regression models such as linear, logistic, Cox proportional hazards, Poisson, and gamma regression. It incorporates diverse stepwise regression algorithms like forward selection, backward elimination, and bidirectional elimination alongside the best subset method. Additionally, it offers a wide range of selection criteria, including Akaike Information Criterion (AIC), corrected AIC (AICc), Sawa Bayesian Information Criterion (BIC), Schwarz Bayesian Information Criterion (SBC), Significant Levels (SL), among others. Moreover, it facilitates the concurrent selection of multiple methods and criteria for variable selection. For user-friendly exploration and analysis, StepReg provides an intuitive R Shiny app.
Author: Junhui Li [cre] ,
Junhui Li [aut] ,
Kai Hu [aut],
Xiaohuan Lu [aut],
Kun Cheng [ctb],
Sushmita Nayak [ctb],
Cesar Bautista Sotelo [ctb],
Michael Lodato [ctb],
Robert H Brown [ctb],
Wenxin Liu [aut],
Lihua Julie Zhu [aut]
Maintainer: Junhui Li <junhui.li11@umassmed.edu>
Diff between StepReg versions 1.4.4 dated 2022-12-17 and 1.5.0 dated 2024-03-21
StepReg-1.4.4/StepReg/R/modelFitStat.R |only StepReg-1.4.4/StepReg/R/stepwiseCox.R |only StepReg-1.4.4/StepReg/R/stepwiseLogit.R |only StepReg-1.4.4/StepReg/inst/logo |only StepReg-1.4.4/StepReg/man/modelFitStat.Rd |only StepReg-1.4.4/StepReg/man/stepwiseCox.Rd |only StepReg-1.4.4/StepReg/man/stepwiseLogit.Rd |only StepReg-1.5.0/StepReg/DESCRIPTION | 48 StepReg-1.5.0/StepReg/LICENSE | 2 StepReg-1.5.0/StepReg/MD5 | 63 StepReg-1.5.0/StepReg/NAMESPACE | 55 StepReg-1.5.0/StepReg/R/CreditCard.R |only StepReg-1.5.0/StepReg/R/StepReg-package.R |only StepReg-1.5.0/StepReg/R/StepRegShinyApp.R |only StepReg-1.5.0/StepReg/R/constants.R |only StepReg-1.5.0/StepReg/R/plot.StepReg.R |only StepReg-1.5.0/StepReg/R/print.StepReg.R | 49 StepReg-1.5.0/StepReg/R/remission.R |only StepReg-1.5.0/StepReg/R/report.R |only StepReg-1.5.0/StepReg/R/stepwise.R | 557 +-- StepReg-1.5.0/StepReg/R/stepwiseUtils.R |only StepReg-1.5.0/StepReg/R/validateUtils.R |only StepReg-1.5.0/StepReg/R/zzz.R |only StepReg-1.5.0/StepReg/README.md | 122 StepReg-1.5.0/StepReg/build/vignette.rds |binary StepReg-1.5.0/StepReg/data |only StepReg-1.5.0/StepReg/inst/doc/StepReg.R | 305 +- StepReg-1.5.0/StepReg/inst/doc/StepReg.Rmd | 533 ++- StepReg-1.5.0/StepReg/inst/doc/StepReg.html | 3435 ++++++++++++++++++----- StepReg-1.5.0/StepReg/inst/extdata |only StepReg-1.5.0/StepReg/inst/shiny |only StepReg-1.5.0/StepReg/man/StepReg-package.Rd |only StepReg-1.5.0/StepReg/man/StepRegShinyApp.Rd |only StepReg-1.5.0/StepReg/man/creditCard.Rd |only StepReg-1.5.0/StepReg/man/figures/logo.png |binary StepReg-1.5.0/StepReg/man/plot.StepReg.Rd |only StepReg-1.5.0/StepReg/man/remission.Rd |only StepReg-1.5.0/StepReg/man/report.Rd |only StepReg-1.5.0/StepReg/man/stepwise.Rd | 102 StepReg-1.5.0/StepReg/tests |only StepReg-1.5.0/StepReg/vignettes/StepReg.Rmd | 533 ++- StepReg-1.5.0/StepReg/vignettes/bibliography.bib |only StepReg-1.5.0/StepReg/vignettes/src |only 43 files changed, 4338 insertions(+), 1466 deletions(-)
Title: Read Spectrometric Data and Metadata
Description: Parse various reflectance/transmittance/absorbance spectra file
formats to extract spectral data and metadata, as described in Gruson, White
& Maia (2019) <doi:10.21105/joss.01857>. Among other formats, it can import
files from 'Avantes' <https://www.avantes.com/>, 'CRAIC'
<https://www.microspectra.com/>, and 'OceanInsight' (formerly 'OceanOptics')
<https://www.oceaninsight.com/> brands.
Author: Hugo Gruson [cre, aut, cph] ,
Rafael Maia [aut, cph] ,
Thomas White [aut, cph] ,
Kotya Karapetyan [ctb, cph] )
Maintainer: Hugo Gruson <hugo.gruson+R@normalesup.org>
Diff between lightr versions 1.7.0 dated 2022-05-14 and 1.7.1 dated 2024-03-21
lightr-1.7.0/lightr/tests/testthat/test_dev.R |only lightr-1.7.1/lightr/DESCRIPTION | 12 lightr-1.7.1/lightr/MD5 | 84 ++-- lightr-1.7.1/lightr/NEWS.md | 14 lightr-1.7.1/lightr/R/compute_processed.R | 2 lightr-1.7.1/lightr/R/convert_tocsv.R | 24 - lightr-1.7.1/lightr/R/endian_linter.R |only lightr-1.7.1/lightr/R/get_metadata.R | 11 lightr-1.7.1/lightr/R/get_spec.R | 31 - lightr-1.7.1/lightr/R/parse_avantes_binary.R | 24 + lightr-1.7.1/lightr/R/parse_avantes_converted.R | 8 lightr-1.7.1/lightr/R/parse_generic.R | 10 lightr-1.7.1/lightr/R/parse_jdx.R | 30 - lightr-1.7.1/lightr/R/parse_oceanoptics_converted.R | 26 - lightr-1.7.1/lightr/R/parse_procspec.R | 10 lightr-1.7.1/lightr/R/parse_spc.R | 2 lightr-1.7.1/lightr/R/utils.R | 2 lightr-1.7.1/lightr/README.md | 2 lightr-1.7.1/lightr/build/partial.rdb |binary lightr-1.7.1/lightr/build/vignette.rds |binary lightr-1.7.1/lightr/inst/WORDLIST | 6 lightr-1.7.1/lightr/inst/doc/batch_import.R | 2 lightr-1.7.1/lightr/inst/doc/batch_import.Rmd | 2 lightr-1.7.1/lightr/inst/doc/batch_import.html | 154 ++++---- lightr-1.7.1/lightr/inst/doc/renormalise.R | 3 lightr-1.7.1/lightr/inst/doc/renormalise.Rmd | 3 lightr-1.7.1/lightr/inst/doc/renormalise.html | 179 +++++----- lightr-1.7.1/lightr/inst/doc/true_example.R | 12 lightr-1.7.1/lightr/inst/doc/true_example.Rmd | 4 lightr-1.7.1/lightr/inst/doc/true_example.html | 179 +++++----- lightr-1.7.1/lightr/man/lightr-package.Rd | 2 lightr-1.7.1/lightr/man/lr_compute_processed.Rd | 1 lightr-1.7.1/lightr/tests/spelling.R | 2 lightr-1.7.1/lightr/tests/testthat.R | 5 lightr-1.7.1/lightr/tests/testthat/test_compare_official.R | 25 - lightr-1.7.1/lightr/tests/testthat/test_compare_photobiologyInOut.R | 4 lightr-1.7.1/lightr/tests/testthat/test_convert.R | 26 + lightr-1.7.1/lightr/tests/testthat/test_dispatch.R | 6 lightr-1.7.1/lightr/tests/testthat/test_getspec.R | 26 - lightr-1.7.1/lightr/tests/testthat/test_metadata.R | 16 lightr-1.7.1/lightr/tests/testthat/test_parsers.R | 16 lightr-1.7.1/lightr/vignettes/batch_import.Rmd | 2 lightr-1.7.1/lightr/vignettes/renormalise.Rmd | 3 lightr-1.7.1/lightr/vignettes/true_example.Rmd | 4 44 files changed, 526 insertions(+), 448 deletions(-)
Title: Estimate Incidence and Prevalence using the OMOP Common Data
Model
Description: Calculate incidence and prevalence using data mapped to the Observational Medical Outcomes Partnership (OMOP) common data model. Incidence and prevalence can be estimated for the total population in a database or for a stratification cohort.
Author: Edward Burn [aut, cre] ,
Berta Raventos [aut] ,
Marti Catala [aut] ,
Mike Du [ctb] ,
Yuchen Guo [ctb] ,
Adam Black [ctb] ,
Ger Inberg [ctb] ,
Kim Lopez [ctb]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between IncidencePrevalence versions 0.7.1 dated 2024-02-22 and 0.7.2 dated 2024-03-21
DESCRIPTION | 18 MD5 | 66 - R/benchmarkIncidencePrevalence.R | 248 +-- R/bindEstimates.R | 2 R/dateUtilities.R |only R/estimateIncidence.R | 2 R/estimatePrevalence.R | 2 R/exportIncidencePrevalenceResults.R | 2 R/generateDenominatorCohortSet.R | 25 R/getDenominatorCohorts.R | 894 +++++++------- R/getIncidence.R | 2 R/getPrevalence.R | 682 +++++----- R/getStudyDays.R | 2 R/mockIncidencePrevalenceRef.R | 2 R/obscureCounts.R | 194 +-- R/plotting.R | 42 R/recordAttrition.R | 2 R/utils.R | 2 build/vignette.rds |binary inst/doc/a02_Creating_denominator_populations.html | 6 inst/doc/a03_Creating_target_denominator_populations.html | 2 inst/doc/a04_Calculating_prevalence.html | 2 inst/doc/a05_Calculating_incidence.html | 31 inst/doc/a06_Plotting_options.R |only inst/doc/a06_Plotting_options.Rmd |only inst/doc/a06_Plotting_options.html |only man/benchmarkIncidencePrevalence.Rd | 34 man/generateDenominatorCohortSet.Rd | 4 man/generateTargetDenominatorCohortSet.Rd | 4 man/plotIncidence.Rd | 5 man/plotPrevalence.Rd | 5 tests/manual/test-dbms.R | 425 +++--- tests/testthat/test-benchmarkIncidencePrevalence.R | 107 - tests/testthat/test-dateUtilities.R |only tests/testthat/test-generateDenominatorCohortSet.R | 2 tests/testthat/test-plotting.R | 42 vignettes/a06_Plotting_options.Rmd |only 37 files changed, 1422 insertions(+), 1434 deletions(-)
More information about IncidencePrevalence at CRAN
Permanent link
Title: 'GeoNetwork' API R Interface
Description: Provides an R interface to the 'GeoNetwork' API (<https://geonetwork-opensource.org/#api>) allowing to upload and publish metadata in a 'GeoNetwork' web-application and expose it to OGC CSW.
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geonapi versions 0.7-1 dated 2024-03-20 and 0.7-2 dated 2024-03-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/GNOpenAPIManager.R | 3 +-- README.md | 2 +- 5 files changed, 15 insertions(+), 10 deletions(-)
Title: Color Palettes from Crayon Boxes
Description: Provides color palettes based on crayon colors since the early 1900s.
Colors are based on various crayon colors, sets, and promotional palettes, most of
which can be found at <https://en.wikipedia.org/wiki/List_of_Crayola_crayon_colors>. All
palettes are discrete palettes and are not necessarily color-blind friendly.
Provides scales for 'ggplot2' for discrete coloring.
Author: Christopher T. Kenny [aut, cre]
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Diff between crayons versions 0.0.2 dated 2023-03-23 and 0.0.3 dated 2024-03-21
crayons-0.0.2/crayons/R/palette.R |only crayons-0.0.2/crayons/R/utils.R |only crayons-0.0.2/crayons/man/plot_palette.Rd |only crayons-0.0.3/crayons/DESCRIPTION | 11 crayons-0.0.3/crayons/LICENSE | 4 crayons-0.0.3/crayons/MD5 | 81 - crayons-0.0.3/crayons/NAMESPACE | 23 crayons-0.0.3/crayons/NEWS.md | 5 crayons-0.0.3/crayons/R/colors.R | 790 ++++------ crayons-0.0.3/crayons/R/crayons-package.R |only crayons-0.0.3/crayons/R/scales.R | 4 crayons-0.0.3/crayons/README.md | 116 - crayons-0.0.3/crayons/man/crayons-package.Rd |only crayons-0.0.3/crayons/man/crayons.Rd | 160 +- crayons-0.0.3/crayons/man/figures/README-example-1.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-1.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-10.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-11.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-12.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-13.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-14.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-15.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-16.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-17.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-18.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-19.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-2.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-20.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-21.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-22.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-23.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-24.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-25.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-26.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-27.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-3.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-4.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-5.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-6.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-7.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-8.png |binary crayons-0.0.3/crayons/man/figures/README-unnamed-chunk-2-9.png |binary crayons-0.0.3/crayons/man/figures/logo.png |binary crayons-0.0.3/crayons/man/scale_crayons.Rd | 94 - 44 files changed, 639 insertions(+), 649 deletions(-)
Title: Two One-Sided Tests (TOST) Equivalence Testing
Description: Two one-sided tests (TOST) procedure to test equivalence for t-tests, correlations, differences between proportions, and meta-analyses, including power analysis for t-tests and correlations. Allows you to specify equivalence bounds in raw scale units or in terms of effect sizes. See: Lakens (2017) <doi:10.1177/1948550617697177>.
Author: Daniel Lakens [aut],
Aaron Caldwell [aut, cre]
Maintainer: Aaron Caldwell <arcaldwell49@gmail.com>
Diff between TOSTER versions 0.8.0 dated 2023-09-14 and 0.8.1 dated 2024-03-21
DESCRIPTION | 6 - MD5 | 80 ++++++++-------- NAMESPACE | 6 + NEWS.md | 6 + R/boot_compare_smd.R | 4 R/boot_cor_test.R | 13 ++ R/boot_log_TOST.R | 21 +++- R/boot_ses_calc.R |only R/boot_smd_calc.R |only R/boot_t_TOST.R | 183 ++++++++++++++++++++++++++----------- R/boot_t_test.R | 73 ++++++++++++-- R/gg_curv_t.R | 2 R/others.R | 86 +++++++++++++++++ R/rbs.R | 9 + R/ses_calc.R | 24 +--- R/smd_calc.R | 16 --- R/tsum_funcs.R | 6 - inst/doc/IntroTOSTt.R | 4 inst/doc/IntroTOSTt.html | 23 +++- inst/doc/IntroductionToTOSTER.R | 12 +- inst/doc/IntroductionToTOSTER.html | 23 +++- inst/doc/SMD_calcs.R | 9 + inst/doc/SMD_calcs.Rmd | 13 ++ inst/doc/SMD_calcs.html | 44 ++++++-- inst/doc/correlations.html | 27 +++-- inst/doc/robustTOST.R | 9 + inst/doc/robustTOST.Rmd | 11 ++ inst/doc/robustTOST.html | 54 +++++++--- inst/doc/the_ftestTOSTER.R | 2 inst/doc/the_ftestTOSTER.html | 17 ++- man/boot_cor_test.Rd | 3 man/boot_log_TOST.Rd | 3 man/boot_ses_calc.Rd |only man/boot_smd_calc.Rd |only man/boot_t_TOST.Rd | 9 + man/boot_t_test.Rd | 3 man/ses_calc.Rd | 6 - man/smd_calc.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/test-tTOST.R | 91 ++++++++++++++++++ tests/testthat/test-wilcox.R | 21 +++- vignettes/SMD_calcs.Rmd | 13 ++ vignettes/robustTOST.Rmd | 11 ++ 43 files changed, 717 insertions(+), 228 deletions(-)
Title: Monitoring Overall Survival in Pivotal Trials in Indolent
Cancers
Description: These guidelines are meant to provide a pragmatic, yet rigorous, help to drug developers and decision makers, since they are shaped by three fundamental ingredients: the clinically determined margin of detriment on OS that is unacceptably high (delta null); the benefit on OS that is plausible given the mechanism of action of the novel intervention (delta alt); and the quantity of information (i.e. survival events) it is feasible to accrue given the clinical and drug development setting. The proposed guidelines facilitate transparent discussions between stakeholders focusing on the risks of erroneous decisions and what might be an acceptable trade-off between power and the false positive error rate.
Author: Thomas Fleming [ctb],
Lisa Hampson [aut],
Bharani Bharani-Dharan [ctb],
Frank Bretz [ctb],
Arunava Chakravartty [ctb],
Thibaud Coroller [aut, cre],
Evanthia Koukouli [aut],
Janet Wittes [ctb],
Nigel Yateman [ctb],
Emmanuel Zuber [ctb],
Novartis Pharm [...truncated...]
Maintainer: Thibaud Coroller <thibaud.coroller@novartis.com>
Diff between monitOS versions 0.1.4 dated 2024-03-05 and 0.1.5 dated 2024-03-21
DESCRIPTION | 7 - MD5 | 31 +++--- NEWS.md | 10 +- R/bounds.R | 70 +++++++------- R/posteriors.R | 2 R/probs.R | 9 + R/runApp.R | 3 R/server.R | 18 ++- R/ui.R | 143 ++++++++++++++++------------- README.md | 152 +++++++++++++++++++++++++------ inst/doc/monitOS.R | 36 +++---- inst/doc/monitOS.Rmd | 36 +++---- inst/doc/monitOS.html | 208 +++++++++++++++++++++---------------------- inst/release |only man/bounds.Rd | 32 +++--- tests/testthat/test-bounds.R | 157 +++++++++++++++++--------------- vignettes/monitOS.Rmd | 36 +++---- 17 files changed, 554 insertions(+), 396 deletions(-)
Title: Tidy Model Stacking
Description: Model stacking is an ensemble technique that involves
training a model to combine the outputs of many diverse statistical
models, and has been shown to improve predictive performance in a
variety of settings. 'stacks' implements a grammar for
'tidymodels'-aligned model stacking.
Author: Simon Couch [aut, cre],
Max Kuhn [aut],
Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between stacks versions 1.0.3 dated 2023-11-06 and 1.0.4 dated 2024-03-21
DESCRIPTION | 24 ++++++------ MD5 | 64 ++++++++++++++++---------------- NAMESPACE | 1 NEWS.md | 6 +++ R/add_candidates.R | 8 ++++ R/blend_predictions.R | 2 - R/fit_members.R | 19 +++++++-- R/utils.R | 7 --- README.md | 2 - build/partial.rdb |binary build/vignette.rds |binary data/class_folds.rda |binary data/class_res_nn.rda |binary data/class_res_rf.rda |binary data/log_res_nn.rda |binary data/log_res_rf.rda |binary data/reg_folds.rda |binary data/reg_res_lr.rda |binary data/reg_res_sp.rda |binary data/reg_res_svm.rda |binary data/tree_frogs_class_test.rda |binary data/tree_frogs_reg_test.rda |binary inst/doc/basics.html | 2 - inst/doc/classification.R | 5 +- inst/doc/classification.Rmd | 5 +- inst/doc/classification.html | 6 +-- man/blend_predictions.Rd | 2 - man/fit_members.Rd | 4 +- man/stacks_description.Rd | 1 tests/testthat/_snaps/add_candidates.md | 8 ++++ tests/testthat/test_add_candidates.R | 12 ++++++ tests/testthat/test_blend_predictions.R | 2 + vignettes/classification.Rmd | 5 +- 33 files changed, 113 insertions(+), 72 deletions(-)
Title: Kinship Ties in (Virtual) Multi-Generation Populations
Description: Tools to study lineages, grandparenthood, loss of close relatives, kinship networks and other topics in multi-generation populations.
Author: Frans Willekens [aut, cre]
Maintainer: Frans Willekens <willekens@nidi.nl>
Diff between Families versions 1.0.1 dated 2022-07-08 and 2.0.0 dated 2024-03-21
Families-1.0.1/Families/R/Multistate.R |only Families-1.0.1/Families/R/e0.R |only Families-1.0.1/Families/build |only Families-1.0.1/Families/data/dataLH_F.rda |only Families-1.0.1/Families/data/dpopus.rda |only Families-1.0.1/Families/data/rates.rda |only Families-1.0.1/Families/inst/doc/Families_Virtual.R |only Families-1.0.1/Families/inst/doc/Families_Virtual.Rmd |only Families-1.0.1/Families/inst/doc/Families_Virtual.html |only Families-1.0.1/Families/man/Multistate.Rd |only Families-1.0.1/Families/man/dataLH_F.Rd |only Families-1.0.1/Families/man/dpopus.Rd |only Families-1.0.1/Families/man/e0.Rd |only Families-1.0.1/Families/man/rates.Rd |only Families-1.0.1/Families/vignettes |only Families-2.0.0/Families/DESCRIPTION | 23 +- Families-2.0.0/Families/MD5 | 73 ++++--- Families-2.0.0/Families/NAMESPACE | 9 Families-2.0.0/Families/NEWS.md | 36 +++ Families-2.0.0/Families/R/Age.R |only Families-2.0.0/Families/R/Alive.R |only Families-2.0.0/Families/R/Db.R | 31 ++- Families-2.0.0/Families/R/Dd.R | 30 +-- Families-2.0.0/Families/R/Families-package.R | 111 +++-------- Families-2.0.0/Families/R/IDau.R |only Families-2.0.0/Families/R/IDch.R | 161 ++++++++++------- Families-2.0.0/Families/R/IDfather.R | 60 ++---- Families-2.0.0/Families/R/IDgch.R |only Families-2.0.0/Families/R/IDmother.R | 58 +----- Families-2.0.0/Families/R/IDpartner.R | 77 ++------ Families-2.0.0/Families/R/IDsib.R |only Families-2.0.0/Families/R/Kin_long.R |only Families-2.0.0/Families/R/Nkin.R |only Families-2.0.0/Families/R/PlotAges.R |only Families-2.0.0/Families/R/Tests.R |only Families-2.0.0/Families/data/dLH.rda |only Families-2.0.0/Families/inst/doc/Validation.pdf |only Families-2.0.0/Families/inst/extdata |only Families-2.0.0/Families/man/Age.Rd |only Families-2.0.0/Families/man/Alive.Rd |only Families-2.0.0/Families/man/Db.Rd | 20 +- Families-2.0.0/Families/man/Dd.Rd | 18 - Families-2.0.0/Families/man/Families-package.Rd | 4 Families-2.0.0/Families/man/IDau.Rd |only Families-2.0.0/Families/man/IDch.Rd | 41 ++-- Families-2.0.0/Families/man/IDfather.Rd | 26 +- Families-2.0.0/Families/man/IDgch.Rd |only Families-2.0.0/Families/man/IDmother.Rd | 22 -- Families-2.0.0/Families/man/IDpartner.Rd | 29 +-- Families-2.0.0/Families/man/IDsib.Rd |only Families-2.0.0/Families/man/Kin_long.Rd |only Families-2.0.0/Families/man/Nkin.Rd |only Families-2.0.0/Families/man/PlotAges.Rd |only Families-2.0.0/Families/man/Tests.Rd |only Families-2.0.0/Families/man/dLH.Rd |only 55 files changed, 405 insertions(+), 424 deletions(-)
Title: Advanced Inference with Random Graphical Models
Description: Implements state-of-the-art Random Graphical Models (RGMs) for multivariate data analysis across multiple environments, offering tools for exploring network interactions and structural relationships. Capabilities include joint inference across environments, integration of external covariates, and a Bayesian framework for uncertainty quantification. Applicable in various fields, including microbiome analysis. Methods based on Vinciotti, V., Wit, E., & Richter, F. (2023). "Random Graphical Model of Microbiome Interactions in Related Environments." <arXiv:2304.01956>.
Author: Francisco Richter [aut, cre],
Veronica Vinciotti [ctb],
Ernst Wit [ctb]
Maintainer: Francisco Richter <richtf@usi.ch>
Diff between rgm versions 1.0.3 dated 2024-03-12 and 1.0.4 dated 2024-03-21
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NAMESPACE | 24 ++++++++++++++++++++++++ R/post_processing_rgm.R |only inst/doc/rgm.Rmd | 2 ++ man/post_processing_rgm.Rd |only vignettes/rgm.Rmd | 2 ++ 7 files changed, 38 insertions(+), 8 deletions(-)
Title: Penalized Semiparametric Bayesian Cox Models
Description: Algorithms to speed up the Bayesian Lasso Cox model (Lee et al., Int J Biostat, 2011 <doi:10.2202/1557-4679.1301>) and the Bayesian Lasso Cox with mandatory variables (Zucknick et al. Biometrical J, 2015 <doi:10.1002/bimj.201400160>).
Author: Zhi Zhao [aut, cre],
Manuela Zucknick [aut],
Maral Saadati [aut],
Axel Benner [aut]
Maintainer: Zhi Zhao <zhi.zhao@medisin.uio.no>
Diff between psbcSpeedUp versions 2.0.5 dated 2023-12-08 and 2.0.6 dated 2024-03-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 5 +++++ R/predict.psbcSpeedUp.R | 4 ++-- inst/doc/BayesCox.html | 2 +- man/predict.psbcSpeedUp.Rd | 4 ++-- src/psbc.cpp | 2 +- 7 files changed, 21 insertions(+), 16 deletions(-)
Title: Regression and Clustering in Multivariate Response Scenarios
Description: Fitting multivariate response models with random effects on one or two levels; whereby the (one-dimensional) random effect represents a latent variable approximating the multivariate space of outcomes, after possible adjustment for covariates. The method is particularly useful for multivariate, highly correlated outcome variables with unobserved heterogeneities. Applications include regression with multivariate responses, as well as multivariate clustering or ranking problems. See Zhang and Einbeck (2024) <doi:10.1007/s42519-023-00357-0>.
Author: Yingjuan Zhang [aut, cre],
Jochen Einbeck [aut, ctb]
Maintainer: Yingjuan Zhang <yingjuan.zhang@durham.ac.uk>
Diff between mult.latent.reg versions 0.1.6 dated 2024-02-17 and 0.1.7 dated 2024-03-21
DESCRIPTION | 17 ++++++++--------- MD5 | 20 ++++++++++---------- R/mult.reg_1level.R | 20 ++++++++++++++++---- R/mult.reg_2level.R | 17 ++++++++++++++--- R/start.em.1level.R | 9 ++++++--- R/start.em.2level.R | 5 +++-- R/start.em.R | 42 ++++++++++++++++++++++++++++++------------ man/mult.em_1level.Rd | 2 +- man/mult.em_2level.Rd | 1 + man/mult.reg_1level.Rd | 15 ++++++++++++--- man/mult.reg_2level.Rd | 13 +++++++++++-- 11 files changed, 112 insertions(+), 49 deletions(-)
More information about mult.latent.reg at CRAN
Permanent link
More information about causalHyperGraph at CRAN
Permanent link
Title: Graphs and Tables for OMOP Results
Description: Provides methods to transform omop_result objects into
formatted tables and figures, facilitating the visualization of study
results working with the Observational Medical Outcomes Partnership
(OMOP) Common Data Model.
Author: Marti Catala [aut] ,
Nuria Mercade-Besora [aut, cre]
Maintainer: Nuria Mercade-Besora <nuria.mercadebesora@ndorms.ox.ac.uk>
Diff between visOmopResults versions 0.1.1 dated 2024-03-12 and 0.2.0 dated 2024-03-21
DESCRIPTION | 11 MD5 | 32 - NAMESPACE | 1 R/formatEstimateName.R | 4 R/formatHeader.R | 7 R/formatTable.R | 375 +++++++++++++++--- R/tidy.R | 198 ++++----- inst/doc/formatFunctions.Rmd | 4 inst/doc/formatFunctions.html | 770 +++++++++++++++++++------------------- inst/doc/splitAndUnite.Rmd | 260 ++++++------ inst/doc/splitAndUnite.html | 26 - man/formatHeader.Rd | 5 man/formatTable.Rd | 65 +-- man/optionsFormatTable.Rd |only man/tidy.summarised_result.Rd | 2 tests/testthat/test-formatTable.R |only vignettes/formatFunctions.Rmd | 4 vignettes/splitAndUnite.Rmd | 260 ++++++------ 18 files changed, 1152 insertions(+), 872 deletions(-)
More information about visOmopResults at CRAN
Permanent link
Title: Clustering and Prediction using Multi-Task Gaussian Processes
with Common Mean
Description: An implementation for the multi-task Gaussian processes with common
mean framework. Two main algorithms, called 'Magma' and 'MagmaClust',
are available to perform predictions for supervised learning problems, in
particular for time series or any functional/continuous data applications.
The corresponding articles has been respectively proposed by Arthur Leroy,
Pierre Latouche, Benjamin Guedj and Servane Gey (2022)
<doi:10.1007/s10994-022-06172-1>, and Arthur Leroy, Pierre Latouche,
Benjamin Guedj and Servane Gey (2023) <https://jmlr.org/papers/v24/20-1321.html>.
Theses approaches leverage the learning of cluster-specific mean processes,
which are common across similar tasks, to provide enhanced prediction
performances (even far from data) at a linear computational cost (in
the number of tasks). 'MagmaClust' is a generalisation of 'Magma'
where the tasks are simultaneously clustered into groups, each being
associated to a specific mean process. User-oriented functions in th [...truncated...]
Author: Arthur Leroy [aut, cre] ,
Pierre Latouche [aut],
Pierre Pathe [ctb],
Alexia Grenouillat [ctb],
Hugo Lelievre [ctb]
Maintainer: Arthur Leroy <arthur.leroy.pro@gmail.com>
Diff between MagmaClustR versions 1.1.2 dated 2023-05-23 and 1.2.0 dated 2024-03-21
MagmaClustR-1.1.2/MagmaClustR/R/package-MagmaClustR.R |only MagmaClustR-1.2.0/MagmaClustR/DESCRIPTION | 6 MagmaClustR-1.2.0/MagmaClustR/MD5 | 35 MagmaClustR-1.2.0/MagmaClustR/NAMESPACE | 4 MagmaClustR-1.2.0/MagmaClustR/NEWS.md | 22 MagmaClustR-1.2.0/MagmaClustR/R/MagmaClustR.R |only MagmaClustR-1.2.0/MagmaClustR/R/plot-functions.R | 410 MagmaClustR-1.2.0/MagmaClustR/R/prediction.R | 4588 +++++----- MagmaClustR-1.2.0/MagmaClustR/R/sampling.R |only MagmaClustR-1.2.0/MagmaClustR/R/training.R | 3777 ++++---- MagmaClustR-1.2.0/MagmaClustR/README.md | 34 MagmaClustR-1.2.0/MagmaClustR/man/MagmaClustR.Rd | 28 MagmaClustR-1.2.0/MagmaClustR/man/figures/README-train_and_predict_Magma_in_2-D-1.png |binary MagmaClustR-1.2.0/MagmaClustR/man/plot_gp.Rd | 40 MagmaClustR-1.2.0/MagmaClustR/man/plot_magmaclust.Rd | 20 MagmaClustR-1.2.0/MagmaClustR/man/plot_samples.Rd |only MagmaClustR-1.2.0/MagmaClustR/man/pred_gp.Rd | 5 MagmaClustR-1.2.0/MagmaClustR/man/pred_magma.Rd | 5 MagmaClustR-1.2.0/MagmaClustR/man/pred_magmaclust.Rd | 5 MagmaClustR-1.2.0/MagmaClustR/man/sample_gp.Rd | 64 MagmaClustR-1.2.0/MagmaClustR/man/sample_magmaclust.Rd |only 21 files changed, 4657 insertions(+), 4386 deletions(-)
Title: Value Added in Exports and Other Input-Output Table Analysis
Tools
Description: Analysis of trade in value added with international
input-output tables. Includes commands for easy data extraction,
matrix manipulation, decomposition of value added in gross exports and
calculation of value added indicators, with full geographical and
sector customization. Decomposition methods include Borin and Mancini
(2023) <doi:10.1080/09535314.2022.2153221>, Miroudot and Ye (2021)
<doi:10.1080/09535314.2020.1730308>, Wang et al. (2013)
<https://econpapers.repec.org/paper/nbrnberwo/19677.htm> and Koopman
et al. (2014) <doi:10.1257/aer.104.2.459>.
Author: Enrique Feas [aut, cre]
Maintainer: Enrique Feas <efeas@runbox.com>
Diff between exvatools versions 0.6.0 dated 2024-01-25 and 0.7.0 dated 2024-03-21
exvatools-0.6.0/exvatools/R/extract_figaro2022.R |only exvatools-0.7.0/exvatools/DESCRIPTION | 6 +-- exvatools-0.7.0/exvatools/MD5 | 22 ++++++------ exvatools-0.7.0/exvatools/NEWS.md | 10 +++++ exvatools-0.7.0/exvatools/R/extract_figaro.R |only exvatools-0.7.0/exvatools/R/extract_icio.R | 38 ++++++++++++---------- exvatools-0.7.0/exvatools/R/make_wio.R | 25 ++++++++------ exvatools-0.7.0/exvatools/R/sysdata.rda |binary exvatools-0.7.0/exvatools/build/vignette.rds |binary exvatools-0.7.0/exvatools/inst/doc/exvatools.Rmd | 4 +- exvatools-0.7.0/exvatools/inst/doc/exvatools.html | 6 +-- exvatools-0.7.0/exvatools/man/make_wio.Rd | 17 +++++---- exvatools-0.7.0/exvatools/vignettes/exvatools.Rmd | 4 +- 13 files changed, 76 insertions(+), 56 deletions(-)
Title: Item Response Models for Multiple Ratings
Description: Implements some item response models for multiple
ratings, including the hierarchical rater model,
conditional maximum likelihood estimation of linear
logistic partial credit model and a wrapper function
to the commercial FACETS program. See Robitzsch and
Steinfeld (2018) for a description of the functionality
of the package.
See Wang, Su and Qiu (2014; <doi:10.1111/jedm.12045>)
for an overview of modeling alternatives.
Author: Alexander Robitzsch [aut, cre], Jan Steinfeld [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between immer versions 1.4-15 dated 2022-08-22 and 1.5-13 dated 2024-03-21
DESCRIPTION | 8 - MD5 | 215 +++++++++++++++---------------- R/IRT.likelihood.immer_hrm.R | 14 +- R/MHprop_hrm.R | 20 +- R/MHprop_refresh.R | 4 R/MHprop_refresh_pars.R | 8 - R/MHprop_refresh_parstype.R | 7 - R/RcppExports.R | 2 R/agree_aicken.R | 9 - R/anova_immer.R | 22 +-- R/immer_FACETS.R | 54 +++++-- R/immer_IRT_likelihood_gpcm_helper.R | 13 + R/immer_agree2.R | 46 ++---- R/immer_ccml.R | 10 - R/immer_ccml_summary_print_ic.R | 12 - R/immer_cml.R | 18 +- R/immer_cmml.R | 13 - R/immer_cmml_prepare.R | 22 +-- R/immer_cmml_proc_basispar.R | 12 - R/immer_collect_traces.R | 44 +++--- R/immer_create_design_matrix_A.R | 16 +- R/immer_create_design_matrix_A_PCM.R | 12 - R/immer_create_design_matrix_A_PCM2.R | 20 +- R/immer_create_design_matrix_formula.R | 94 ++++++------- R/immer_fun_FACETS.R | 14 +- R/immer_ginv.R | 4 R/immer_hrm.R | 88 ++++++------ R/immer_hrm_simulate.R | 14 +- R/immer_hrm_verbose_iterations.R | 12 - R/immer_ic_hrm.R | 11 - R/immer_identifiers_relabel.R | 25 +-- R/immer_jml.R | 92 +++++++------ R/immer_jml_calc_item_intercepts.R | 4 R/immer_jml_calc_loglike.R | 4 R/immer_jml_facets.R | 18 +- R/immer_jml_facets_calc_probs.R | 8 - R/immer_jml_facets_proc_data.R | 44 +++--- R/immer_jml_facets_update_main_effects.R | 5 R/immer_jml_facets_update_step_effects.R | 16 +- R/immer_jml_print_progress_line_search.R | 4 R/immer_jml_proc_shortcut.R | 9 - R/immer_jml_update_item_R.R | 15 +- R/immer_jml_update_item_Rcpp.R | 9 - R/immer_jml_update_theta_R.R | 8 - R/immer_jml_update_theta_Rcpp.R | 11 - R/immer_latent_regression.R | 38 ++--- R/immer_osink.R | 4 R/immer_proc_data.R | 10 - R/immer_prox.R | 14 +- R/immer_reshape_wideformat.R | 18 +- R/immer_reshape_wideformat_vector.R |only R/immer_summary_print_call.R | 6 R/immer_summary_print_computation_time.R | 10 - R/immer_summary_print_ic.R | 26 +-- R/immer_summary_print_mcmc_output.R | 10 - R/immer_unique_patterns.R | 28 ++-- R/immer_vector_add_names.R | 4 R/inits_item_parameters.R | 4 R/inits_raterpars_hrm.R | 11 - R/lc2_agreement.R | 209 ++++++++++++++---------------- R/logLik_immer.R | 32 ++-- R/loglik_hrm.R | 6 R/lpcm_data_prep.R | 32 ++-- R/lpcm_generate_design.R | 50 +++---- R/lpcm_inits.R | 8 - R/plot.immer_hrm.R | 7 - R/prior_hrm.R | 8 - R/probs_gpcm.R | 11 - R/probs_gpcm_R.R | 6 R/probs_hrm_R.R | 8 - R/sampling_hrm_a.R | 16 +- R/sampling_hrm_b.R | 15 +- R/sampling_hrm_phi.R | 34 ++-- R/sampling_hrm_psi.R | 81 ++++++----- R/sampling_hrm_theta_1dim.R | 8 - R/sampling_hrm_xi.R | 4 R/sampling_hrm_xi_item.R | 3 R/summary.immer_ccml.R | 8 - R/summary.immer_cml.R | 8 - R/summary.immer_hrm.R | 8 - R/summary.immer_jml.R | 8 - R/summary.immer_latent_regression.R | 10 - R/summary.lc2_agreement.R | 4 R/zzz.R | 10 - build/partial.rdb |binary data/data.immer01a.rda |binary data/data.immer01b.rda |binary data/data.immer02.rda |binary data/data.immer03.rda |binary data/data.immer04a.rda |binary data/data.immer04b.rda |binary data/data.immer05.rda |binary data/data.immer06.rda |binary data/data.immer07.rda |binary data/data.immer08.rda |binary data/data.immer09.rda |binary data/data.immer10.rda |binary data/data.immer11.rda |binary data/data.immer12.rda |binary data/data.ptam1.rda |binary data/data.ptam2.rda |binary data/data.ptam3.rda |binary data/data.ptam4.rda |binary data/data.ptam4long.rda |binary data/data.ptam4wide.rda |binary inst/CITATION | 4 inst/NEWS | 13 + man/immer_proc_data.Rd | 6 src/RcppExports.cpp | 2 109 files changed, 979 insertions(+), 933 deletions(-)
Title: Create a Collection of 'tidymodels' Workflows
Description: A workflow is a combination of a model and preprocessors
(e.g, a formula, recipe, etc.) (Kuhn and Silge (2021)
<https://www.tmwr.org/>). In order to try different combinations of
these, an object can be created that contains many workflows. There
are functions to create workflows en masse as well as training them
and visualizing the results.
Author: Max Kuhn [aut] ,
Simon Couch [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between workflowsets versions 1.0.1 dated 2023-04-06 and 1.1.0 dated 2024-03-21
DESCRIPTION | 20 - MD5 | 83 ++++-- NAMESPACE | 9 NEWS.md | 15 + R/0_imports.R | 7 R/autoplot.R | 29 ++ R/checks.R | 14 + R/collect.R | 31 +- R/comments.R | 12 - R/extract.R | 5 R/fit.R |only R/fit_best.R | 38 ++- R/import-standalone-obj-type.R |only R/import-standalone-types-check.R |only R/leave_var_out_formulas.R | 3 R/options.R | 6 R/predict.R |only R/rank_results.R | 21 + R/update.R | 7 R/workflow_map.R | 13 + R/workflow_set.R | 2 README.md | 2 build/vignette.rds |binary inst/doc/evaluating-different-predictor-sets.R | 2 inst/doc/evaluating-different-predictor-sets.html | 264 +++++++++++----------- man/autoplot.workflow_set.Rd | 6 man/collect_metrics.workflow_set.Rd | 13 - man/fit_best.workflow_set.Rd | 7 man/option_add.Rd | 2 man/rank_results.Rd | 7 man/reexports.Rd | 3 man/update_workflow_model.Rd | 4 tests/testthat/_snaps/autoplot.md |only tests/testthat/_snaps/checks.md |only tests/testthat/_snaps/collect-notes.md |only tests/testthat/_snaps/extract.md | 10 tests/testthat/_snaps/fit.md |only tests/testthat/_snaps/fit_best.md | 15 - tests/testthat/_snaps/predict.md |only tests/testthat/_snaps/workflow-map.md | 35 +- tests/testthat/_snaps/workflow_set.md | 42 +-- tests/testthat/test-autoplot.R | 35 ++ tests/testthat/test-checks.R |only tests/testthat/test-collect-notes.R |only tests/testthat/test-collect-predictions.R | 49 ++-- tests/testthat/test-comments.R | 6 tests/testthat/test-fit.R |only tests/testthat/test-fit_best.R | 4 tests/testthat/test-predict.R |only 49 files changed, 529 insertions(+), 292 deletions(-)
Title: Flexible and Robust Agreement and Reliability Analyses
Description: Reliability and agreement analyses often have limited software support. Therefore, this package was created to make agreement and reliability analyses easier for the average researcher. The functions within this package include simple tests of agreement, agreement analysis for nested and replicate data, and provide robust analyses of reliability. In addition, this package contains a set of functions to help when planning studies looking to assess measurement agreement.
Author: Aaron Caldwell [aut, cre]
Maintainer: Aaron Caldwell <arcaldwell49@gmail.com>
Diff between SimplyAgree versions 0.1.2 dated 2022-12-14 and 0.2.0 dated 2024-03-21
DESCRIPTION | 15 MD5 | 217 +-- NAMESPACE | 229 +-- NEWS.md | 101 - R/00jmv.R | 36 R/SimplyAgree-package.R |only R/agree_coef.R | 139 +- R/agree_nest.R | 473 +++---- R/agree_np.R | 573 ++++---- R/agree_reps.R | 482 +++---- R/agree_test.R | 356 ++--- R/agreement_limit.R |only R/blandPowerCurve.R | 161 +- R/coef_funcs.R | 394 ++--- R/data.R | 92 - R/dem_reg.R | 285 ++-- R/globals.R | 127 + R/gls_helpers_functions.R |only R/hetvar_functions.R | 412 +++--- R/jmvagree.b.R | 414 +++--- R/jmvagree.h.R | 654 ++++----- R/jmvagreemulti.b.R | 508 +++---- R/jmvdeming.b.R | 272 ++-- R/jmvdeming.h.R | 522 +++---- R/jmvreli.b.R | 176 +- R/jmvreli.h.R | 426 +++--- R/loa_hetvar.R | 598 ++++----- R/loa_lme.R | 169 +- R/loa_mixed.R | 418 +++--- R/loa_mixed2.R | 356 ++--- R/loa_plot_functions.R |only R/methods.loa.R |only R/methods.loa_mermod.R | 510 +++---- R/methods.loa_mixed_bs.R | 88 - R/methods.powerCurve.R | 168 +- R/methods.simple_agree.R | 683 +++++----- R/methods.simple_eiv.R | 322 ++-- R/methods.simple_reli.R | 224 +-- R/methods.tolerance_delta.R |only R/mixed_functions.R | 1058 +++++++-------- R/other_functions.R | 1143 ++++++++--------- R/powerCurve_functions.R | 266 ++-- R/quantile_funs.R | 168 +- R/reli_functions.R | 167 +- R/reli_stats.R | 1216 ++++++++++-------- R/simple_plot_functions.R | 1047 +++++++-------- R/tolerance_limit.R |only README.md | 210 +-- build/partial.rdb |only build/vignette.rds |binary data/ba1986.csv |only data/ba1986.rda |only data/reps.csv | 42 inst/CITATION | 32 inst/doc/Deming.R | 118 - inst/doc/Deming.Rmd | 416 +++--- inst/doc/Deming.html | 1265 +++++++++---------- inst/doc/agree_tests.R |only inst/doc/agree_tests.Rmd |only inst/doc/agree_tests.html |only inst/doc/agreement_analysis.R | 283 ++-- inst/doc/agreement_analysis.Rmd | 1090 ++++++++-------- inst/doc/agreement_analysis.html | 2258 ++++++++++++++++------------------ inst/doc/reanalysis.R | 396 +++-- inst/doc/reanalysis.Rmd | 539 ++++---- inst/doc/reanalysis.html | 1660 +++++++++--------------- inst/doc/reliability_analysis.R | 146 +- inst/doc/reliability_analysis.Rmd | 956 +++++++------- inst/doc/reliability_analysis.html | 1833 ++++++++++++++------------- man/Data.Rd | 65 man/SimplyAgree-package.Rd |only man/agree_coef.Rd | 102 - man/agree_nest.Rd | 140 +- man/agree_np.Rd | 125 - man/agree_reps.Rd | 141 +- man/agree_test.Rd | 135 +- man/agreement_limit.Rd |only man/blandPowerCurve.Rd | 110 - man/dem_reg.Rd | 135 +- man/figures |only man/jmvagree.Rd | 144 +- man/jmvagreemulti.Rd | 150 +- man/jmvdeming.Rd | 118 - man/jmvreli.Rd | 80 - man/loa-methods.Rd |only man/loa_lme.Rd | 123 - man/loa_mermod-methods.Rd | 98 - man/loa_mixed.Rd | 124 - man/loa_mixed_bs-methods.Rd | 56 man/powerCurve-methods.Rd | 60 man/reli_stats.Rd | 237 +-- man/simple_agree-methods.Rd | 114 - man/simple_eiv-methods.Rd | 72 - man/simple_reli-methods.Rd | 62 man/temps.Rd | 74 - man/tolerance_delta-methods.Rd |only man/tolerance_limit.Rd |only tests/testthat.R | 8 tests/testthat/test-agree_nest.R | 520 ++++--- tests/testthat/test-agree_np.R | 256 +-- tests/testthat/test-agree_reps.R | 309 ++-- tests/testthat/test-blandPowerCurve.R | 213 +-- tests/testthat/test-dem_reg.R | 156 +- tests/testthat/test-loa_lme.R | 205 ++- tests/testthat/test-loa_mixed.R | 170 +- tests/testthat/test-reli_stats.R | 651 +++++---- tests/testthat/test-tolerance_limit.R |only tests/testthat/test_agree_test.R | 337 +++-- vignettes/Deming.Rmd | 416 +++--- vignettes/agree_tests.Rmd |only vignettes/agreement_analysis.Rmd | 1090 ++++++++-------- vignettes/intro_vignette.R |only vignettes/intro_vignette.html |only vignettes/reanalysis.Rmd | 539 ++++---- vignettes/ref.bib | 174 +- vignettes/refs.bib | 566 +++++--- vignettes/reliability_analysis.Rmd | 956 +++++++------- vignettes/save_values.R |only 118 files changed, 18457 insertions(+), 17483 deletions(-)
Title: Handling HL7 FHIR® Resources in R
Description: Useful tools for conveniently downloading FHIR resources in xml format
and converting them to R data.frames. The package uses FHIR-search to download bundles
from a FHIR server, provides functions to save and read xml-files containing such bundles
and allows flattening the bundles to data.frames using XPath expressions. FHIR® is the registered trademark
of HL7 and is used with the permission of HL7. Use of the FHIR trademark does not constitute endorsement of this product by HL7.
Author: Thomas Peschel [aut],
Julia Palm [aut, cre] ,
Jens Przybilla [aut],
Frank Meineke [aut]
Maintainer: Julia Palm <julia.palm@med.uni-jena.de>
Diff between fhircrackr versions 2.1.1 dated 2023-02-10 and 2.2.0 dated 2024-03-21
DESCRIPTION | 8 MD5 | 58 - NAMESPACE | 1 NEWS.md | 9 R/download_resources.R | 68 + R/flatten_resources.R | 184 +-- R/miscellaneous.R | 71 + R/multiple_entries.R | 2 data/example_bundles5.rda |only inst/doc/downloadResources.R | 70 + inst/doc/downloadResources.Rmd | 36 inst/doc/downloadResources.html | 878 +++++++++--------- inst/doc/fhircrackr_intro.R | 81 - inst/doc/fhircrackr_intro.Rmd | 96 - inst/doc/fhircrackr_intro.html | 844 ++++++----------- inst/doc/flattenResources.R | 40 inst/doc/flattenResources.Rmd | 114 ++ inst/doc/flattenResources.html | 1741 ++++++++++++++++++------------------ inst/doc/recreateResources.R | 22 inst/doc/recreateResources.html | 1004 ++++++++++---------- man/as_fhir.Rd |only man/datasets_selfmade.Rd | 66 + man/fhir_cast.Rd | 2 man/fhir_crack-methods.Rd | 89 + tests/testthat/_snaps/fhir_cast.md | 200 ++-- tests/testthat/_snaps/fhir_crack.md | 395 ++++++++ tests/testthat/_snaps/fhir_melt.md | 100 +- tests/testthat/test_fhir_crack.R | 162 +++ vignettes/downloadResources.Rmd | 36 vignettes/fhircrackr_intro.Rmd | 96 - vignettes/flattenResources.Rmd | 114 ++ 31 files changed, 3734 insertions(+), 2853 deletions(-)
Title: Bayesian Mode Inference
Description: A two-step Bayesian approach for mode inference following
Cross, Hoogerheide, Labonne and van Dijk (2024) <doi:10.1016/j.econlet.2024.111579>).
First, a mixture distribution is fitted on the data using a sparse finite
mixture (SFM) Markov chain Monte Carlo (MCMC) algorithm. The number of
mixture components does not have to be known; the size of the mixture is
estimated endogenously through the SFM approach. Second, the modes of the
estimated mixture at each MCMC draw are retrieved using algorithms
specifically tailored for mode detection. These estimates are then used to
construct posterior probabilities for the number of modes, their locations
and uncertainties, providing a powerful tool for mode inference.
Author: Nalan Bastuerk [aut],
Jamie Cross [aut],
Peter de Knijff [aut],
Lennart Hoogerheide [aut],
Paul Labonne [aut, cre],
Herman van Dijk [aut]
Maintainer: Paul Labonne <paul.labonne@bi.no>
Diff between BayesMultiMode versions 0.7.0 dated 2024-02-05 and 0.7.1 dated 2024-03-21
DESCRIPTION | 23 +- MD5 | 54 +++--- NAMESPACE | 1 NEWS.md | 6 R/bayes_mixture.R | 6 R/bayes_mode.R | 61 +++++- R/bayes_trace.R | 2 R/mix_mode.R | 13 - R/mixture.R | 42 ++-- R/plot_methods.R | 265 +++++++++++++++--------------- R/print_methods.R | 3 R/summary_methods.R | 29 ++- README.md | 71 +++++--- build/partial.rdb |binary man/bayes_mixture.Rd | 6 man/bayes_mode.Rd | 13 + man/figures/README-unnamed-chunk-11-1.png |binary man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/mix_mode.Rd | 10 - man/mixture.Rd | 8 man/plot.bayes_mixture.Rd | 4 man/plot.mix_mode.Rd | 8 man/plot.mixture.Rd | 8 tests/testthat/_snaps/bayes_mode.md | 202 ++++++++++++++++++++-- tests/testthat/_snaps/mix_mode.md | 124 ++++++++------ tests/testthat/test-bayes_mode.R | 35 ++- tests/testthat/test-mix_mode.R | 43 +++- 28 files changed, 667 insertions(+), 370 deletions(-)
More information about BayesMultiMode at CRAN
Permanent link
Title: Geocoding with the 'ArcGIS' REST API Service
Description: Lite interface for finding locations of addresses or
businesses around the world using the 'ArcGIS' REST API service
<https://developers.arcgis.com/rest/geocode/api-reference/overview-world-geocoding-service.htm>.
Address text can be converted to location candidates and a location
can be converted into an address. No API key required.
Author: Diego Hernangomez [aut, cre, cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between arcgeocoder versions 0.1.0 dated 2024-01-15 and 0.2.0 dated 2024-03-21
DESCRIPTION | 18 MD5 | 72 +-- NEWS.md | 8 R/arc_geo.R | 398 ++++++++++---------- R/arc_geo_categories.R | 145 ++++--- R/arc_geo_multi.R | 60 +-- R/arc_reverse_geo.R | 542 ++++++++++++++-------------- R/arcgeocoder_check_access.R | 2 R/data.R | 50 +- R/utils.R | 30 + README.md | 30 + build/vignette.rds |binary data/arc_categories.rda |binary data/arc_spatial_references.rda |binary inst/WORDLIST | 6 inst/doc/arcgeocoder.Rmd | 37 - inst/doc/arcgeocoder.html | 188 ++++----- inst/doc/featuretypes.Rmd | 37 + inst/doc/featuretypes.html | 57 +- inst/schemaorg.json | 12 man/arc_categories.Rd | 24 - man/arc_geo.Rd | 43 +- man/arc_geo_categories.Rd | 115 +++-- man/arc_geo_multi.Rd | 67 ++- man/arc_reverse_geo.Rd | 28 - man/arc_spatial_references.Rd | 151 ++++--- man/arcgeocoder-package.Rd | 2 man/chunks |only man/figures/README-eiffel-1.png |binary man/figures/README-eiffel_sf-1.png |binary man/figures/logo.png |binary man/roxygen/meta.R | 2 tests/testthat/_snaps/arc_geo_categories.md | 21 - tests/testthat/test-arc_geo_categories.R | 355 +++++++++--------- tests/testthat/test-utils.R |only vignettes/arcgeocoder.Rmd | 37 - vignettes/eiffel-1.png |binary vignettes/featuretypes.Rmd | 37 + 38 files changed, 1346 insertions(+), 1228 deletions(-)
Title: VAR Modelling
Description: Estimation, lag selection, diagnostic testing, forecasting, causality analysis, forecast error variance decomposition and impulse response functions of VAR models and estimation of SVAR and SVEC models.
Author: Bernhard Pfaff [aut, cre],
Matthieu Stigler [ctb]
Maintainer: Bernhard Pfaff <bernhard@pfaffikus.de>
Diff between vars versions 1.6-0 dated 2023-12-01 and 1.6-1 dated 2024-03-21
vars-1.6-0/vars/tests |only vars-1.6-1/vars/DESCRIPTION | 8 ++++---- vars-1.6-1/vars/MD5 | 6 +----- 3 files changed, 5 insertions(+), 9 deletions(-)
Title: Create Tests According to QTI 2.1 Standard
Description: Create tests and tasks compliant with the Question & Test Interoperability (QTI) information model version 2.1. Input sources are Rmd/md description files or S4-class objects. Output formats include standalone zip or xml files. Supports the generation of basic task types (single and multiple choice, order, pair association, matching tables, filling gaps and essay) and provides a comprehensive set of attributes for customizing tests.
Author: Andrey Shevandrin [aut, cre, cph]
,
Petr Bondarenko [ctb] ,
Ivonne Ojeda [ctb],
Johannes Titz [aut, cph] ,
Brian Mottershead [cph] ,
Stiftung fuer Innovation in der Hochschullehre [fnd]
Maintainer: Andrey Shevandrin <shevandrin@gmail.com>
Diff between rqti versions 0.1.0 dated 2024-03-19 and 0.1.1 dated 2024-03-21
rqti-0.1.0/rqti/inst/QTIJS/id_task_7657.xml |only rqti-0.1.0/rqti/inst/QTIJS/imsmanifest.xml |only rqti-0.1.0/rqti/inst/QTIJS/test_identifier.xml |only rqti-0.1.1/rqti/DESCRIPTION | 6 rqti-0.1.1/rqti/MD5 | 41 rqti-0.1.1/rqti/NEWS.md | 18 rqti-0.1.1/rqti/R/AssessmentItem.R | 2 rqti-0.1.1/rqti/R/AssessmentSection.R | 1 rqti-0.1.1/rqti/R/AssessmentTest.R | 1 rqti-0.1.1/rqti/R/object_builder.R | 4 rqti-0.1.1/rqti/inst/QTIJS/index.xml |only rqti-0.1.1/rqti/inst/QTIJS/qti.js |only rqti-0.1.1/rqti/tests/testthat/file/md/entry_example1.md | 18 rqti-0.1.1/rqti/tests/testthat/file/md/entry_example2.md | 18 rqti-0.1.1/rqti/tests/testthat/file/md/essay_example.md | 18 rqti-0.1.1/rqti/tests/testthat/file/md/mc_example2.md | 48 rqti-0.1.1/rqti/tests/testthat/file/md/sc_example2.md | 28 rqti-0.1.1/rqti/tests/testthat/file/rmd/MC_image.Rmd | 65 rqti-0.1.1/rqti/tests/testthat/file/rmd/checker.Rmd | 36 rqti-0.1.1/rqti/tests/testthat/file/rmd/mc_no_point.Rmd | 34 rqti-0.1.1/rqti/tests/testthat/test-api_opal.R | 54 rqti-0.1.1/rqti/tests/testthat/test-object_builder.R | 1304 +++++++-------- rqti-0.1.1/rqti/tests/testthat/test-qti_exam.R | 258 +- rqti-0.1.1/rqti/tests/testthat/test-section_builder.R | 4 24 files changed, 974 insertions(+), 984 deletions(-)
Title: Optimum Threshold Estimation
Description: Functions that provide point and interval estimations of optimum thresholds for continuous diagnostic tests. The methodology used is based on minimizing an overall cost function in the two- and three-state settings. We also provide functions for sample size determination and estimation of diagnostic accuracy measures. We also include graphical tools. The statistical methodology used here can be found in Perez-Jaume et al (2017) <doi:10.18637/jss.v082.i04> and in Skaltsa et al (2010, 2012) <doi:10.1002/bimj.200900294>, <doi:10.1002/sim.4369>.
Author: Sara Perez-Jaume [aut, cre],
Natalia Pallares [aut],
Konstantina Skaltsa [aut]
Maintainer: Sara Perez-Jaume <spjaume@gmail.com>
Diff between ThresholdROC versions 2.9.2 dated 2023-08-29 and 2.9.3 dated 2024-03-21
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/diagnostic.R | 39 ++++++++++++++++++++++++++------------- man/ThresholdROC-package.Rd | 2 +- man/diagnostic.Rd | 4 ++-- 5 files changed, 37 insertions(+), 24 deletions(-)
Title: Custom Inputs Widgets for Shiny
Description: Collection of custom input controls and user interface components for 'Shiny' applications.
Give your applications a unique and colorful style !
Author: Victor Perrier [aut, cre, cph],
Fanny Meyer [aut],
David Granjon [aut],
Ian Fellows [ctb] ,
Wil Davis [ctb] ,
Spencer Matthews [ctb] ,
JavaScript and CSS libraries authors [ctb, cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between shinyWidgets versions 0.8.2 dated 2024-03-01 and 0.8.3 dated 2024-03-21
DESCRIPTION | 6 MD5 | 35 NAMESPACE | 2 NEWS.md | 954 ++++++++++++------------- R/dependencies.R | 1085 ++++++++++++++--------------- R/input-noUiSlider.R | 9 R/input-time.R |only R/virtual-select.R | 576 +++++++-------- inst/examples/nouislider/update/app.R | 66 + inst/examples/virtual-select/default/app.R | 19 inst/examples/virtual-select/update/app.R | 15 inst/packer/air-datepicker.js | 2 inst/packer/input-time.js |only inst/packer/nouislider.js | 2 inst/packer/virtual-select.js | 817 --------------------- inst/packer/virtual-select.js.LICENSE.txt | 8 man/time-input.Rd |only man/updateNoUiSliderInput.Rd | 6 man/updateVirtualSelect.Rd | 18 man/virtualSelectInput.Rd | 22 20 files changed, 1502 insertions(+), 2140 deletions(-)
Title: USGS ScienceBase Tools
Description: Tools for interacting with U.S. Geological Survey ScienceBase
<https://www.sciencebase.gov> interfaces. ScienceBase is a data cataloging and
collaborative data management platform. Functions included for querying
ScienceBase, and creating and fetching datasets.
Author: David Blodgett [cre],
Luke Winslow [aut],
Scott Chamberlain [ctb],
Alison Appling [ctb],
Jordan Read [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between sbtools versions 1.3.1 dated 2024-01-09 and 1.3.2 dated 2024-03-21
DESCRIPTION | 9 +++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 8 ++++++++ R/authenticate_sb.R | 8 ++++++-- R/current_session.R | 3 ++- R/identifier_exists.R | 2 +- R/item_get.R | 4 ++-- R/item_list_files.R | 4 ++-- R/sb_item.R | 8 ++++---- inst/doc/sbtools.html | 4 ++-- man/identifier_exists.Rd | 2 +- man/item_get_parent.Rd | 4 ++-- man/item_list_files.Rd | 4 ++-- man/sbitem.Rd | 8 ++++---- 14 files changed, 54 insertions(+), 40 deletions(-)
Title: Asynchronous Disk-Based Representation of Massive Data
Description: Storing very large data objects on a local drive, while still making it possible to manipulate the data in an efficient manner.
Author: Adam Black [aut],
Egill Fridgeirsson [aut],
Martijn Schuemie [aut, cre],
Marc A. Suchard [aut],
Observational Health Data Science and Informatics [cph]
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between Andromeda versions 0.6.5 dated 2024-01-22 and 0.6.6 dated 2024-03-21
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 24 +++++++++++++++++++++--- R/Operations.R | 2 +- inst/doc/UsingAndromeda.pdf |binary tests/testthat/test-batching.R | 1 + tests/testthat/test-object.R | 21 +++++++++++---------- 7 files changed, 44 insertions(+), 24 deletions(-)
Title: Communicate with 'Ollama'
Description: Wraps the 'Ollama' <https://ollama.com> API, which can be used to
communicate with generative large language models locally.
Author: Johannes B. Gruber [aut, cre] ,
Maximilian Weber [aut, ctb]
Maintainer: Johannes B. Gruber <JohannesB.Gruber@gmail.com>
Diff between rollama versions 0.0.2 dated 2024-01-29 and 0.0.3 dated 2024-03-21
rollama-0.0.2/rollama/vignettes/figures/smldemo.png |only rollama-0.0.3/rollama/DESCRIPTION | 10 rollama-0.0.3/rollama/MD5 | 42 - rollama-0.0.3/rollama/NEWS.md | 6 rollama-0.0.3/rollama/R/chat.r | 25 - rollama-0.0.3/rollama/R/embedding.r | 3 rollama-0.0.3/rollama/R/models.r | 2 rollama-0.0.3/rollama/R/utils.r | 59 +- rollama-0.0.3/rollama/README.md | 36 + rollama-0.0.3/rollama/build/vignette.rds |binary rollama-0.0.3/rollama/inst/doc/annotation.Rmd | 2 rollama-0.0.3/rollama/inst/doc/annotation.html | 4 rollama-0.0.3/rollama/inst/doc/image-annotation.html | 2 rollama-0.0.3/rollama/inst/doc/text-embedding.Rmd | 367 ++++++++-------- rollama-0.0.3/rollama/inst/doc/text-embedding.html | 107 ++-- rollama-0.0.3/rollama/inst/extdata/modelfile.txt | 2 rollama-0.0.3/rollama/man/embed_text.Rd | 2 rollama-0.0.3/rollama/man/query.Rd | 16 rollama-0.0.3/rollama/vignettes/annotation.Rmd | 2 rollama-0.0.3/rollama/vignettes/annotation.Rmd.orig | 2 rollama-0.0.3/rollama/vignettes/figures/smldemo-1.png |only rollama-0.0.3/rollama/vignettes/text-embedding.Rmd | 367 ++++++++-------- rollama-0.0.3/rollama/vignettes/text-embedding.Rmd.orig | 15 23 files changed, 573 insertions(+), 498 deletions(-)
Title: A 'ggplot2' Extension Inspired by 'GraphPad Prism'
Description: Provides various themes, palettes, and other functions
that are used to customise ggplots to look like they were made in 'GraphPad
Prism'. The 'Prism'-look is achieved with theme_prism() and
scale_fill|colour_prism(), axes can be changed with custom guides like
guide_prism_minor(), and significance indicators added with add_pvalue().
Author: Charlotte Dawson [aut, cre]
Maintainer: Charlotte Dawson <csdaw@outlook.com>
Diff between ggprism versions 1.0.4 dated 2022-11-04 and 1.0.5 dated 2024-03-21
DESCRIPTION | 8 MD5 | 101 +-- NAMESPACE | 8 NEWS.md | 5 R/annotation_ticks.R | 16 R/guide_methods.R |only R/guide_prism_bracket.R | 2 R/guide_prism_minor.R | 2 R/guide_prism_offset.R | 2 R/guide_prism_offset_minor.R | 2 R/theme_prism.R | 8 README.md | 29 build/partial.rdb |binary build/vignette.rds |binary inst/doc/axes.R | 119 +-- inst/doc/axes.Rmd | 63 + inst/doc/axes.html | 783 ++++++++++++------------ inst/doc/colours.R | 34 - inst/doc/colours.Rmd | 12 inst/doc/colours.html | 425 ++++++------- inst/doc/ggprism.R | 12 inst/doc/ggprism.Rmd | 2 inst/doc/ggprism.html | 299 ++++----- inst/doc/pvalues.R | 38 - inst/doc/pvalues.html | 831 ++++++++++++-------------- inst/doc/themes.R | 34 - inst/doc/themes.Rmd | 12 inst/doc/themes.html | 335 +++++----- inst/examples/ex-annotation_ticks.R | 2 inst/tinytest/test-guide_prism_bracket.R | 12 inst/tinytest/test-guide_prism_minor.R | 6 inst/tinytest/test-guide_prism_offset.R | 10 inst/tinytest/test-guide_prism_offset_minor.R | 6 man/annotation_ticks.Rd | 6 man/figures/README-ex-1.png |binary man/figures/README-ex-2.png |binary man/figures/README-ex2-1.png |binary man/figures/README-ex2-2.png |binary man/figures/README-ex3-1.png |binary man/figures/README-ex3-2.png |binary man/guide_prism_bracket.Rd | 13 man/guide_prism_minor.Rd | 13 man/guide_prism_offset.Rd | 13 man/guide_prism_offset_minor.Rd | 13 man/scale_colour_prism.Rd | 1 man/scale_fill_prism.Rd | 1 man/scale_shape_prism.Rd | 1 vignettes/axes.Rmd | 63 + vignettes/colours.Rmd | 12 vignettes/ggprism.Rmd | 2 vignettes/themes.Rmd | 12 vignettes/web-only/ex1-dose.Rmd | 58 + 52 files changed, 1783 insertions(+), 1643 deletions(-)
Title: Diagnostic Ability Assessment with Right-Censored Data at a
Fixed Time t
Description: We focus on the diagnostic ability assessment of medical tests when the outcome of interest is the status (alive or dead) of the subjects at a certain time-point t. This binary status is determined by right-censored times to event and it is unknown for those subjects censored before t. Here we provide three methods (unknown status exclusion, imputation of censored times and using time-dependent ROC curves) to evaluate the diagnostic ability of binary and continuous tests in this context. Two references for the methods used here are Skaltsa et al. (2010) <doi:10.1002/bimj.200900294> and Heagerty et al. (2000) <doi:10.1111/j.0006-341x.2000.00337.x>.
Author: Sara Perez-Jaume [aut, cre],
Josep L Carrasco [aut]
Maintainer: Sara Perez-Jaume <spjaume@gmail.com>
Diff between ThresholdROCsurvival versions 1.2.0 dated 2023-11-08 and 1.2.1 dated 2024-03-21
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/diagnosticAssessment.R | 18 ++++++++++++------ man/diagnostic_assessment_continuous.Rd | 11 +++++++++-- 4 files changed, 28 insertions(+), 15 deletions(-)
More information about ThresholdROCsurvival at CRAN
Permanent link
Title: Easily Access and Maintain Time-Based Versioned Data
(Slowly-Changing-Dimension)
Description: A collection of functions that enable easy access and updating of a database of data over time.
More specifically, the package facilitates type-2 history for data-warehouses and provides a number
of Quality of life improvements for working on SQL databases with R.
For reference see Ralph Kimball and Margy Ross (2013, ISBN 9781118530801).
Author: Rasmus Skytte Randloev [aut, cre, rev]
,
Marcus Munch Gruenewald [aut] ,
Lasse Engbo Christiansen [rev]
,
Statens Serum Institut [cph, fnd]
Maintainer: Rasmus Skytte Randloev <rske@ssi.dk>
Diff between SCDB versions 0.3 dated 2024-01-12 and 0.4.0 dated 2024-03-21
SCDB-0.3/SCDB/R/db_manipulating_functions.R |only SCDB-0.3/SCDB/R/db_timestamps.R |only SCDB-0.3/SCDB/inst/doc/basic-principles.R |only SCDB-0.3/SCDB/inst/doc/basic-principles.Rmd |only SCDB-0.3/SCDB/inst/doc/basic-principles.html |only SCDB-0.3/SCDB/man/grapes-notin-grapes.Rd |only SCDB-0.3/SCDB/man/interlace_sql.Rd |only SCDB-0.3/SCDB/tests/testthat/test-db_manipulating_functions.R |only SCDB-0.3/SCDB/tests/testthat/test-non_ascii.R |only SCDB-0.3/SCDB/tests/testthat/test-rd-files.R |only SCDB-0.3/SCDB/vignettes/basic-principles.Rmd |only SCDB-0.4.0/SCDB/DESCRIPTION | 31 SCDB-0.4.0/SCDB/MD5 | 159 +- SCDB-0.4.0/SCDB/NAMESPACE | 40 SCDB-0.4.0/SCDB/NEWS.md | 374 +++-- SCDB-0.4.0/SCDB/R/0_linters.R |only SCDB-0.4.0/SCDB/R/Logger.R | 539 +++++--- SCDB-0.4.0/SCDB/R/SCDB-package.R | 8 SCDB-0.4.0/SCDB/R/connection.R | 415 +++--- SCDB-0.4.0/SCDB/R/create_logs_if_missing.R |only SCDB-0.4.0/SCDB/R/create_table.R | 153 -- SCDB-0.4.0/SCDB/R/db_joins.R | 652 +++++----- SCDB-0.4.0/SCDB/R/db_timestamp.R |only SCDB-0.4.0/SCDB/R/digest_to_checksum.R | 124 + SCDB-0.4.0/SCDB/R/filter_keys.R |only SCDB-0.4.0/SCDB/R/getTableSignature.R |only SCDB-0.4.0/SCDB/R/get_catalog.R |only SCDB-0.4.0/SCDB/R/get_schema.R | 159 -- SCDB-0.4.0/SCDB/R/get_table.R | 415 ------ SCDB-0.4.0/SCDB/R/get_tables.R |only SCDB-0.4.0/SCDB/R/helpers.R | 295 ++-- SCDB-0.4.0/SCDB/R/id.R |only SCDB-0.4.0/SCDB/R/interlace.R |only SCDB-0.4.0/SCDB/R/locks.R |only SCDB-0.4.0/SCDB/R/schema_exists.R |only SCDB-0.4.0/SCDB/R/slice_time.R |only SCDB-0.4.0/SCDB/R/table_exists.R |only SCDB-0.4.0/SCDB/R/unite.tbl_dbi.R |only SCDB-0.4.0/SCDB/R/update_snapshot.R | 166 +- SCDB-0.4.0/SCDB/README.md | 12 SCDB-0.4.0/SCDB/build/vignette.rds |binary SCDB-0.4.0/SCDB/inst/WORDLIST | 23 SCDB-0.4.0/SCDB/inst/doc/SCDB.R |only SCDB-0.4.0/SCDB/inst/doc/SCDB.Rmd |only SCDB-0.4.0/SCDB/inst/doc/SCDB.html |only SCDB-0.4.0/SCDB/inst/doc/slowly-changing-dimension.R | 41 SCDB-0.4.0/SCDB/inst/doc/slowly-changing-dimension.Rmd | 44 SCDB-0.4.0/SCDB/inst/doc/slowly-changing-dimension.html | 284 ++-- SCDB-0.4.0/SCDB/man/Logger.Rd | 156 +- SCDB-0.4.0/SCDB/man/LoggerNull.Rd |only SCDB-0.4.0/SCDB/man/SCDB-package.Rd | 6 SCDB-0.4.0/SCDB/man/close_connection.Rd | 47 SCDB-0.4.0/SCDB/man/create_logs_if_missing.Rd | 22 SCDB-0.4.0/SCDB/man/create_table.Rd | 25 SCDB-0.4.0/SCDB/man/db_locks.Rd |only SCDB-0.4.0/SCDB/man/db_timestamp.Rd | 28 SCDB-0.4.0/SCDB/man/defer_db_cleanup.Rd |only SCDB-0.4.0/SCDB/man/digest_to_checksum.Rd | 58 SCDB-0.4.0/SCDB/man/filter_keys.Rd | 116 + SCDB-0.4.0/SCDB/man/get_connection.Rd | 114 + SCDB-0.4.0/SCDB/man/get_schema.Rd | 73 - SCDB-0.4.0/SCDB/man/get_table.Rd | 39 SCDB-0.4.0/SCDB/man/get_tables.Rd | 38 SCDB-0.4.0/SCDB/man/id.Rd | 43 SCDB-0.4.0/SCDB/man/interlace.Rd |only SCDB-0.4.0/SCDB/man/is.historical.Rd | 59 SCDB-0.4.0/SCDB/man/joins.Rd | 76 - SCDB-0.4.0/SCDB/man/nrow.Rd | 53 SCDB-0.4.0/SCDB/man/schema_exists.Rd | 57 SCDB-0.4.0/SCDB/man/slice_time.Rd | 86 - SCDB-0.4.0/SCDB/man/table_exists.Rd | 35 SCDB-0.4.0/SCDB/man/unique_table_name.Rd |only SCDB-0.4.0/SCDB/man/unite.tbl_dbi.Rd | 100 - SCDB-0.4.0/SCDB/man/update_snapshot.Rd | 70 - SCDB-0.4.0/SCDB/tests/spelling.R | 6 SCDB-0.4.0/SCDB/tests/testthat.R | 25 SCDB-0.4.0/SCDB/tests/testthat/helper-setup.R |only SCDB-0.4.0/SCDB/tests/testthat/setup.R | 133 -- SCDB-0.4.0/SCDB/tests/testthat/test-0_linters.R |only SCDB-0.4.0/SCDB/tests/testthat/test-0_rd_files.R |only SCDB-0.4.0/SCDB/tests/testthat/test-Logger.R | 629 +++++++-- SCDB-0.4.0/SCDB/tests/testthat/test-connection.R | 105 - SCDB-0.4.0/SCDB/tests/testthat/test-create_logs_if_missing.R |only SCDB-0.4.0/SCDB/tests/testthat/test-create_table.R | 102 + SCDB-0.4.0/SCDB/tests/testthat/test-db_functions.R | 13 SCDB-0.4.0/SCDB/tests/testthat/test-db_joins.R | 227 +-- SCDB-0.4.0/SCDB/tests/testthat/test-db_timestamp.R | 38 SCDB-0.4.0/SCDB/tests/testthat/test-digest_to_checksum.R |only SCDB-0.4.0/SCDB/tests/testthat/test-filter_keys.R |only SCDB-0.4.0/SCDB/tests/testthat/test-getTableSignature.R |only SCDB-0.4.0/SCDB/tests/testthat/test-get_schema.R | 134 +- SCDB-0.4.0/SCDB/tests/testthat/test-get_table.R | 218 +-- SCDB-0.4.0/SCDB/tests/testthat/test-get_tables.R |only SCDB-0.4.0/SCDB/tests/testthat/test-helpers.R | 75 - SCDB-0.4.0/SCDB/tests/testthat/test-id.R |only SCDB-0.4.0/SCDB/tests/testthat/test-interlace.R |only SCDB-0.4.0/SCDB/tests/testthat/test-locks.R |only SCDB-0.4.0/SCDB/tests/testthat/test-schema_exists.R |only SCDB-0.4.0/SCDB/tests/testthat/test-slice_time.R |only SCDB-0.4.0/SCDB/tests/testthat/test-table_exists.R |only SCDB-0.4.0/SCDB/tests/testthat/test-unite.tbl_dbi.R |only SCDB-0.4.0/SCDB/tests/testthat/test-update_snapshot.R | 601 +++++---- SCDB-0.4.0/SCDB/tests/testthat/test-zzz.R | 25 SCDB-0.4.0/SCDB/vignettes/SCDB.Rmd |only SCDB-0.4.0/SCDB/vignettes/slowly-changing-dimension.Rmd | 44 105 files changed, 4388 insertions(+), 3222 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) simulation and inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Covariance functions for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. See the URL for the papers associ [...truncated...]
Author: Moreno Bevilacqua [aut, cre] ,
Victor Morales-Onate [aut] ,
Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 1.1.8 dated 2024-03-13 and 1.1.9 dated 2024-03-21
DESCRIPTION | 12 MD5 | 62 ++-- NAMESPACE | 5 R/GeoCompositeLik2.R | 4 R/GeoCovmatrix.r | 40 ++ R/GeoFit.r | 24 + R/GeoFit2.R | 24 + R/GeoKrig.r | 550 ++++++++++++----------------------------- R/GeoKrigloc.R | 25 + R/GeoNeighborhood.R | 28 +- R/GeoPit.R | 27 -- R/GeoSim.r | 474 ++++++++++++++++------------------- R/GeoSimCopula.R | 57 +++- R/GeoSimapprox.r | 176 +++++-------- R/GeoWls.r | 2 R/Geovarestbootstrap.R | 83 ++---- R/Utility.r | 32 +- R/sp2Geo.R |only man/GeoCovmatrix.Rd | 3 man/GeoFit.Rd | 4 man/GeoFit2.Rd | 4 man/GeoKrig.Rd | 4 man/GeoKrigloc.Rd | 5 man/GeoNeighborhood.Rd | 5 man/GeoSim.Rd | 8 man/GeoSimCopula.Rd | 4 man/GeoSimapprox.Rd | 7 man/sp2Geo.Rd |only src/CompositeLikelihood2.c | 28 ++ src/CompositeLikelihoodCond2.c | 30 ++ src/Distributions.c | 35 ++ src/GeoModels_init.c | 8 src/header.h | 3 33 files changed, 865 insertions(+), 908 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-08 2.3.0
2023-02-20 2.2.2
2022-09-24 2.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-18 1.2.7
2023-09-06 1.2.6
2020-02-24 1.2
Title: Exploratory Data Analysis for the 'spatstat' Family
Description: Functionality for exploratory data analysis and nonparametric analysis of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Kasper Klitgaard Berthelsen [ctb],
Warick Brown [cph],
Achmad Choiruddin [ctb],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ctb, cph],
Julian Gi [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.explore versions 3.2-6 dated 2024-02-01 and 3.2-7 dated 2024-03-21
DESCRIPTION | 18 +++++++++--------- MD5 | 16 ++++++++-------- NEWS | 15 +++++++++++++++ R/fryplot.R | 6 +++--- R/laslett.R | 12 ++++++------ R/plot.fv.R | 7 ++++--- R/spatialQuantile.R | 1 + R/sysdata.rda |binary inst/doc/packagesizes.txt | 1 + 9 files changed, 47 insertions(+), 29 deletions(-)
More information about spatstat.explore at CRAN
Permanent link
Title: US Maps Including Alaska and Hawaii
Description: Obtain United States map data frames of varying region types (e.g. county,
state). The map data frames include Alaska and Hawaii conveniently placed to the
bottom left, as they appear in most maps of the US. Convenience functions for plotting
choropleths, visualizing spatial data, and working with FIPS codes are also provided.
Author: Paolo Di Lorenzo [aut, cph, cre]
Maintainer: Paolo Di Lorenzo <dilorenzo@hey.com>
Diff between usmap versions 0.7.0 dated 2024-01-20 and 0.7.1 dated 2024-03-21
usmap-0.7.0/usmap/R/usmap.R |only usmap-0.7.1/usmap/DESCRIPTION | 19 - usmap-0.7.1/usmap/MD5 | 78 +++-- usmap-0.7.1/usmap/NEWS.md | 22 + usmap-0.7.1/usmap/R/data.R | 32 +- usmap-0.7.1/usmap/R/fips.R | 10 usmap-0.7.1/usmap/R/plot-map.R | 18 - usmap-0.7.1/usmap/R/transform.R | 40 -- usmap-0.7.1/usmap/R/us-map.R |only usmap-0.7.1/usmap/R/usmap-package.R |only usmap-0.7.1/usmap/README.md | 42 ++- usmap-0.7.1/usmap/data/countypop.rda |binary usmap-0.7.1/usmap/data/countypov.rda |binary usmap-0.7.1/usmap/data/statepop.rda |binary usmap-0.7.1/usmap/data/statepov.rda |binary usmap-0.7.1/usmap/inst/WORDLIST |only usmap-0.7.1/usmap/inst/doc/usmap1.html | 4 usmap-0.7.1/usmap/inst/doc/usmap2.R | 12 usmap-0.7.1/usmap/inst/doc/usmap2.Rmd | 12 usmap-0.7.1/usmap/inst/doc/usmap2.html | 22 - usmap-0.7.1/usmap/inst/doc/usmap3.html | 10 usmap-0.7.1/usmap/man/countypop.Rd | 8 usmap-0.7.1/usmap/man/countypov.Rd | 8 usmap-0.7.1/usmap/man/earthquakes.Rd | 2 usmap-0.7.1/usmap/man/plot_usmap.Rd | 12 usmap-0.7.1/usmap/man/statepop.Rd | 8 usmap-0.7.1/usmap/man/statepov.Rd | 6 usmap-0.7.1/usmap/man/us_map.Rd | 2 usmap-0.7.1/usmap/man/usmap.Rd | 6 usmap-0.7.1/usmap/tests/spelling.R |only usmap-0.7.1/usmap/tests/testthat.R | 8 usmap-0.7.1/usmap/tests/testthat/_snaps/data |only usmap-0.7.1/usmap/tests/testthat/_snaps/plot/example-data-state-map-with-custom-linewidth.svg | 18 - usmap-0.7.1/usmap/tests/testthat/_snaps/plot/state-population-map-with-blue-outlines.svg | 134 +++++----- usmap-0.7.1/usmap/tests/testthat/test-data.R |only usmap-0.7.1/usmap/tests/testthat/test-fips-info.R | 30 +- usmap-0.7.1/usmap/tests/testthat/test-fips.R | 2 usmap-0.7.1/usmap/tests/testthat/test-join-data.R | 2 usmap-0.7.1/usmap/tests/testthat/test-plot.R | 66 ++-- usmap-0.7.1/usmap/tests/testthat/test-transform.R | 2 usmap-0.7.1/usmap/tests/testthat/test-usmap.R | 2 usmap-0.7.1/usmap/vignettes/usmap2.Rmd | 12 42 files changed, 341 insertions(+), 308 deletions(-)
Title: Advanced and Fast Data Transformation
Description: A C/C++ based package for advanced data transformation and
statistical computing in R that is extremely fast, class-agnostic, robust and
programmer friendly. Core functionality includes a rich set of S3 generic grouped
and weighted statistical functions for vectors, matrices and data frames, which
provide efficient low-level vectorizations, OpenMP multithreading, and skip missing
values by default. These are integrated with fast grouping and ordering algorithms
(also callable from C), and efficient data manipulation functions. The package also
provides a flexible and rigorous approach to time series and panel data in R.
It further includes fast functions for common statistical procedures, detailed
(grouped, weighted) summary statistics, powerful tools to work with nested data,
fast data object conversions, functions for memory efficient R programming, and
helpers to effectively deal with variable labels, attributes, and missing data.
It is well integrated with base R classes, 'dplyr'/' [...truncated...]
Author: Sebastian Krantz [aut, cre] ,
Matt Dowle [ctb],
Arun Srinivasan [ctb],
Morgan Jacob [ctb],
Dirk Eddelbuettel [ctb],
Laurent Berge [ctb],
Kevin Tappe [ctb],
R Core Team and contributors worldwide [ctb],
Martyn Plummer [cph],
1999-2016 The R Core Team [...truncated...]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between collapse versions 2.0.10 dated 2024-02-17 and 2.0.11 dated 2024-03-21
DESCRIPTION | 8 - MD5 | 92 ++++++++++----------- NEWS.md | 8 + R/GRP.R | 19 ++-- R/join.R | 6 - inst/CITATION | 13 ++ inst/doc/collapse_documentation.Rmd | 7 + inst/doc/collapse_documentation.html | 12 ++ inst/doc/collapse_for_tidyverse_users.html | 4 inst/doc/collapse_object_handling.Rmd | 2 inst/doc/collapse_object_handling.html | 8 - man/BY.Rd | 16 +-- man/GGDC10S.Rd | 27 +++--- man/GRP.Rd | 40 ++++----- man/TRA.Rd | 13 +- man/across.Rd | 28 ++---- man/arithmetic.Rd | 6 - man/collap.Rd | 15 +-- man/collapse-package.Rd | 127 ++++++++++++++--------------- man/fast-statistical-functions.Rd | 12 +- man/fbetween_fwithin.Rd | 6 - man/fcount.Rd | 15 +-- man/fdiff.Rd | 15 +-- man/ffirst_flast.Rd | 6 - man/fhdbetween_fhdwithin.Rd | 3 man/flag.Rd | 7 - man/fmean.Rd | 16 +-- man/fmin_fmax.Rd | 10 -- man/fndistinct.Rd | 10 -- man/fnobs.Rd | 10 -- man/fnth_fmedian.Rd | 33 +++---- man/fprod.Rd | 11 -- man/fquantile.Rd | 6 - man/fscale.Rd | 10 -- man/fsum.Rd | 19 ++-- man/fsummarise.Rd | 36 +++----- man/ftransform.Rd | 72 +++++++--------- man/fvar_fsd.Rd | 12 +- man/indexing.Rd | 45 +++++----- man/pivot.Rd | 8 - man/qsu.Rd | 4 man/qtab.Rd | 19 ++-- man/seqid.Rd | 4 man/timeid.Rd | 3 src/programming.c | 4 vignettes/collapse_documentation.Rmd | 7 + vignettes/collapse_object_handling.Rmd | 2 47 files changed, 427 insertions(+), 429 deletions(-)
Title: Logging in 'R' and Post to 'Azure Log Analytics' Workspace
Description: It extends the functionality of 'logger' package. Additional
logging metadata can be configured to be collected. Logging messages are
displayed on console and optionally they are sent to 'Azure Log Analytics'
workspace in real-time.
Author: Vivek Atal [aut, cre]
Maintainer: Vivek Atal <atalvivek@yahoo.co.in>
Diff between azlogr versions 0.0.5 dated 2023-10-09 and 0.0.6 dated 2024-03-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ README.md | 4 ++-- tests/testthat/test-logger_level.R | 7 ++++--- 5 files changed, 18 insertions(+), 12 deletions(-)