Title: Who are You? Bayesian Prediction of Racial Category Using
Surname, First Name, Middle Name, and Geolocation
Description: Predicts individual race/ethnicity using surname, first name,
middle name, geolocation, and other attributes, such as gender and
age. The method utilizes Bayes' Rule (with optional measurement error
correction) to compute the posterior probability of each racial
category for any given individual. The package implements methods
described in Imai and Khanna (2016) "Improving Ecological Inference by
Predicting Individual Ethnicity from Voter Registration Records"
Political Analysis <DOI:10.1093/pan/mpw001> and Imai, Olivella, and
Rosenman (2022) "Addressing census data problems in race imputation
via fully Bayesian Improved Surname Geocoding and name supplements"
<DOI:10.1126/sciadv.adc9824>. The package also incorporates the data
described in Rosenman, Olivella, and Imai (2023) "Race and ethnicity
data for first, middle, and surnames"
<DOI:10.1038/s41597-023-02202-2>.
Author: Kabir Khanna [aut],
Brandon Bertelsen [aut, cre],
Santiago Olivella [aut],
Evan Rosenman [aut],
Alex Rossell Hayes [aut],
Kosuke Imai [aut]
Maintainer: Brandon Bertelsen <brandon@bertelsen.ca>
Diff between wru versions 3.0.0 dated 2024-02-16 and 3.0.1 dated 2024-02-27
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/merge_names.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Extensions for 'Flextable'
Description: Build display tables easily by extending the functionality of the
'flextable' package. Features include spanning header, grouping rows,
parsing markdown and so on.
Author: Atsushi Yasumoto [aut, cph, cre]
,
David Gohel [ctb],
Romain Francois [ctb] ,
Tatsuya Shima [ctb]
Maintainer: Atsushi Yasumoto <atusy.rpkg@gmail.com>
Diff between ftExtra versions 0.6.1 dated 2023-09-28 and 0.6.2 dated 2024-02-27
DESCRIPTION | 8 ++-- MD5 | 45 ++++++++++++----------- NEWS.md | 4 ++ R/as-flextable.R | 3 - R/as-paragraph-md.R | 65 +++++++++++++++++----------------- R/colformat.R | 44 ++++++++++++----------- R/collect-citations.R | 2 - R/header-transform.R | 40 +++++++++----------- R/knit-print.R | 4 +- R/md2df.R | 17 +++++--- R/pandoc-extensions.R | 6 ++- R/pandoc.R | 5 ++ build/vignette.rds |binary inst/doc/format_columns.html | 40 ++++++++++---------- inst/doc/group-rows.R | 2 - inst/doc/group-rows.Rmd | 3 - inst/doc/group-rows.html | 16 ++++---- inst/doc/transform-headers.R | 2 - inst/doc/transform-headers.Rmd | 2 - inst/doc/transform-headers.html | 10 ++--- inst/lua/horizontal-rule.lua |only tests/testthat/test-as-paragraph-md.R | 2 - vignettes/group-rows.Rmd | 3 - vignettes/transform-headers.Rmd | 2 - 24 files changed, 171 insertions(+), 154 deletions(-)
Title: Plastome Assembly Coverage Visualization
Description: Visualizes the coverage depth of a complete plastid genome as well as the equality of its inverted repeat regions in relation to the circular, quadripartite genome structure and the location of individual genes. For more information, please see Gruenstaeudl and Jenke (2020) <doi:10.1186/s12859-020-3475-0>.
Author: Gregory Smith [ctb],
Nils Jenke [ctb],
Michael Gruenstaeudl [aut, cre]
Maintainer: Michael Gruenstaeudl <m_gruenstaeudl@fhsu.edu>
Diff between PACVr versions 1.0.7 dated 2024-02-05 and 1.0.8 dated 2024-02-27
DESCRIPTION | 10 MD5 | 33 +-- NAMESPACE | 1 R/IRoperations.R | 12 - R/PACVr-package.R | 5 R/PACVr.R | 229 ++++++--------------- R/customizedRCircos.R | 2 R/customizedRead.gb.R | 11 - R/generatePlotData.R | 21 +- R/helpers.R | 398 ++++---------------------------------- R/parseData.R | 126 +++++++++++- R/quadripartiteOperations.R | 46 +--- R/read.gb2PACVr.R |only R/verboseInformation.R |only R/visualizeWithRCircos.R | 128 ++++++++---- inst/doc/PACVr_Vignette.pdf |binary inst/extdata/PACVr_Rscript.R | 5 inst/extdata/PACVr_run_parallel.R |only man/PACVr.complete.Rd | 5 19 files changed, 397 insertions(+), 635 deletions(-)
Title: Delaunay Triangulation and Dirichlet (Voronoi) Tessellation
Description: Calculates the Delaunay triangulation and the Dirichlet
or Voronoi tessellation (with respect to the entire plane) of
a planar point set. Plots triangulations and tessellations in
various ways. Clips tessellations to sub-windows. Calculates
perimeters of tessellations. Summarises information about
the tiles of the tessellation. Calculates the centroidal
Voronoi (Dirichlet) tessellation using Lloyd's algorithm.
Author: Rolf Turner
Maintainer: Rolf Turner <rolfturner@posteo.net>
Diff between deldir versions 2.0-2 dated 2023-11-23 and 2.0-4 dated 2024-02-27
ChangeLog | 44 ++++++++++++++++++++++++++++++++------------ DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/First.R | 22 +++------------------- R/deldir.R | 17 +++++++++++++++++ R/plot.tile.list.R | 4 ++-- man/cvt.Rd | 2 +- man/plot.tile.list.Rd | 30 +++++++++++++++++++----------- 8 files changed, 85 insertions(+), 56 deletions(-)
Title: Drug Demand Forecasting
Description: Performs drug demand forecasting by modeling drug dispensing data while taking into account predicted enrollment and treatment discontinuation dates. The gap time between randomization and the first drug dispensing visit is modeled using interval-censored exponential, Weibull, log-logistic, or log-normal distributions (Anderson-Bergman (2017) <doi:10.18637/jss.v081.i12>). The number of skipped visits is modeled using Poisson, zero-inflated Poisson, or negative binomial distributions (Zeileis, Kleiber & Jackman (2008) <doi:10.18637/jss.v027.i08>). The gap time between two consecutive drug dispensing visits given the number of skipped visits is modeled using linear regression based on least squares or least absolute deviations (Birkes & Dodge (1993, ISBN:0-471-56881-3)). The number of dispensed doses is modeled using linear or linear mixed-effects models (McCulloch & Searle (2001, ISBN:0-471-19364-X)).
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between drugDemand versions 0.1.2 dated 2023-12-21 and 0.1.3 dated 2024-02-27
drugDemand-0.1.2/drugDemand/data/drug_description_df.rda |only drugDemand-0.1.2/drugDemand/data/treatment_by_drug.rda |only drugDemand-0.1.2/drugDemand/man/drug_description_df.Rd |only drugDemand-0.1.2/drugDemand/man/f_treatment_by_drug_df.Rd |only drugDemand-0.1.2/drugDemand/man/treatment_by_drug.Rd |only drugDemand-0.1.3/drugDemand/DESCRIPTION | 21 drugDemand-0.1.3/drugDemand/MD5 | 72 - drugDemand-0.1.3/drugDemand/NAMESPACE | 15 drugDemand-0.1.3/drugDemand/NEWS.md | 31 drugDemand-0.1.3/drugDemand/R/data.R | 44 drugDemand-0.1.3/drugDemand/R/drugDemand-package.R | 20 drugDemand-0.1.3/drugDemand/R/f_dispensing_models.R | 576 +++++------- drugDemand-0.1.3/drugDemand/R/f_dose_draw.R | 669 +++++--------- drugDemand-0.1.3/drugDemand/R/f_dose_observed.R | 217 ++-- drugDemand-0.1.3/drugDemand/R/f_dose_pp.R | 186 +-- drugDemand-0.1.3/drugDemand/R/f_drug_demand.R | 589 +++++++----- drugDemand-0.1.3/drugDemand/R/f_ongoing_new.R |only drugDemand-0.1.3/drugDemand/data/dosing_schedule_df.rda |binary drugDemand-0.1.3/drugDemand/data/kit_description_df.rda |only drugDemand-0.1.3/drugDemand/data/treatment_by_drug_df.rda |only drugDemand-0.1.3/drugDemand/data/visitview1.rda |binary drugDemand-0.1.3/drugDemand/data/visitview2.rda |binary drugDemand-0.1.3/drugDemand/man/df1.Rd | 2 drugDemand-0.1.3/drugDemand/man/df2.Rd | 2 drugDemand-0.1.3/drugDemand/man/dosing_schedule_df.Rd | 4 drugDemand-0.1.3/drugDemand/man/drugDemand-package.Rd | 3 drugDemand-0.1.3/drugDemand/man/f_dispensing_models.Rd | 46 drugDemand-0.1.3/drugDemand/man/f_dose_draw.Rd | 129 +- drugDemand-0.1.3/drugDemand/man/f_dose_draw_1.Rd | 198 +--- drugDemand-0.1.3/drugDemand/man/f_dose_draw_t_1.Rd | 147 +-- drugDemand-0.1.3/drugDemand/man/f_dose_observed.Rd | 51 - drugDemand-0.1.3/drugDemand/man/f_dose_pp.Rd | 64 - drugDemand-0.1.3/drugDemand/man/f_drug_demand.Rd | 118 +- drugDemand-0.1.3/drugDemand/man/f_fit_di.Rd | 24 drugDemand-0.1.3/drugDemand/man/f_fit_ki.Rd | 31 drugDemand-0.1.3/drugDemand/man/f_fit_t0.Rd | 31 drugDemand-0.1.3/drugDemand/man/f_fit_ti.Rd | 31 drugDemand-0.1.3/drugDemand/man/f_ongoing_new.Rd |only drugDemand-0.1.3/drugDemand/man/kit_description_df.Rd |only drugDemand-0.1.3/drugDemand/man/rdirichlet.Rd |only drugDemand-0.1.3/drugDemand/man/treatment_by_drug_df.Rd |only drugDemand-0.1.3/drugDemand/man/visitview1.Rd | 7 drugDemand-0.1.3/drugDemand/man/visitview2.Rd | 7 43 files changed, 1571 insertions(+), 1764 deletions(-)
Title: Accessing 'SimFin' Data
Description: Through simfinapi, you can intuitively access the 'SimFin'
Web-API (<https://www.simfin.com/>) to make 'SimFin' data easily
available in R. To obtain an 'SimFin' API key (and thus to use this
package), you need to register at <https://app.simfin.com/login>.
Author: Matthias Gomolka [aut, cre]
Maintainer: Matthias Gomolka <matthias.gomolka@posteo.de>
Diff between simfinapi versions 0.2.4 dated 2023-04-12 and 1.0.0 dated 2024-02-27
simfinapi-0.2.4/simfinapi/R/sfa_get_entities.R |only simfinapi-0.2.4/simfinapi/R/sfa_get_info.R |only simfinapi-0.2.4/simfinapi/R/sfa_get_prices.R |only simfinapi-0.2.4/simfinapi/R/sfa_get_ref.R |only simfinapi-0.2.4/simfinapi/R/sfa_get_shares.R |only simfinapi-0.2.4/simfinapi/R/sfa_get_statement.R |only simfinapi-0.2.4/simfinapi/man/set_clean_names.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_get_entities.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_get_info.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_get_prices.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_get_ref.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_get_shares.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_get_statement.Rd |only simfinapi-0.2.4/simfinapi/man/sfa_set_sfplus.Rd |only simfinapi-0.2.4/simfinapi/tests/testthat/test-check_inputs.R |only simfinapi-0.2.4/simfinapi/tests/testthat/test-sfa_get_entities.R |only simfinapi-0.2.4/simfinapi/tests/testthat/test-sfa_get_id.R |only simfinapi-0.2.4/simfinapi/tests/testthat/test-sfa_get_info.R |only simfinapi-0.2.4/simfinapi/tests/testthat/test-sfa_get_prices.R |only simfinapi-0.2.4/simfinapi/tests/testthat/test-sfa_get_shares.R |only simfinapi-0.2.4/simfinapi/tests/testthat/test-sfa_get_statement.R |only simfinapi-1.0.0/simfinapi/DESCRIPTION | 11 simfinapi-1.0.0/simfinapi/MD5 | 94 +++--- simfinapi-1.0.0/simfinapi/NAMESPACE | 35 +- simfinapi-1.0.0/simfinapi/NEWS.md | 4 simfinapi-1.0.0/simfinapi/R/call_api.R | 73 ++--- simfinapi-1.0.0/simfinapi/R/check_inputs.R | 46 ++- simfinapi-1.0.0/simfinapi/R/param_doc.R | 33 +- simfinapi-1.0.0/simfinapi/R/sfa_load__shares_outstanding.R |only simfinapi-1.0.0/simfinapi/R/sfa_load_companies.R |only simfinapi-1.0.0/simfinapi/R/sfa_load_shareprices.R |only simfinapi-1.0.0/simfinapi/R/sfa_load_statement.R |only simfinapi-1.0.0/simfinapi/R/sfa_set_api_key.R | 45 +-- simfinapi-1.0.0/simfinapi/R/sfa_set_cache_dir.R | 24 - simfinapi-1.0.0/simfinapi/R/sfa_set_sfplus.R | 40 +- simfinapi-1.0.0/simfinapi/R/simfinapi-package.R |only simfinapi-1.0.0/simfinapi/R/utils.R | 142 +++++----- simfinapi-1.0.0/simfinapi/R/zzz.R | 11 simfinapi-1.0.0/simfinapi/README.md | 4 simfinapi-1.0.0/simfinapi/build/vignette.rds |binary simfinapi-1.0.0/simfinapi/inst/WORDLIST | 5 simfinapi-1.0.0/simfinapi/inst/doc/simfinapi.R | 2 simfinapi-1.0.0/simfinapi/inst/doc/simfinapi.html | 2 simfinapi-1.0.0/simfinapi/man/figures/lifecycle-archived.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-defunct.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-deprecated.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-experimental.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-maturing.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-questioning.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-stable.svg |only simfinapi-1.0.0/simfinapi/man/figures/lifecycle-superseded.svg |only simfinapi-1.0.0/simfinapi/man/param_doc.Rd | 33 +- simfinapi-1.0.0/simfinapi/man/sfa_load_common_shares_outstanding.Rd |only simfinapi-1.0.0/simfinapi/man/sfa_load_companies.Rd |only simfinapi-1.0.0/simfinapi/man/sfa_load_shareprices.Rd |only simfinapi-1.0.0/simfinapi/man/sfa_load_statements.Rd |only simfinapi-1.0.0/simfinapi/man/sfa_load_weighted_shares_outstanding.Rd |only simfinapi-1.0.0/simfinapi/man/sfa_set_api_key.Rd | 11 simfinapi-1.0.0/simfinapi/man/sfa_set_cache_dir.Rd | 3 simfinapi-1.0.0/simfinapi/man/simfinapi-package.Rd |only simfinapi-1.0.0/simfinapi/tests/spelling.R | 4 simfinapi-1.0.0/simfinapi/tests/testthat.R | 4 simfinapi-1.0.0/simfinapi/tests/testthat/test-call_api.R | 21 - simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_load__shares_outstanding.R |only simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_load_companies.R |only simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_load_shareprices.R |only simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_load_statement.R |only simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_set_cache_dir.R | 20 - simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_set_key.R | 40 -- simfinapi-1.0.0/simfinapi/tests/testthat/test-sfa_set_sfplus.R | 10 70 files changed, 355 insertions(+), 362 deletions(-)
Title: Event Prediction
Description: Predicts enrollment and events at the design or analysis stage using specified enrollment and time-to-event models through simulations.
Author: Kaifeng Lu [aut, cre]
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between eventPred versions 0.2.4 dated 2024-01-21 and 0.2.5 dated 2024-02-27
DESCRIPTION | 8 MD5 | 34 +-- NEWS.md | 11 + R/fitDropout.R | 31 +-- R/fitEnrollment.R | 2 R/fitEvent.R | 32 +-- R/getPrediction.R | 27 ++ R/predictEnrollment.R | 7 R/predictEvent.R | 6 inst/doc/event_prediction_after_enrollment_completion.Rmd | 2 inst/doc/event_prediction_after_enrollment_completion.html | 8 inst/doc/event_prediction_at_the_design_stage.html | 4 inst/doc/event_prediction_before_enrollment_completion.html | 6 inst/doc/event_prediction_incorporating_covariates.html | 4 inst/doc/event_prediction_incorporating_prior_information.html | 6 inst/shinyApp/app.R | 91 +++++----- man/predictEvent.Rd | 4 vignettes/event_prediction_after_enrollment_completion.Rmd | 2 18 files changed, 162 insertions(+), 123 deletions(-)
Title: 'Pubmed' Toolkit
Description: Provides various functions for retrieving and
interpreting information from 'Pubmed' via the API,
<https://www.ncbi.nlm.nih.gov/home/develop/api/>.
Author: Benjamin Gregory Carlisle [aut, cre]
Maintainer: Benjamin Gregory Carlisle <murph@bgcarlisle.com>
Diff between pubmedtk versions 1.0.2 dated 2023-12-18 and 1.0.3 dated 2024-02-27
DESCRIPTION | 8 +++---- MD5 | 14 ++++++------- NEWS.md | 5 ++++ R/get_metadata_from_one_pmid.R | 40 +++++++++++++++++++++++++++++++++++--- R/get_metadata_from_pmids.R | 20 ++++++++++++++++--- README.md | 7 ++++-- man/get_metadata_from_one_pmid.Rd | 3 ++ man/get_metadata_from_pmids.Rd | 3 ++ 8 files changed, 81 insertions(+), 19 deletions(-)
Title: Spectral Transmittance and Spectral Reflectance Data
Description: Spectral 'transmittance' data for frequently used filters and
similar materials. Plastic sheets and films; photography filters;
theatrical gels; machine-vision filters; various types of window glass;
optical glass and some laboratory plastics and glassware. Spectral
reflectance data for frequently encountered materials. Part of the
'r4photobiology' suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] ,
Titta K. Kotilainen [ctb] ,
T. Matthew Robson [ctb] ,
Ricardo Hernandez [ctb] ,
Tania de la Rosa [ctb] ,
Riitta Tegelberg [ctb] ,
Andreas Albert [ctb] ,
SCHOTT AG [ctb] ,
Midwest Optical Systems, Inc. [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologyFilters versions 0.5.2 dated 2020-10-05 and 0.6.0 dated 2024-02-27
photobiologyFilters-0.5.2/photobiologyFilters/NEWS |only photobiologyFilters-0.5.2/photobiologyFilters/R/all-accesors.r |only photobiologyFilters-0.5.2/photobiologyFilters/man/acetate_filters.Rd |only photobiologyFilters-0.5.2/photobiologyFilters/man/all_filter_accessors.Rd |only photobiologyFilters-0.6.0/photobiologyFilters/DESCRIPTION | 25 photobiologyFilters-0.6.0/photobiologyFilters/MD5 | 133 photobiologyFilters-0.6.0/photobiologyFilters/NAMESPACE | 1 photobiologyFilters-0.6.0/photobiologyFilters/NEWS.md |only photobiologyFilters-0.6.0/photobiologyFilters/R/all-selectors.r |only photobiologyFilters-0.6.0/photobiologyFilters/R/bpi-visqueen.r | 26 photobiologyFilters-0.6.0/photobiologyFilters/R/colors.r | 10 photobiologyFilters-0.6.0/photobiologyFilters/R/courtaulds.r | 37 photobiologyFilters-0.6.0/photobiologyFilters/R/etola.r | 16 photobiologyFilters-0.6.0/photobiologyFilters/R/evonik.r | 19 photobiologyFilters-0.6.0/photobiologyFilters/R/filters-mspct.r | 26 photobiologyFilters-0.6.0/photobiologyFilters/R/foiltek.r | 28 photobiologyFilters-0.6.0/photobiologyFilters/R/glass-windows.r | 23 photobiologyFilters-0.6.0/photobiologyFilters/R/materials-mspct.r | 33 photobiologyFilters-0.6.0/photobiologyFilters/R/materials.r | 48 photobiologyFilters-0.6.0/photobiologyFilters/R/mcdermit.r | 20 photobiologyFilters-0.6.0/photobiologyFilters/R/metals-mspct.r | 36 photobiologyFilters-0.6.0/photobiologyFilters/R/midopt.r | 21 photobiologyFilters-0.6.0/photobiologyFilters/R/petri.dishes.r | 26 photobiologyFilters-0.6.0/photobiologyFilters/R/photobiologyFilters.R | 68 photobiologyFilters-0.6.0/photobiologyFilters/R/photography-filters.r | 86 photobiologyFilters-0.6.0/photobiologyFilters/R/refractive-index-mspct.r | 8 photobiologyFilters-0.6.0/photobiologyFilters/R/schott.r | 17 photobiologyFilters-0.6.0/photobiologyFilters/R/screens-nets-mspct.R |only photobiologyFilters-0.6.0/photobiologyFilters/R/screens_nets.R |only photobiologyFilters-0.6.0/photobiologyFilters/R/stacked-filters.r |only photobiologyFilters-0.6.0/photobiologyFilters/R/theatrical-gels.r | 29 photobiologyFilters-0.6.0/photobiologyFilters/R/types.r | 7 photobiologyFilters-0.6.0/photobiologyFilters/R/uqg.r | 18 photobiologyFilters-0.6.0/photobiologyFilters/R/water-n.r |only photobiologyFilters-0.6.0/photobiologyFilters/README.md | 206 - photobiologyFilters-0.6.0/photobiologyFilters/build/partial.rdb |only photobiologyFilters-0.6.0/photobiologyFilters/build/vignette.rds |binary photobiologyFilters-0.6.0/photobiologyFilters/data/filters-mspct.rda |binary photobiologyFilters-0.6.0/photobiologyFilters/data/materials-mspct.rda |binary photobiologyFilters-0.6.0/photobiologyFilters/data/metals-mspct.rda |binary photobiologyFilters-0.6.0/photobiologyFilters/data/refractive-index.rda |binary photobiologyFilters-0.6.0/photobiologyFilters/data/screens-nets-mspct.rda |only photobiologyFilters-0.6.0/photobiologyFilters/inst/CITATION | 13 photobiologyFilters-0.6.0/photobiologyFilters/inst/doc/r4p-introduction.R |only photobiologyFilters-0.6.0/photobiologyFilters/inst/doc/r4p-introduction.Rmd |only photobiologyFilters-0.6.0/photobiologyFilters/inst/doc/r4p-introduction.html |only photobiologyFilters-0.6.0/photobiologyFilters/inst/doc/user-guide.R | 16 photobiologyFilters-0.6.0/photobiologyFilters/inst/doc/user-guide.Rmd | 20 photobiologyFilters-0.6.0/photobiologyFilters/inst/doc/user-guide.html | 1439 +++++----- photobiologyFilters-0.6.0/photobiologyFilters/man/all_selectors.Rd |only photobiologyFilters-0.6.0/photobiologyFilters/man/band_pass_filters.Rd | 93 photobiologyFilters-0.6.0/photobiologyFilters/man/bpi_visqueen_filters.Rd | 71 photobiologyFilters-0.6.0/photobiologyFilters/man/clear_filters.Rd | 161 - 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More information about photobiologyFilters at CRAN
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Title: Implements the Leiden Algorithm via an R Interface
Description: An R interface to the Leiden algorithm, an iterative community detection algorithm on networks. The algorithm is designed to converge to a partition in which all subsets of all communities are locally optimally assigned, yielding communities guaranteed to be connected. The implementation proves to be fast, scales well, and can be run on graphs of millions of nodes (as long as they can fit in memory). The original implementation was constructed as a python interface "leidenalg" found here: <https://github.com/vtraag/leidenalg>. The algorithm was originally described in Traag, V.A., Waltman, L. & van Eck, N.J. "From Louvain to Leiden: guaranteeing well-connected communities". Sci Rep 9, 5233 (2019) <doi:10.1038/s41598-019-41695-z>.
Author: Peter Kharchenko [aut],
Viktor Petukhov [aut],
Yichen Wang [aut],
V.A. Traag [ctb],
Gabor Csardi [ctb],
Tamas Nepusz [ctb],
Minh Van Nguyen [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between leidenAlg versions 1.1.2 dated 2023-09-06 and 1.1.3 dated 2024-02-27
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- README.md | 2 +- src/Makevars | 9 ++++----- src/Makevars.win | 9 ++++----- src/leiden.cpp | 2 +- src/leidenalg/Makefile | 3 +-- src/rigraph/Makefile | 10 ++++------ src/rigraph/Makefile.win | 10 ++++------ src/rigraph/rinterface.c | 4 +++- 10 files changed, 34 insertions(+), 39 deletions(-)
Title: An Implementation of Grammar of Graphics for Graphs and Networks
Description: The grammar of graphics as implemented in ggplot2 is a poor fit for
graph and network visualizations due to its reliance on tabular data input.
ggraph is an extension of the ggplot2 API tailored to graph visualizations
and provides the same flexible approach to building up plots layer by layer.
Author: Thomas Lin Pedersen [cre, aut]
,
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between ggraph versions 2.1.0 dated 2022-10-09 and 2.2.0 dated 2024-02-27
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ggraph-2.2.0/ggraph/man/guide_edge_coloursteps.Rd | 70 - ggraph-2.2.0/ggraph/man/guide_edge_direction.Rd | 82 - ggraph-2.2.0/ggraph/man/layout_tbl_graph_auto.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_backbone.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_cactustree.Rd |only ggraph-2.2.0/ggraph/man/layout_tbl_graph_centrality.Rd | 12 ggraph-2.2.0/ggraph/man/layout_tbl_graph_circlepack.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_dendrogram.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_eigen.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_fabric.Rd | 6 ggraph-2.2.0/ggraph/man/layout_tbl_graph_focus.Rd | 12 ggraph-2.2.0/ggraph/man/layout_tbl_graph_hive.Rd | 6 ggraph-2.2.0/ggraph/man/layout_tbl_graph_htree.Rd |only ggraph-2.2.0/ggraph/man/layout_tbl_graph_igraph.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_linear.Rd | 13 ggraph-2.2.0/ggraph/man/layout_tbl_graph_manual.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_matrix.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_metro.Rd |only ggraph-2.2.0/ggraph/man/layout_tbl_graph_partition.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_pmds.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_sf.Rd |only ggraph-2.2.0/ggraph/man/layout_tbl_graph_stress.Rd | 10 ggraph-2.2.0/ggraph/man/layout_tbl_graph_treemap.Rd | 4 ggraph-2.2.0/ggraph/man/layout_tbl_graph_unrooted.Rd | 6 ggraph-2.2.0/ggraph/man/node_angle.Rd | 7 ggraph-2.2.0/ggraph/man/pack_circles.Rd | 2 ggraph-2.2.0/ggraph/man/scale_edge_colour.Rd | 11 ggraph-2.2.0/ggraph/man/scale_edge_fill.Rd | 11 ggraph-2.2.0/ggraph/man/scale_edge_linetype.Rd | 11 ggraph-2.2.0/ggraph/man/scale_edge_shape.Rd | 11 ggraph-2.2.0/ggraph/man/scale_edge_size.Rd | 20 ggraph-2.2.0/ggraph/man/scale_edge_width.Rd | 20 ggraph-2.2.0/ggraph/man/scale_label_size.Rd | 20 ggraph-2.2.0/ggraph/src/cactusTree.cpp |only ggraph-2.2.0/ggraph/src/circlePack.cpp | 166 +- ggraph-2.2.0/ggraph/src/cpp11.cpp |only ggraph-2.2.0/ggraph/src/dendrogram.cpp | 29 ggraph-2.2.0/ggraph/src/forceBundle.cpp |only ggraph-2.2.0/ggraph/src/hTree.cpp |only ggraph-2.2.0/ggraph/src/iciclePlot.cpp | 16 ggraph-2.2.0/ggraph/src/lineCutter.cpp | 29 ggraph-2.2.0/ggraph/src/nodes.cpp | 39 ggraph-2.2.0/ggraph/src/nodes.h | 22 ggraph-2.2.0/ggraph/src/pathAttr.cpp | 54 ggraph-2.2.0/ggraph/src/treemap.cpp | 16 ggraph-2.2.0/ggraph/src/unrooted.cpp | 16 ggraph-2.2.0/ggraph/vignettes/Edges.Rmd | 66 + ggraph-2.2.0/ggraph/vignettes/Layouts.Rmd | 78 + ggraph-2.2.0/ggraph/vignettes/Nodes.Rmd | 2 178 files changed, 2542 insertions(+), 1877 deletions(-)
Title: Random Fields on Metric Graphs
Description: Facilitates creation and manipulation of metric graphs, such as street or river networks. Further facilitates operations and visualizations of data on metric graphs, and the creation of a large class of random fields and stochastic partial differential equations on such spaces. These random fields can be used for simulation, prediction and inference. In particular, linear mixed effects models including random field components can be fitted to data based on computationally efficient sparse matrix representations. Interfaces to the R packages 'INLA' and 'inlabru' are also provided, which facilitate working with Bayesian statistical models on metric graphs. The main references for the methods are Bolin, Simas and Wallin (2024) <doi:10.3150/23-BEJ1647>, Bolin, Kovacs, Kumar and Simas (2023) <doi:10.1090/mcom/3929> and Bolin, Simas and Wallin (2023) <doi:10.48550/arXiv.2304.03190> and <doi:10.48550/arXiv.2304.10372>.
Author: David Bolin [cre, aut],
Alexandre Simas [aut],
Jonas Wallin [aut]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between MetricGraph versions 1.2.0 dated 2023-11-07 and 1.3.0 dated 2024-02-27
MetricGraph-1.2.0/MetricGraph/R/MetricGraph.R |only MetricGraph-1.2.0/MetricGraph/man/MetricGraph.Rd |only MetricGraph-1.3.0/MetricGraph/DESCRIPTION | 16 MetricGraph-1.3.0/MetricGraph/MD5 | 59 MetricGraph-1.3.0/MetricGraph/NAMESPACE | 7 MetricGraph-1.3.0/MetricGraph/NEWS.md | 18 MetricGraph-1.3.0/MetricGraph/R/MetricGraph-package.R |only MetricGraph-1.3.0/MetricGraph/R/graph_inference.R | 77 MetricGraph-1.3.0/MetricGraph/R/graph_likelihoods.R | 274 + MetricGraph-1.3.0/MetricGraph/R/graph_lme.R | 1190 +++++- MetricGraph-1.3.0/MetricGraph/R/graph_spde.R | 12 MetricGraph-1.3.0/MetricGraph/R/metric_graph.R | 1712 ++++++++-- MetricGraph-1.3.0/MetricGraph/R/spde_posteriors.R | 48 MetricGraph-1.3.0/MetricGraph/R/spde_precision.R | 117 MetricGraph-1.3.0/MetricGraph/R/spde_sampling.R | 15 MetricGraph-1.3.0/MetricGraph/R/util.R | 539 ++- MetricGraph-1.3.0/MetricGraph/build/vignette.rds |binary MetricGraph-1.3.0/MetricGraph/inst/CITATION | 33 MetricGraph-1.3.0/MetricGraph/inst/doc/MetricGraph_pkg.Rmd | 11 MetricGraph-1.3.0/MetricGraph/inst/doc/MetricGraph_pkg.html | 9 MetricGraph-1.3.0/MetricGraph/man/MetricGraph-package.Rd |only MetricGraph-1.3.0/MetricGraph/man/augment.graph_lme.Rd | 28 MetricGraph-1.3.0/MetricGraph/man/graph_components.Rd | 3 MetricGraph-1.3.0/MetricGraph/man/graph_lme.Rd | 28 MetricGraph-1.3.0/MetricGraph/man/graph_starting_values.Rd | 8 MetricGraph-1.3.0/MetricGraph/man/metric_graph.Rd | 232 + MetricGraph-1.3.0/MetricGraph/man/predict.graph_lme.Rd | 17 MetricGraph-1.3.0/MetricGraph/man/simulate.graph_lme.Rd |only MetricGraph-1.3.0/MetricGraph/tests/testthat/test.graph.R | 6 MetricGraph-1.3.0/MetricGraph/tests/testthat/test_crossval.R | 8 MetricGraph-1.3.0/MetricGraph/tests/testthat/test_isoExp.R | 12 MetricGraph-1.3.0/MetricGraph/tests/testthat/test_split_line.R | 3 MetricGraph-1.3.0/MetricGraph/vignettes/MetricGraph_pkg.Rmd | 11 33 files changed, 3614 insertions(+), 879 deletions(-)
Title: Cross-Validation for Model Selection
Description: Cross-validate one or multiple regression and classification models
and get relevant evaluation metrics in a tidy format. Validate the
best model on a test set and compare it to a baseline evaluation.
Alternatively, evaluate predictions from an external model. Currently
supports regression and classification (binary and multiclass).
Described in chp. 5 of Jeyaraman, B. P., Olsen, L. R.,
& Wambugu M. (2019, ISBN: 9781838550134).
Author: Ludvig Renbo Olsen [aut, cre] ,
Hugh Benjamin Zachariae [aut],
Indrajeet Patil [ctb] ,
Daniel Luedecke [ctb]
Maintainer: Ludvig Renbo Olsen <r-pkgs@ludvigolsen.dk>
Diff between cvms versions 1.6.0 dated 2023-06-29 and 1.6.1 dated 2024-02-27
cvms-1.6.0/cvms/inst/images/square_overlay_not_used.png |only cvms-1.6.0/cvms/man/cvms.Rd |only cvms-1.6.1/cvms/DESCRIPTION | 8 cvms-1.6.1/cvms/MD5 | 87 cvms-1.6.1/cvms/NEWS.md | 8 cvms-1.6.1/cvms/R/baseline.R | 3 cvms-1.6.1/cvms/R/choosing_metrics_functions.R | 1 cvms-1.6.1/cvms/R/cross_validate_fn.R | 5 cvms-1.6.1/cvms/R/evaluate.R | 7 cvms-1.6.1/cvms/R/package_info.R | 4 cvms-1.6.1/cvms/R/plot_confusion_matrix.R | 11 cvms-1.6.1/cvms/R/table_of_content_markdown.R | 12 cvms-1.6.1/cvms/R/validate_fn.R | 7 cvms-1.6.1/cvms/README.md | 6 cvms-1.6.1/cvms/build/cvms.pdf |binary cvms-1.6.1/cvms/inst/doc/Creating_a_confusion_matrix.R | 2 cvms-1.6.1/cvms/inst/doc/Creating_a_confusion_matrix.html | 258 +- cvms-1.6.1/cvms/inst/doc/available_metrics.R | 2 cvms-1.6.1/cvms/inst/doc/available_metrics.html | 4 cvms-1.6.1/cvms/inst/doc/cross_validating_custom_functions.R | 2 cvms-1.6.1/cvms/inst/doc/cross_validating_custom_functions.html | 1234 +++++----- cvms-1.6.1/cvms/inst/doc/evaluate_by_id.R | 2 cvms-1.6.1/cvms/inst/doc/evaluate_by_id.html | 314 +- cvms-1.6.1/cvms/inst/doc/picking_the_number_of_folds_for_cross-validation.R | 2 cvms-1.6.1/cvms/inst/doc/picking_the_number_of_folds_for_cross-validation.html | 692 ++--- cvms-1.6.1/cvms/man/baseline.Rd | 3 cvms-1.6.1/cvms/man/baseline_binomial.Rd | 4 cvms-1.6.1/cvms/man/baseline_gaussian.Rd | 4 cvms-1.6.1/cvms/man/baseline_multinomial.Rd | 4 cvms-1.6.1/cvms/man/binomial_metrics.Rd | 2 cvms-1.6.1/cvms/man/confusion_matrix.Rd | 2 cvms-1.6.1/cvms/man/cross_validate.Rd | 4 cvms-1.6.1/cvms/man/cross_validate_fn.Rd | 9 cvms-1.6.1/cvms/man/cvms-package.Rd |only cvms-1.6.1/cvms/man/evaluate.Rd | 7 cvms-1.6.1/cvms/man/figures/README-unnamed-chunk-6-1.png |binary cvms-1.6.1/cvms/man/font.Rd | 2 cvms-1.6.1/cvms/man/gaussian_metrics.Rd | 2 cvms-1.6.1/cvms/man/multinomial_metrics.Rd | 4 cvms-1.6.1/cvms/man/plot_confusion_matrix.Rd | 11 cvms-1.6.1/cvms/man/plot_metric_density.Rd | 2 cvms-1.6.1/cvms/man/render_toc.Rd | 8 cvms-1.6.1/cvms/man/sum_tile_settings.Rd | 4 cvms-1.6.1/cvms/man/validate.Rd | 2 cvms-1.6.1/cvms/man/validate_fn.Rd | 9 cvms-1.6.1/cvms/tests/testthat/test_plotting_functions.R | 6 46 files changed, 1397 insertions(+), 1363 deletions(-)
Title: Graphical Toolbox for Clustering and Classification of Data
Frames
Description: Graphical toolbox for clustering and classification of data frames.
It proposes a graphical interface to process clustering and classification methods on features
data-frames, and to view initial data as well as resulted cluster or classes. According to the
level of available labels, different approaches are proposed: unsupervised clustering,
semi-supervised clustering and supervised classification.
To assess the processed clusters or classes, the toolbox can import and show some supplementary
data formats: either profile/time series, or images.
These added information can help the expert to label clusters (clustering), or to constrain data
frame rows (semi-supervised clustering), using Constrained spectral embedding algorithm by
Wacquet et al. (2013) <doi:10.1016/j.patrec.2013.02.003> and the methodology provided by
Wacquet et al. (2013) <doi:10.1007/978-3-642-35638-4_21>.
Author: Guillaume Wacquet [aut],
Pierre-Alexandre Hebert [aut, cre],
Emilie Poisson [aut],
Pierre Talon [aut]
Maintainer: Pierre-Alexandre Hebert <hebert@univ-littoral.fr>
Diff between RclusTool versions 0.91.5 dated 2022-08-29 and 0.91.6 dated 2024-02-27
DESCRIPTION | 10 +++++----- MD5 | 28 ++++++++++++++-------------- NAMESPACE | 3 ++- R/sampleCompute.R | 2 +- R/sampleView.R | 36 ++++++++++++++++++------------------ inst/CITATION | 4 ++-- man/ElbowPlot.Rd | 2 +- man/makeTitle.Rd | 8 ++++---- man/messageConsole.Rd | 4 ++-- man/tk2delete.notetab.Rd | 4 ++-- man/tk2draw.notetab.Rd | 4 ++-- man/tk2notetab.RclusTool.Rd | 4 ++-- man/tkEmptyLine.Rd | 4 ++-- man/tkrplot.RclusTool.Rd | 6 +++--- man/tkrreplot.RclusTool.Rd | 2 +- 15 files changed, 61 insertions(+), 60 deletions(-)
Title: Power and Sample Size Calculation for Non-Proportional Hazards
and Beyond
Description: Performs power and sample size calculation for non-proportional
hazards model using the Fleming-Harrington family of weighted log-rank
tests. The sequentially calculated log-rank test score statistics are
assumed to have independent increments as characterized in
Anastasios A. Tsiatis (1982) <doi:10.1080/01621459.1982.10477898>. The mean
and variance of log-rank test score statistics are calculated based on
Kaifeng Lu (2021) <doi:10.1002/pst.2069>. The boundary crossing probabilities
are calculated using the recursive integration algorithm described in
Christopher Jennison and Bruce W. Turnbull (2000, ISBN:0849303168).
The package can also be used for continuous, binary, and count data.
For continuous data, it can handle missing data through mixed-model
for repeated measures (MMRM). In crossover designs, it can estimate
direct treatment effects while accounting for carryover effects.
For binary data, it can design Simon's 2-stage, modified toxicity
probability-2 (mTPI-2), a [...truncated...]
Author: Kaifeng Lu
Maintainer: Kaifeng Lu <kaifenglu@gmail.com>
Diff between lrstat versions 0.2.2 dated 2023-12-21 and 0.2.3 dated 2024-02-27
DESCRIPTION | 29 MD5 | 330 NAMESPACE | 153 NEWS.md | 79 R/RcppExports.R | 5432 ++++++++++--- R/getDesignMeans.R |only R/getDesignProportions.R |only R/lrstat-package.R | 82 R/parameter_descriptions.R | 45 R/prints.R | 7343 ++++++++++++++++++ R/runShinyApp.R |only R/wrappers.R | 651 + inst/doc/direct_approximation_vs_schoenfeld.R | 9 inst/doc/direct_approximation_vs_schoenfeld.Rmd | 110 inst/doc/direct_approximation_vs_schoenfeld.html | 82 inst/doc/fixed_follow-up.R | 42 inst/doc/fixed_follow-up.Rmd | 181 inst/doc/fixed_follow-up.html | 228 inst/doc/group_sequential_multiplicity.R | 11 inst/doc/group_sequential_multiplicity.Rmd | 608 - inst/doc/group_sequential_multiplicity.html | 573 - inst/doc/group_sequential_simulation.R | 9 inst/doc/group_sequential_simulation.Rmd | 140 inst/doc/group_sequential_simulation.html | 132 inst/doc/maxcombo.R | 11 inst/doc/maxcombo.Rmd | 318 inst/doc/maxcombo.html | 162 inst/doc/non-proportional_hazards.R | 11 inst/doc/non-proportional_hazards.Rmd | 118 inst/doc/non-proportional_hazards.html | 111 inst/doc/stratified.R | 11 inst/doc/stratified.Rmd | 178 inst/doc/stratified.html | 132 inst/shinyApp |only man/BOINTable.Rd |only man/ClopperPearsonCI.Rd |only man/ad.Rd | 5 man/adaptDesign.Rd | 44 man/caltime.Rd | 12 man/errorSpent.Rd | 15 man/exitprob.Rd | 18 man/fadjpbon.Rd | 2 man/fadjpdun.Rd | 4 man/fadjpsim.Rd | 2 man/findInterval2.Rd | 8 man/fmodmix.Rd | 21 man/fseqbon.Rd | 12 man/fstdmix.Rd | 21 man/fstp2seq.Rd | 6 man/ftrunc.Rd | 4 man/fwgtmat.Rd | 3 man/getADCI.Rd | 18 man/getADRCI.Rd | 20 man/getBound.Rd | 2 man/getCI.Rd | 10 man/getCP.Rd | 32 man/getDesign.Rd | 56 man/getDesignANOVA.Rd |only man/getDesignANOVAContrast.Rd |only man/getDesignAgreement.Rd |only man/getDesignEquiv.Rd |only man/getDesignFisherExact.Rd |only man/getDesignLogistic.Rd |only man/getDesignMeanDiff.Rd |only man/getDesignMeanDiffCarryover.Rd |only man/getDesignMeanDiffEquiv.Rd |only man/getDesignMeanDiffMMRM.Rd |only man/getDesignMeanDiffXO.Rd |only 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man/getDesignRiskRatioExactEquiv.Rd |only man/getDesignRiskRatioFM.Rd |only man/getDesignSlopeDiff.Rd |only man/getDesignSlopeDiffMMRM.Rd |only man/getDesignTwoMultinom.Rd |only man/getDesignTwoOrdinal.Rd |only man/getDesignTwoWayANOVA.Rd |only man/getDesignUnorderedBinom.Rd |only man/getDesignUnorderedMultinom.Rd |only man/getDesignWilcoxon.Rd |only man/getDurationFromNevents.Rd | 4 man/getNeventsFromHazardRatio.Rd | 14 man/getRCI.Rd | 10 man/hd.Rd | 10 man/hedgesg.Rd |only man/kmest.Rd | 15 man/kmest1.Rd | 15 man/lrpower.Rd | 45 man/lrsamplesize.Rd | 22 man/lrsim.Rd | 36 man/lrsim2e.Rd | 39 man/lrsim2e3a.Rd | 36 man/lrsim3a.Rd | 20 man/lrstat-package.Rd | 55 man/lrstat.Rd | 15 man/lrstat1.Rd | 13 man/mTPI2Table.Rd |only man/mnOddsRatioCI.Rd |only man/mnRateDiffCI.Rd |only man/mnRateRatioCI.Rd |only man/mnRiskDiffCI.Rd |only man/mnRiskRatioCI.Rd |only man/natrisk.Rd | 10 man/nbpower.Rd |only man/nbpower1s.Rd |only man/nbpowerequiv.Rd |only man/nbsamplesize.Rd |only man/nbsamplesize1s.Rd |only man/nbsamplesizeequiv.Rd |only man/nbstat.Rd |only man/nevent.Rd | 14 man/nevent2.Rd | 14 man/param_gamma.Rd | 5 man/param_gamma1.Rd | 6 man/param_gamma1_stratified.Rd | 2 man/param_gamma2.Rd | 4 man/param_gamma2_stratified.Rd | 2 man/param_informationRates.Rd | 6 man/patrisk.Rd | 10 man/pd.Rd | 16 man/pevent.Rd | 10 man/powerFisherExact.Rd |only man/powerOnePropExact.Rd |only man/powerOneRateExact.Rd |only man/powerRiskDiffExact.Rd |only man/powerRiskDiffExactEquiv.Rd |only man/powerRiskRatioExact.Rd |only man/powerRiskRatioExactEquiv.Rd |only man/print.BOINTable.Rd |only man/print.designANOVA.Rd |only man/print.designANOVAContrast.Rd |only man/print.designAgreement.Rd |only man/print.designEquiv.Rd |only man/print.designLogistic.Rd |only man/print.designMeanDiff.Rd |only man/print.designMeanDiffCarryover.Rd |only man/print.designMeanDiffEquiv.Rd |only man/print.designMeanDiffMMRM.Rd |only man/print.designMeanDiffXO.Rd |only man/print.designMeanDiffXOEquiv.Rd |only man/print.designMeanRatio.Rd |only man/print.designMeanRatioEquiv.Rd |only man/print.designMeanRatioXO.Rd |only man/print.designMeanRatioXOEquiv.Rd |only man/print.designOddsRatio.Rd |only man/print.designOddsRatioEquiv.Rd |only man/print.designOneMean.Rd |only man/print.designOneMultinom.Rd |only man/print.designOneProportion.Rd |only man/print.designOneSlope.Rd |only man/print.designOrderedBinom.Rd |only man/print.designPairedMeanDiff.Rd |only man/print.designPairedMeanDiffEquiv.Rd |only man/print.designPairedMeanRatio.Rd |only man/print.designPairedMeanRatioEquiv.Rd |only man/print.designPairedPropMcNemar.Rd |only man/print.designRepeatedANOVA.Rd |only man/print.designRepeatedANOVAContrast.Rd |only man/print.designRiskDiff.Rd |only man/print.designRiskDiffEquiv.Rd |only man/print.designRiskRatio.Rd |only man/print.designRiskRatioEquiv.Rd |only man/print.designRiskRatioFM.Rd |only man/print.designSlopeDiff.Rd |only man/print.designSlopeDiffMMRM.Rd |only man/print.designTwoMultinom.Rd |only man/print.designTwoOrdinal.Rd |only man/print.designTwoWayANOVA.Rd |only man/print.designUnorderedBinom.Rd |only man/print.designUnorderedMultinom.Rd |only man/print.designWilcoxon.Rd |only man/print.estimateCI.Rd |only man/print.lrpower.Rd | 5 man/print.lrsim.Rd | 2 man/print.mTPI2Table.Rd |only man/print.nbpower.Rd |only man/print.nbpower1s.Rd |only man/print.nbpowerequiv.Rd |only man/ptpwexp.Rd |only man/qtpwexp.Rd | 19 man/remlOddsRatio.Rd |only man/remlRateDiff.Rd |only man/remlRateRatio.Rd |only man/remlRiskDiff.Rd |only man/remlRiskRatio.Rd |only man/repeatedPValue.Rd | 14 man/rtpwexp.Rd |only man/runShinyApp.Rd |only man/samplesizeFisherExact.Rd |only man/samplesizeOnePropExact.Rd |only man/samplesizeOneRateExact.Rd |only man/samplesizeRiskDiffExact.Rd |only man/samplesizeRiskDiffExactEquiv.Rd |only man/samplesizeRiskRatioExact.Rd |only man/samplesizeRiskRatioExactEquiv.Rd |only man/simon2stage.Rd |only man/survQuantile.Rd |only man/updateGraph.Rd | 12 src/RcppExports.cpp | 967 ++ src/lrsim.cpp | 2765 +++---- src/lrstat.cpp | 9055 +++++++++++++++++++---- src/misc.cpp | 5409 +++++++++++-- src/utilities.cpp | 586 + src/utilities.h | 47 vignettes/direct_approximation_vs_schoenfeld.Rmd | 110 vignettes/fixed_follow-up.Rmd | 181 vignettes/group_sequential_multiplicity.Rmd | 608 - vignettes/group_sequential_simulation.Rmd | 140 vignettes/maxcombo.Rmd | 318 vignettes/non-proportional_hazards.Rmd | 118 vignettes/stratified.Rmd | 178 236 files changed, 29758 insertions(+), 8860 deletions(-)
Title: Estimate Hierarchical Feature Regression Models
Description: Provides functions for the estimation, plotting, predicting and cross-validation of hierarchical feature regression models as described in Pfitzinger (2024). Cluster Regularization via a Hierarchical Feature Regression. Econometrics and Statistics (in press). <doi:10.1016/j.ecosta.2024.01.003>.
Author: Johann Pfitzinger [aut, cre]
Maintainer: Johann Pfitzinger <johann.pfitzinger@gmail.com>
Diff between hfr versions 0.7.0 dated 2024-02-24 and 0.7.1 dated 2024-02-27
DESCRIPTION | 12 +++++++----- MD5 | 24 ++++++++++++++---------- NEWS.md | 4 ++++ R/cv.hfr.R | 4 ++-- R/hfr.R | 4 ++-- R/internal.R | 43 +++++++++++++++++++++++++++++++++++-------- R/plot.cv.hfr.R | 25 ++++++++++++++++--------- R/plot.hfr.R | 28 ++++++++++++++++++---------- R/se.avg.R | 20 ++++++++++---------- man/cv.hfr.Rd | 2 +- man/hfr.Rd | 2 +- tests |only 12 files changed, 110 insertions(+), 58 deletions(-)
Title: Geographical Risk Analysis Based on Habitat Connectivity
Description: The geohabnet package is designed to perform a geographically or spatially explicit risk analysis of habitat connectivity. Xing et al (2021) <doi:10.1093/biosci/biaa067> proposed the concept of cropland connectivity as a risk factor for plant pathogen or pest invasions. As the functions in geohabnet were initially developed thinking on cropland connectivity, users are recommended to first be familiar with the concept by looking at the Xing et al paper. In a nutshell, a cropland connectivity analysis combines information from maps of cropland density, estimates the relative likelihood of pathogen movement between cropland locations in the area of interest, and applies network analysis to calculate the connectivity of cropland locations.
The functions of geohabnet are built to conduct a cropland connectivity analysis relying on geographic parameters (spatial resolution and spatial extent), dispersal parameters (in two commonly used dispersal kernels: inverse power law and negative [...truncated...]
Author: Krishna Keshav [aut, cre],
Aaron Plex [aut] ,
Garrett Lab [ctb] ,
Karen Garrett [aut] ,
University of Florida [cph, fnd]
Maintainer: Krishna Keshav <kkeshav@ufl.edu>
Diff between geohabnet versions 1.0.1 dated 2023-10-31 and 2.0.0 dated 2024-02-27
geohabnet-1.0.1/geohabnet/R/get_param_metrics.R |only geohabnet-1.0.1/geohabnet/man/get_param_metrics.Rd |only geohabnet-1.0.1/geohabnet/man/get_supported_sources.Rd |only geohabnet-1.0.1/geohabnet/man/model_powerlaw.Rd |only geohabnet-1.0.1/geohabnet/man/set_reso.Rd |only geohabnet-1.0.1/geohabnet/man/the.Rd |only geohabnet-2.0.0/geohabnet/DESCRIPTION | 54 geohabnet-2.0.0/geohabnet/MD5 | 119 + geohabnet-2.0.0/geohabnet/NAMESPACE | 27 geohabnet-2.0.0/geohabnet/NEWS.md | 19 geohabnet-2.0.0/geohabnet/R/ccri_helper.R | 123 + geohabnet-2.0.0/geohabnet/R/connectivity.R |only geohabnet-2.0.0/geohabnet/R/geo_network.R |only geohabnet-2.0.0/geohabnet/R/geo_rasters.R |only geohabnet-2.0.0/geohabnet/R/geohabnet-package.R | 3 geohabnet-2.0.0/geohabnet/R/get_rasters.R | 45 geohabnet-2.0.0/geohabnet/R/gplot.R |only geohabnet-2.0.0/geohabnet/R/maps.R | 351 +---- geohabnet-2.0.0/geohabnet/R/metrics.R |only geohabnet-2.0.0/geohabnet/R/models.R | 121 - geohabnet-2.0.0/geohabnet/R/params.R | 58 geohabnet-2.0.0/geohabnet/R/riskmap.R |only geohabnet-2.0.0/geohabnet/R/scales.R | 27 geohabnet-2.0.0/geohabnet/R/sean.R | 831 ++++++------ geohabnet-2.0.0/geohabnet/R/show.R |only geohabnet-2.0.0/geohabnet/R/spam_crop.R | 46 geohabnet-2.0.0/geohabnet/R/strings.R | 4 geohabnet-2.0.0/geohabnet/R/utils-pipe.R |only geohabnet-2.0.0/geohabnet/README.md | 30 geohabnet-2.0.0/geohabnet/build/partial.rdb |binary geohabnet-2.0.0/geohabnet/build/vignette.rds |binary geohabnet-2.0.0/geohabnet/inst/defaultParams.yaml | 7 geohabnet-2.0.0/geohabnet/inst/doc/LinkWeightsAnalysis.R |only geohabnet-2.0.0/geohabnet/inst/doc/LinkWeightsAnalysis.Rmd |only geohabnet-2.0.0/geohabnet/inst/doc/LinkWeightsAnalysis.html |only geohabnet-2.0.0/geohabnet/inst/doc/analysis.R | 108 + geohabnet-2.0.0/geohabnet/inst/doc/analysis.Rmd | 201 ++ geohabnet-2.0.0/geohabnet/inst/doc/analysis.html | 589 +++++--- geohabnet-2.0.0/geohabnet/inst/parameters.yaml | 7 geohabnet-2.0.0/geohabnet/man/Dispersal-kernels.Rd |only geohabnet-2.0.0/geohabnet/man/GeoModel-class.Rd |only geohabnet-2.0.0/geohabnet/man/GeoNetwork-class.Rd |only geohabnet-2.0.0/geohabnet/man/GeoRasters-class.Rd |only geohabnet-2.0.0/geohabnet/man/GlobalRast-class.Rd |only geohabnet-2.0.0/geohabnet/man/Gmap-class.Rd |only geohabnet-2.0.0/geohabnet/man/RiskMap-class.Rd |only geohabnet-2.0.0/geohabnet/man/STR_DISTANCE_MATRIX.Rd |only geohabnet-2.0.0/geohabnet/man/ccri_diff.Rd | 24 geohabnet-2.0.0/geohabnet/man/ccri_mean.Rd | 27 geohabnet-2.0.0/geohabnet/man/ccri_variance.Rd | 23 geohabnet-2.0.0/geohabnet/man/connectivity.Rd | 46 geohabnet-2.0.0/geohabnet/man/crops_rast.Rd | 5 geohabnet-2.0.0/geohabnet/man/dot-indices.Rd |only geohabnet-2.0.0/geohabnet/man/geohabnet-package.Rd | 12 geohabnet-2.0.0/geohabnet/man/geoscale_param.Rd | 5 geohabnet-2.0.0/geohabnet/man/get_rasters.Rd | 2 geohabnet-2.0.0/geohabnet/man/gplot.Rd |only geohabnet-2.0.0/geohabnet/man/host_density-set.Rd |only geohabnet-2.0.0/geohabnet/man/mapspam.Rd |only geohabnet-2.0.0/geohabnet/man/monfreda.Rd |only geohabnet-2.0.0/geohabnet/man/nn_sum.Rd | 57 geohabnet-2.0.0/geohabnet/man/pipe.Rd |only geohabnet-2.0.0/geohabnet/man/reso.Rd | 3 geohabnet-2.0.0/geohabnet/man/risk_indices.Rd |only geohabnet-2.0.0/geohabnet/man/sa_onrasters.Rd | 63 geohabnet-2.0.0/geohabnet/man/sean.Rd | 121 + geohabnet-2.0.0/geohabnet/man/search_crop.Rd | 2 geohabnet-2.0.0/geohabnet/man/sensitivity_analysis.Rd | 48 geohabnet-2.0.0/geohabnet/man/setmaps-Gmap-method.Rd |only geohabnet-2.0.0/geohabnet/man/sp_rast.Rd | 9 geohabnet-2.0.0/geohabnet/man/supported_metrics.Rd | 2 geohabnet-2.0.0/geohabnet/man/supported_sources.Rd |only geohabnet-2.0.0/geohabnet/tests/testthat/params.yaml | 7 geohabnet-2.0.0/geohabnet/tests/testthat/test-get_rasters.R | 5 geohabnet-2.0.0/geohabnet/vignettes/LinkWeightsAnalysis.Rmd |only geohabnet-2.0.0/geohabnet/vignettes/analysis.Rmd | 201 ++ geohabnet-2.0.0/geohabnet/vignettes/images/initconfig.png |binary geohabnet-2.0.0/geohabnet/vignettes/references.bib | 30 78 files changed, 2128 insertions(+), 1334 deletions(-)
Title: Bayesian Dynamic Borrowing with Flexible Baseline Hazard
Function
Description: Allows Bayesian borrowing from a historical dataset for time-to-
event data. A flexible baseline hazard function is achieved via a piecewise
exponential likelihood with time varying split points and smoothing prior on the
historic baseline hazards. The method is described in Scott and Lewin (2024)
<arXiv:2401.06082>.
Author: Darren Scott [aut, cre],
Sophia Axillus [aut]
Maintainer: Darren Scott <darren.scott@astrazeneca.com>
Diff between BayesFBHborrow versions 0.0.2 dated 2024-01-11 and 1.0.1 dated 2024-02-27
DESCRIPTION | 11 MD5 | 67 ++-- R/GibbsMH.R | 486 +++++++++++++++++++-------------- R/beta_updates.R | 188 +++++++++++- R/lambda_updates.R | 16 - R/outputs.R | 136 ++++----- R/run_mcmc.R | 364 ++++++++++-------------- R/utils.R | 113 ++++--- man/BayesFBHborrow.NoBorrow.Rd | 88 +---- man/BayesFBHborrow.Rd | 60 +--- man/BayesFBHborrow.WBorrow.Rd | 70 +--- man/GibbsMH.NoBorrow.Rd | 62 +--- man/GibbsMH.Rd | 64 +--- man/GibbsMH.WBorrow.Rd | 68 +--- man/coef.BayesFBHborrow.Rd | 23 - man/dot-beta.MH.RW.glm.Rd |only man/dot-beta_MH_MALA.Rd | 8 man/dot-beta_MH_NR.Rd |only man/dot-beta_MH_RW.Rd | 4 man/dot-beta_mom.NR.fun.Rd |only man/dot-dataframe_fun.Rd | 2 man/dot-glmFit.Rd |only man/dot-input_check.Rd | 16 - man/dot-lambda_0_MH_cp.Rd | 4 man/dot-lambda_0_MH_cp_NoBorrow.Rd | 4 man/dot-lprop.dens.beta.NR.Rd |only man/plot.BayesFBHborrow.Rd | 23 - man/plot_hist.Rd | 23 - man/plot_matrix.Rd | 23 - man/plot_trace.Rd | 23 - man/summary.BayesFBHborrow.Rd | 21 - tests/testthat/test-GibbsMH_NoBorrow.R | 99 +++--- tests/testthat/test-GibbsMH_WBorrow.R | 165 +++++------ tests/testthat/test-beta_updates.R | 111 ++----- tests/testthat/test-lambda_updates.R | 38 +- tests/testthat/test-run_mcmc.R | 141 +++++---- tests/testthat/test-utils.R | 418 +++++----------------------- 37 files changed, 1388 insertions(+), 1551 deletions(-)
More information about BayesFBHborrow at CRAN
Permanent link
Title: WOE Transformation and Scorecard Builder
Description: Performs all steps in the credit scoring process. This package allows the user to follow all the necessary steps for building an effective scorecard. It provides the user functions for coarse binning of variables, Weights of Evidence (WOE) transformation, variable clustering, custom binning, visualization, and scaling of logistic regression coefficients. The results will generate a scorecard that can be used as an effective credit scoring tool to evaluate risk. For complete details on the credit scoring process, see Siddiqi (2005, ISBN:047175451X).
Author: Thomas Brandenburger [cre],
Eric Stratman [aut],
Krystal Wang [aut]
Maintainer: Thomas Brandenburger <thomas.brandenburger@sdstate.edu>
Diff between Rprofet versions 2.2.1 dated 2020-04-01 and 3.1.1 dated 2024-02-27
Rprofet-2.2.1/Rprofet/man/WOEClust_hclust.Rd |only Rprofet-2.2.1/Rprofet/man/WOEClust_kmeans.Rd |only Rprofet-2.2.1/Rprofet/man/WOE_custom.Rd |only Rprofet-2.2.1/Rprofet/man/WOE_customFactor.Rd |only Rprofet-3.1.1/Rprofet/DESCRIPTION | 23 Rprofet-3.1.1/Rprofet/MD5 | 30 Rprofet-3.1.1/Rprofet/R/Rprofet.R | 1559 ++++++++++++++------------ Rprofet-3.1.1/Rprofet/build |only Rprofet-3.1.1/Rprofet/inst |only Rprofet-3.1.1/Rprofet/man/BinProfet.Rd | 137 +- Rprofet-3.1.1/Rprofet/man/ScoreDataProfet.Rd |only Rprofet-3.1.1/Rprofet/man/ScorecardProfet.Rd | 30 Rprofet-3.1.1/Rprofet/man/Var_select.Rd |only Rprofet-3.1.1/Rprofet/man/WOEProfet.Rd | 86 - Rprofet-3.1.1/Rprofet/man/WOE_customFac.Rd |only Rprofet-3.1.1/Rprofet/man/WOE_customNum.Rd |only Rprofet-3.1.1/Rprofet/man/WOEclust_hclust.Rd |only Rprofet-3.1.1/Rprofet/man/WOEclust_kmeans.Rd |only Rprofet-3.1.1/Rprofet/man/WOEplotter.Rd | 69 - Rprofet-3.1.1/Rprofet/vignettes |only 20 files changed, 1039 insertions(+), 895 deletions(-)
Title: USGS INL Project Office Publications
Description: Contains bibliographic information for the U.S. Geological Survey
(USGS) Idaho National Laboratory (INL) Project Office.
Author: Jason C. Fisher [aut, cre] ,
Kerri C. Treinen [aut] ,
Allison R. Trcka [aut]
Maintainer: Jason C. Fisher <jfisher@usgs.gov>
Diff between inlpubs versions 1.0.6 dated 2023-06-26 and 1.1.1 dated 2024-02-27
inlpubs-1.0.6/inlpubs/R/make_word_cloud.R |only inlpubs-1.0.6/inlpubs/R/sysdata.rda |only inlpubs-1.0.6/inlpubs/R/zzz.R |only inlpubs-1.0.6/inlpubs/build/vignette.rds |only inlpubs-1.0.6/inlpubs/inst/doc |only inlpubs-1.0.6/inlpubs/man/make_word_cloud.Rd |only inlpubs-1.0.6/inlpubs/vignettes |only inlpubs-1.1.1/inlpubs/DESCRIPTION | 23 inlpubs-1.1.1/inlpubs/MD5 | 56 - inlpubs-1.1.1/inlpubs/NAMESPACE | 3 inlpubs-1.1.1/inlpubs/NEWS.md | 20 inlpubs-1.1.1/inlpubs/R/authors.R |only inlpubs-1.1.1/inlpubs/R/make_webpages.R |only inlpubs-1.1.1/inlpubs/R/make_wordcloud.R |only inlpubs-1.1.1/inlpubs/R/mine_text.R | 109 ++- inlpubs-1.1.1/inlpubs/R/pubs.R | 96 +-- inlpubs-1.1.1/inlpubs/R/utils.R | 70 -- inlpubs-1.1.1/inlpubs/README.md | 92 +- inlpubs-1.1.1/inlpubs/build/partial.rdb |binary inlpubs-1.1.1/inlpubs/data/authors.rda |only inlpubs-1.1.1/inlpubs/data/pubs.rda |binary inlpubs-1.1.1/inlpubs/inst/CITATION | 27 inlpubs-1.1.1/inlpubs/inst/REFERENCES.bib | 591 ++++++++++--------- inlpubs-1.1.1/inlpubs/inst/tinytest/test_mine_text.R | 20 inlpubs-1.1.1/inlpubs/man/authors.Rd |only inlpubs-1.1.1/inlpubs/man/figures/README.md |only inlpubs-1.1.1/inlpubs/man/figures/logo.svg |only inlpubs-1.1.1/inlpubs/man/make_webpages.Rd |only inlpubs-1.1.1/inlpubs/man/make_wordcloud.Rd |only inlpubs-1.1.1/inlpubs/man/mine_text.Rd | 19 inlpubs-1.1.1/inlpubs/man/pubs.Rd | 80 -- inlpubs-1.1.1/inlpubs/man/rmd |only 32 files changed, 609 insertions(+), 597 deletions(-)
Title: Confirmatory Adaptive Clinical Trial Design and Analysis
Description: Design and analysis of confirmatory adaptive clinical trials with continuous, binary, and survival endpoints according to the methods described in the monograph by Wassmer and Brannath (2016) <doi:10.1007/978-3-319-32562-0>. This includes classical group sequential as well as multi-stage adaptive hypotheses tests that are based on the combination testing principle.
Author: Gernot Wassmer [aut] ,
Friedrich Pahlke [aut, cre] ,
Till Jensen [ctb],
Stephen Schueuerhuis [ctb],
Tobias Muetze [ctb]
Maintainer: Friedrich Pahlke <friedrich.pahlke@rpact.com>
Diff between rpact versions 3.5.0 dated 2024-01-25 and 3.5.1 dated 2024-02-27
DESCRIPTION | 12 MD5 | 774 NAMESPACE | 287 NEWS.md | 21 R/class_analysis_dataset.R | 40 R/class_analysis_results.R | 17 R/class_analysis_stage_results.R | 13 R/class_core_parameter_set.R | 143 R/class_core_plot_settings.R | 16 R/class_design.R | 76 R/class_design_plan.R | 19 R/class_design_power_and_asn.R | 9 R/class_design_set.R | 16 R/class_dictionary.R |only R/class_event_probabilities.R | 8 R/class_performance_score.R | 6 R/class_simulation_results.R | 63 R/class_summary.R | 55 R/class_time.R | 22 R/f_analysis_utilities.R | 12 R/f_core_assertions.R | 145 R/f_core_constants.R | 364 R/f_core_plot.R | 55 R/f_core_utilities.R | 69 R/f_design_fisher_combination_test.R | 6 R/f_design_plan_count_data.R | 15 R/f_design_plan_means.R | 10 R/f_design_plan_plot.R | 60 R/f_design_plan_rates.R | 10 R/f_design_plan_survival.R | 331 R/f_design_plan_utilities.R | 403 R/f_object_r_code.R | 15 R/f_parameter_set_utilities.R | 13 R/f_quality_assurance.R | 31 R/f_simulation_base_survival.R | 68 R/f_simulation_enrichment.R | 26 R/f_simulation_enrichment_survival.R | 94 R/f_simulation_multiarm.R | 10 R/f_simulation_multiarm_survival.R | 52 R/f_simulation_performance_score.R | 8 R/f_simulation_plot.R | 8 R/f_simulation_utilities.R | 14 R/parameter_descriptions.R | 11 README.md | 16 inst/doc/rpact_getting_started.html | 4 man/AccrualTime.Rd | 80 man/AnalysisResults.Rd | 48 man/AnalysisResultsConditionalDunnett.Rd | 110 man/AnalysisResultsEnrichment.Rd | 36 man/AnalysisResultsEnrichmentFisher.Rd | 118 man/AnalysisResultsEnrichmentInverseNormal.Rd | 114 man/AnalysisResultsFisher.Rd | 134 man/AnalysisResultsGroupSequential.Rd | 130 man/AnalysisResultsInverseNormal.Rd | 122 man/AnalysisResultsMultiArm.Rd | 38 man/AnalysisResultsMultiArmFisher-class.Rd | 124 man/AnalysisResultsMultiArmInverseNormal.Rd | 110 man/AnalysisResultsMultiHypotheses.Rd | 36 man/ClosedCombinationTestResults.Rd | 74 man/ConditionalPowerResults.Rd | 70 man/ConditionalPowerResultsEnrichmentMeans.Rd | 70 man/ConditionalPowerResultsEnrichmentRates.Rd | 70 man/ConditionalPowerResultsMeans.Rd | 70 man/ConditionalPowerResultsRates.Rd | 70 man/ConditionalPowerResultsSurvival.Rd | 66 man/Dataset.Rd | 60 man/DatasetMeans.Rd | 70 man/DatasetRates.Rd | 62 man/DatasetSurvival.Rd | 74 man/EventProbabilities.Rd | 104 man/FieldSet.Rd | 28 man/NumberOfSubjects.Rd | 56 man/ParameterSet.Rd | 28 man/PerformanceScore.Rd | 30 man/PiecewiseSurvivalTime.Rd | 88 man/PlotSettings.Rd | 116 man/PowerAndAverageSampleNumberResult.Rd | 78 man/SimulationResults.Rd | 66 man/SimulationResultsEnrichmentMeans.Rd | 176 man/SimulationResultsEnrichmentRates.Rd | 176 man/SimulationResultsEnrichmentSurvival.Rd | 182 man/SimulationResultsMeans.Rd | 158 man/SimulationResultsMultiArmMeans.Rd | 188 man/SimulationResultsMultiArmRates.Rd | 188 man/SimulationResultsMultiArmSurvival.Rd | 178 man/SimulationResultsRates.Rd | 154 man/SimulationResultsSurvival.Rd | 230 man/StageResults.Rd | 94 man/StageResultsEnrichmentMeans.Rd | 122 man/StageResultsEnrichmentRates.Rd | 74 man/StageResultsEnrichmentSurvival.Rd | 74 man/StageResultsMeans.Rd | 98 man/StageResultsMultiArmMeans.Rd | 130 man/StageResultsMultiArmRates.Rd | 118 man/StageResultsMultiArmSurvival.Rd | 114 man/StageResultsRates.Rd | 98 man/StageResultsSurvival.Rd | 110 man/SummaryFactory.Rd | 22 man/TrialDesign.Rd | 88 man/TrialDesignCharacteristics.Rd | 90 man/TrialDesignConditionalDunnett.Rd | 96 man/TrialDesignFisher.Rd | 116 man/TrialDesignGroupSequential.Rd | 164 man/TrialDesignInverseNormal.Rd | 164 man/TrialDesignPlan.Rd | 38 man/TrialDesignPlanCountData.Rd | 182 man/TrialDesignPlanMeans.Rd | 186 man/TrialDesignPlanRates.Rd | 186 man/TrialDesignPlanSurvival.Rd | 286 man/TrialDesignSet.Rd | 66 man/as.data.frame.AnalysisResults.Rd | 68 man/as.data.frame.ParameterSet.Rd | 78 man/as.data.frame.PowerAndAverageSampleNumberResult.Rd | 90 man/as.data.frame.StageResults.Rd | 80 man/as.data.frame.TrialDesign.Rd | 86 man/as.data.frame.TrialDesignCharacteristics.Rd | 86 man/as.data.frame.TrialDesignPlan.Rd | 86 man/as.data.frame.TrialDesignSet.Rd | 108 man/as.matrix.FieldSet.Rd | 62 man/as251Normal.Rd | 90 man/as251StudentT.Rd | 96 man/dataEnrichmentMeans.Rd | 34 man/dataEnrichmentMeansStratified.Rd | 34 man/dataEnrichmentRates.Rd | 34 man/dataEnrichmentRatesStratified.Rd | 34 man/dataEnrichmentSurvival.Rd | 34 man/dataEnrichmentSurvivalStratified.Rd | 34 man/dataMeans.Rd | 34 man/dataMultiArmMeans.Rd | 34 man/dataMultiArmRates.Rd | 34 man/dataMultiArmSurvival.Rd | 34 man/dataRates.Rd | 34 man/dataSurvival.Rd | 34 man/getAccrualTime.Rd | 305 man/getAnalysisResults.Rd | 586 man/getAvailablePlotTypes.Rd | 112 man/getClosedCombinationTestResults.Rd | 163 man/getClosedConditionalDunnettTestResults.Rd | 189 man/getConditionalPower.Rd | 241 man/getConditionalRejectionProbabilities.Rd | 140 man/getData.Rd | 142 man/getDataset.Rd | 566 man/getDesignCharacteristics.Rd | 126 man/getDesignConditionalDunnett.Rd 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26 man/param_accrualTime_counts.Rd | 24 man/param_activeArms.Rd | 24 man/param_adaptations.Rd | 26 man/param_allocationRatioPlanned.Rd | 33 man/param_allocationRatioPlanned_sampleSize.Rd | 28 man/param_alpha.Rd | 24 man/param_alternative.Rd | 26 man/param_alternative_simulation.Rd | 26 man/param_beta.Rd | 28 man/param_bindingFutility.Rd | 28 man/param_calcEventsFunction.Rd | 28 man/param_calcSubjectsFunction.Rd | 28 man/param_conditionalPower.Rd | 26 man/param_conditionalPowerSimulation.Rd | 36 man/param_dataInput.Rd | 30 man/param_design.Rd | 24 man/param_design_with_default.Rd | 28 man/param_digits.Rd | 24 man/param_directionUpper.Rd | 28 man/param_dropoutRate1.Rd | 24 man/param_dropoutRate2.Rd | 24 man/param_dropoutTime.Rd | 26 man/param_effectList.Rd | 26 man/param_effectMatrix.Rd | 26 man/param_effectMeasure.Rd | 28 man/param_epsilonValue.Rd | 26 man/param_eventTime.Rd | 24 man/param_fixedExposureTime_counts.Rd | 24 man/param_followUpTime_counts.Rd | 26 man/param_gED50.Rd | 26 man/param_grid.Rd | 40 man/param_groups.Rd | 24 man/param_hazardRatio.Rd | 28 man/param_includeAllParameters.Rd | 28 man/param_informationEpsilon.Rd | 32 man/param_informationRates.Rd | 26 man/param_intersectionTest_Enrichment.Rd | 30 man/param_intersectionTest_MultiArm.Rd | 30 man/param_kMax.Rd | 30 man/param_kappa.Rd | 44 man/param_lambda1.Rd | 26 man/param_lambda1_counts.Rd | 26 man/param_lambda2.Rd | 26 man/param_lambda2_counts.Rd | 26 man/param_lambda_counts.Rd | 26 man/param_legendPosition.Rd | 50 man/param_maxInformation.Rd | 24 man/param_maxNumberOfEventsPerStage.Rd | 28 man/param_maxNumberOfIterations.Rd | 24 man/param_maxNumberOfSubjects.Rd | 26 man/param_maxNumberOfSubjectsPerStage.Rd | 34 man/param_maxNumberOfSubjects_survival.Rd | 26 man/param_median1.Rd | 24 man/param_median2.Rd | 24 man/param_minNumberOfEventsPerStage.Rd | 30 man/param_minNumberOfSubjectsPerStage.Rd | 34 man/param_nMax.Rd | 24 man/param_nPlanned.Rd | 34 man/param_niceColumnNamesEnabled.Rd | 28 man/param_normalApproximation.Rd | 32 man/param_palette.Rd | 24 man/param_pi1_rates.Rd | 32 man/param_pi1_survival.Rd | 28 man/param_pi2_rates.Rd | 26 man/param_pi2_survival.Rd | 24 man/param_piecewiseSurvivalTime.Rd | 28 man/param_plannedEvents.Rd | 30 man/param_plannedSubjects.Rd | 30 man/param_plotPointsEnabled.Rd | 24 man/param_plotSettings.Rd | 24 man/param_populations.Rd | 24 man/param_rValue.Rd | 26 man/param_seed.Rd | 24 man/param_selectArmsFunction.Rd | 28 man/param_selectPopulationsFunction.Rd | 28 man/param_showSource.Rd | 48 man/param_showStatistics.Rd | 28 man/param_sided.Rd | 24 man/param_slope.Rd | 26 man/param_stDev.Rd | 30 man/param_stDevH1.Rd | 28 man/param_stDevSimulation.Rd | 30 man/param_stage.Rd | 24 man/param_stageResults.Rd | 24 man/param_stratifiedAnalysis.Rd | 30 man/param_successCriterion.Rd | 32 man/param_theta.Rd | 24 man/param_thetaH0.Rd | 52 man/param_thetaH1.Rd | 26 man/param_theta_counts.Rd | 26 man/param_three_dots.Rd | 26 man/param_three_dots_plot.Rd | 26 man/param_threshold.Rd | 30 man/param_tolerance.Rd | 24 man/param_typeOfComputation.Rd | 28 man/param_typeOfDesign.Rd | 38 man/param_typeOfSelection.Rd | 36 man/param_typeOfShape.Rd | 42 man/param_userAlphaSpending.Rd | 28 man/param_varianceOption.Rd | 32 man/plot.AnalysisResults.Rd | 279 man/plot.Dataset.Rd | 178 man/plot.EventProbabilities.Rd | 187 man/plot.NumberOfSubjects.Rd | 180 man/plot.ParameterSet.Rd | 156 man/plot.SimulationResults.Rd | 248 man/plot.StageResults.Rd | 265 man/plot.SummaryFactory.Rd | 54 man/plot.TrialDesign.Rd | 284 man/plot.TrialDesignPlan.Rd | 252 man/plot.TrialDesignSet.Rd | 252 man/print.Dataset.Rd | 60 man/print.FieldSet.Rd | 42 man/print.ParameterSet.Rd | 48 man/print.SimulationResults.Rd | 48 man/print.SummaryFactory.Rd | 50 man/print.TrialDesignCharacteristics.Rd | 50 man/printCitation.Rd | 48 man/rawDataTwoArmNormal.Rd | 72 man/readDataset.Rd | 224 man/readDatasets.Rd | 136 man/resetLogLevel.Rd | 58 man/rpact.Rd | 118 man/setLogLevel.Rd | 82 man/setOutputFormat.Rd | 204 man/sub-TrialDesignSet-method.Rd | 44 man/summary.AnalysisResults.Rd | 126 man/summary.Dataset.Rd | 126 man/summary.ParameterSet.Rd | 154 man/summary.TrialDesignSet.Rd | 126 man/t-FieldSet-method.Rd | 36 man/testPackage.Rd | 104 man/test_plan_section.Rd | 32 man/utilitiesForPiecewiseExponentialDistribution.Rd | 232 man/utilitiesForSurvivalTrials.Rd | 108 man/writeDataset.Rd | 170 man/writeDatasets.Rd | 182 tests/testthat/Rplots.pdf |only tests/testthat/test-class_analysis_dataset.R | 6 tests/testthat/test-class_design_plan.R | 327 tests/testthat/test-class_design_set.R | 106 tests/testthat/test-class_dictionary.R |only tests/testthat/test-class_summary.R | 6 tests/testthat/test-class_time.R | 8 tests/testthat/test-f_analysis_base_means.R | 6 tests/testthat/test-f_analysis_base_rates.R | 6 tests/testthat/test-f_analysis_base_survival.R | 6 tests/testthat/test-f_analysis_enrichment_means.R | 6 tests/testthat/test-f_analysis_enrichment_rates.R | 6 tests/testthat/test-f_analysis_enrichment_survival.R | 6 tests/testthat/test-f_analysis_input_validation.R | 4 tests/testthat/test-f_analysis_multiarm_means.R | 4 tests/testthat/test-f_analysis_multiarm_rates.R | 4 tests/testthat/test-f_analysis_multiarm_survival.R | 4 tests/testthat/test-f_analysis_utilities.R | 20 tests/testthat/test-f_as251.R | 9 tests/testthat/test-f_core_assertions.R | 6 tests/testthat/test-f_core_output_formats.R | 4 tests/testthat/test-f_core_plot.R | 8 tests/testthat/test-f_core_utilities.R | 6 tests/testthat/test-f_design_fisher_combination_test.R | 6 tests/testthat/test-f_design_group_sequential.R | 6 tests/testthat/test-f_design_group_sequential_beta_spending.R | 6 tests/testthat/test-f_design_plan_count_data.R | 6 tests/testthat/test-f_design_plan_means.R | 6 tests/testthat/test-f_design_plan_plot.R |only tests/testthat/test-f_design_plan_rates.R | 6 tests/testthat/test-f_design_plan_survival.R |16788 +++++----- tests/testthat/test-f_design_utilities.R | 6 tests/testthat/test-f_logger.R | 6 tests/testthat/test-f_parameter_set_utilities.R | 6 tests/testthat/test-f_quality_assurance.R | 6 tests/testthat/test-f_simulation_base_means.R | 6 tests/testthat/test-f_simulation_base_rates.R | 6 tests/testthat/test-f_simulation_base_survival.R | 352 tests/testthat/test-f_simulation_calc_subjects_function.R | 68 tests/testthat/test-f_simulation_enrichment_means.R | 6 tests/testthat/test-f_simulation_enrichment_rates.R | 6 tests/testthat/test-f_simulation_enrichment_survival.R | 4 tests/testthat/test-f_simulation_multiarm_means.R | 3525 +- tests/testthat/test-f_simulation_multiarm_rates.R | 3351 - tests/testthat/test-f_simulation_multiarm_survival.R | 3543 +- tests/testthat/test-f_simulation_performance_score.R | 104 tests/testthat/test-f_simulation_plot.R |only tests/testthat/test-f_simulation_utilities.R |only tests/testthat/test-generic_functions.R | 6 tests/testthat/test-pkgname.R | 6 391 files changed, 32327 insertions(+), 31801 deletions(-)
Title: GeoServer REST API R Interface
Description: Provides an R interface to the GeoServer REST API, allowing to upload
and publish data in a GeoServer web-application and expose data to OGC Web-Services.
The package currently supports all CRUD (Create,Read,Update,Delete) operations
on GeoServer workspaces, namespaces, datastores (stores of vector data), featuretypes,
layers, styles, as well as vector data upload operations. For more information about
the GeoServer REST API, see <https://docs.geoserver.org/stable/en/user/rest/>.
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geosapi versions 0.6-7 dated 2023-10-04 and 0.7 dated 2024-02-27
DESCRIPTION | 12 - MD5 | 204 ++++++++++++------------- NAMESPACE | 5 NEWS.md | 19 +- R/GSAbstractCoverageStore.R | 11 - R/GSAbstractDBDataStore.R | 2 R/GSAbstractDataStore.R | 7 R/GSAbstractStore.R | 23 +- R/GSArcGridCoverageStore.R | 2 R/GSCoverage.R | 4 R/GSCoverageBand.R | 20 +- R/GSCoverageStoreManager.R | 187 ++++++++++++++++------ R/GSCoverageView.R | 23 +- R/GSDatastoreManager.R | 212 ++++++++++++++++++-------- R/GSDimension.R | 19 +- R/GSFeatureDimension.R | 12 - R/GSFeatureType.R | 4 R/GSGeoPackageDataStore.R | 77 --------- R/GSGeoTIFFCoverageStore.R | 2 R/GSImageMosaicCoverageStore.R | 2 R/GSInputCoverageBand.R | 29 --- R/GSLayer.R | 41 ++--- R/GSLayerGroup.R | 54 ++---- R/GSLayerManager.R | 172 ++++++++++++++------- R/GSManager.R | 79 +++------ R/GSMetadataLink.R | 13 - R/GSMonitorManager.R |only R/GSNamespace.R | 15 - R/GSNamespaceManager.R | 69 +++++--- R/GSOracleNGDataStore.R | 76 --------- R/GSPostGISDataStore.R | 2 R/GSPublishable.R | 10 - R/GSRESTEntrySet.R | 13 - R/GSRESTResource.R | 156 +++++++++++++++++-- R/GSResource.R | 165 ++++++-------------- R/GSServiceManager.R | 120 +++----------- R/GSServiceSettings.R | 103 +++--------- R/GSShapefileDataStore.R | 27 --- R/GSShapefileDirectoryDataStore.R | 2 R/GSStyle.R | 18 +- R/GSStyleManager.R | 165 ++++++++++---------- R/GSUtils.R | 47 +++-- R/GSVersion.R | 14 - R/GSVirtualTable.R | 59 +------ R/GSVirtualTableGeometry.R | 14 - R/GSVirtualTableParameter.R | 14 - R/GSWorkspace.R | 8 R/GSWorkspaceManager.R | 151 +++++++++++++----- R/GSWorkspaceSettings.R | 29 +-- R/GSWorldImageCoverageStore.R | 2 README.md | 6 man/GSAbstractCoverageStore.Rd | 8 man/GSAbstractDBDataStore.Rd | 4 man/GSAbstractDataStore.Rd | 8 man/GSAbstractStore.Rd | 6 man/GSArcGridCoverageStore.Rd | 4 man/GSCoverage.Rd | 6 man/GSCoverageBand.Rd | 6 man/GSCoverageView.Rd | 6 man/GSDimension.Rd | 6 man/GSFeatureDimension.Rd | 8 man/GSFeatureType.Rd | 6 man/GSGeoPackageDataStore.Rd | 83 ---------- man/GSGeoTIFFCoverageStore.Rd | 4 man/GSImageMosaicCoverageStore.Rd | 4 man/GSInputCoverageBand.Rd | 24 -- man/GSLayer.Rd | 12 - man/GSLayerGroup.Rd | 6 man/GSManager.Rd | 46 ----- man/GSMetadataLink.Rd | 6 man/GSMonitorManager.Rd |only man/GSNamespace.Rd | 8 man/GSOracleNGDataStore.Rd | 82 ---------- man/GSPostGISDataStore.Rd | 4 man/GSPublishable.Rd | 6 man/GSRESTEntrySet.Rd | 6 man/GSRESTResource.Rd | 40 ++++ man/GSResource.Rd | 75 --------- man/GSServiceManager.Rd | 78 --------- man/GSServiceSettings.Rd | 60 ------- man/GSShapefileDataStore.Rd | 31 --- man/GSShapefileDirectoryDataStore.Rd | 4 man/GSStyleManager.Rd | 42 ----- man/GSUtils.Rd | 5 man/GSVirtualTable.Rd | 42 ----- man/GSVirtualTableGeometry.Rd | 6 man/GSVirtualTableParameter.Rd | 6 man/GSWorkspace.Rd | 6 man/GSWorkspaceManager.Rd | 4 man/GSWorkspaceSettings.Rd | 6 man/GSWorldImageCoverageStore.Rd | 4 tests/testthat/test_GSCoverage.R | 4 tests/testthat/test_GSCoverageView.R | 4 tests/testthat/test_GSDimension.R | 4 tests/testthat/test_GSFeatureDimension.R | 8 tests/testthat/test_GSFeatureType.R | 4 tests/testthat/test_GSLayer.R | 23 -- tests/testthat/test_GSLayerGroup.R | 4 tests/testthat/test_GSMetadataLink.R | 4 tests/testthat/test_GSResource.R | 4 tests/testthat/test_GSStyle.R | 24 -- tests/testthat/test_GSVirtualTable.R | 4 tests/testthat/test_GSVirtualTableGeometry.R | 4 tests/testthat/test_GSVirtualTableParameter.R | 4 104 files changed, 1499 insertions(+), 1884 deletions(-)
Title: TV Show Themes and Color Palettes for 'ggplot2' Graphics
Description: Contains various 'ggplot2' themes and color palettes based on TV shows
such as 'Game of Thrones', 'Brooklyn Nine-Nine', 'Avatar: The Last Airbender',
'Spongebob Squarepants', and more.
Author: Ryo Nakagawara [aut, cre]
Maintainer: Ryo Nakagawara <ryonakagawara@gmail.com>
Diff between tvthemes versions 1.3.2 dated 2022-11-17 and 1.3.3 dated 2024-02-27
DESCRIPTION | 8 MD5 | 80 +- NEWS.md | 6 R/theme_hilda.R | 6 R/theme_parksAndRec.R | 12 R/theme_simpsons.R | 2 R/theme_spongebob.R | 2 R/theme_thelastairbender.R | 8 R/tvthemes-package.R | 1 README.md | 167 +++- inst/doc/examples.html | 1145 ++++++++++++++++----------------- inst/doc/fonts-and-colors.html | 141 ++-- inst/doc/tvthemes-1_0_0.html | 147 ++-- man/attackOnTitan_pal.Rd | 7 man/avatarTLA_pal.Rd | 5 man/avatar_pal.Rd | 5 man/bigHero6_pal.Rd | 7 man/brooklyn99_pal.Rd | 5 man/gravityFalls_pal.Rd | 7 man/hilda_pal.Rd | 5 man/kimPossible_pal.Rd | 7 man/parksAndRec_pal.Rd | 7 man/rickAndMorty_pal.Rd | 7 man/simpsons_pal.Rd | 7 man/spongeBob_pal.Rd | 7 man/stevenUniverse_pal.Rd | 5 man/tvthemes.Rd | 1 man/westeros_pal.Rd | 5 tests/testthat/test-attackontitan.R | 28 tests/testthat/test-bighero6.R | 33 tests/testthat/test-brooklyn99.R | 34 tests/testthat/test-gameofthrones.R | 226 +++--- tests/testthat/test-gravityfalls.R | 33 tests/testthat/test-hilda.R | 72 +- tests/testthat/test-kimpossible.R | 33 tests/testthat/test-parksandrec.R | 29 tests/testthat/test-rickandmorty.R | 28 tests/testthat/test-simpsons.R | 28 tests/testthat/test-spongebob.R | 28 tests/testthat/test-stevenuniverse.R | 689 ++++++++++--------- tests/testthat/test-thelastairbender.R | 215 +----- 41 files changed, 1642 insertions(+), 1646 deletions(-)
Title: A Grammar of Animated Graphics
Description: The grammar of graphics as implemented in the 'ggplot2'
package has been successful in providing a powerful API for creating
static visualisation. In order to extend the API for animated graphics
this package provides a completely new set of grammar, fully
compatible with 'ggplot2' for specifying transitions and animations in
a flexible and extensible way.
Author: Thomas Lin Pedersen [aut, cre]
,
David Robinson [aut],
Posit, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between gganimate versions 1.0.8 dated 2022-09-08 and 1.0.9 dated 2024-02-27
DESCRIPTION | 62 +++--- LICENSE | 4 MD5 | 101 +++++----- NAMESPACE | 3 NEWS.md | 17 + R/aaa.R | 21 +- R/anim_save.R | 6 R/animate.R | 71 +++---- R/ease-aes.R | 2 R/gganim.R | 6 R/gganimate-package.r | 9 R/ggplot2_reimpl.R | 167 +++++++++++------- R/import-standalone-obj-type.R |only R/import-standalone-types-check.R |only R/plot-build.R | 92 +++++++-- R/post_process.R | 6 R/renderers.R | 100 +++++----- R/scene.R | 36 +++ R/shadow-.R | 4 R/shadow-mark.R | 4 R/shadow-trail.R | 6 R/shadow-wake.R | 10 - R/transformr.R | 12 - R/transition-.R | 22 +- R/transition-components.R | 14 - R/transition-events.R | 10 - R/transition-filter.R | 8 R/transition-layers.R | 10 - R/transition-manual.R | 8 R/transition-states.R | 2 R/transition-time.R | 8 R/transition_reveal.R | 47 ++++- R/transmute-.R | 2 R/transmuters.R | 4 R/view-.R | 7 R/view-follow.R | 2 R/view-step-manual.R | 4 R/view-step.R | 6 R/view-zoom-manual.R | 2 R/view-zoom.R | 4 R/zzz.R | 8 build/vignette.rds |binary inst/doc/gganimate.R | 22 +- inst/doc/gganimate.Rmd | 286 ++++++++++++++++--------------- inst/doc/gganimate.html | 267 ++++++++++++++-------------- man/figures/README-unnamed-chunk-2-1.gif |binary man/figures/README-unnamed-chunk-4-1.gif |binary man/gganimate-package.Rd | 4 man/transition_components.Rd | 5 man/transition_reveal.Rd | 23 ++ vignettes/extra/talks.Rmd | 4 vignettes/gganimate.Rmd | 286 ++++++++++++++++--------------- vignettes/gganimate.nb.html |only 53 files changed, 1012 insertions(+), 792 deletions(-)
Title: R Interface to SDMX Web Services
Description: Provides functions to retrieve data and metadata from providers
that disseminate data by means of SDMX web services.
SDMX (Statistical Data and Metadata eXchange) is a standard that
has been developed with the aim of simplifying the exchange of
statistical information.
More about the SDMX standard and the SDMX Web Services
can be found at: <https://sdmx.org>.
Author: Attilio Mattiocco, Gianpaolo Lopez, Banca d'Italia
Maintainer: Attilio Mattiocco <attilio.mattiocco@bancaditalia.it>
Diff between RJSDMX versions 3.0-6 dated 2023-02-10 and 3.1-0 dated 2024-02-27
DESCRIPTION | 10 +-- MD5 | 18 +++--- NAMESPACE | 2 R/SdmxClient.R | 124 ++++++++++++++++++++++++------------------ R/test_automation/test.sdmx.r | 111 ++++++++++++++++++++++++++++++++++++- inst/java/SDMX.jar |binary man/addProvider.Rd | 4 + man/getTimeSeries.Rd | 95 ++++++++++++-------------------- man/getTimeSeries2.Rd |only man/getTimeSeriesTable.Rd | 91 +++++++++++------------------- man/getTimeSeriesTable2.Rd |only 11 files changed, 270 insertions(+), 185 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-02-12 1.2.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-13 1.0.8
2018-06-10 1.0.4
2017-07-14 1.0.2
2017-07-08 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-24 0.0.1
Title: Multivariate Ordinal Regression Models
Description: A flexible framework for fitting multivariate
ordinal regression models with composite likelihood methods. Methodological details are given in Hirk, Hornik, Vana (2020) <doi:10.18637/jss.v093.i04>.
Author: Rainer Hirk [aut, cre],
Kurt Hornik [aut],
Laura Vana [aut],
Alan Genz [ctb]
Maintainer: Laura Vana <laura.vana@tuwien.ac.at>
Diff between mvord versions 1.2.1 dated 2024-01-13 and 1.2.2 dated 2024-02-27
DESCRIPTION | 12 +- MD5 | 26 ++-- NEWS | 9 + data/data_cr.rda |binary data/data_cr_panel.rda |binary data/data_mvord.rda |binary data/data_mvord2.rda |binary data/data_mvord_panel.rda |binary data/data_mvord_toy.rda |binary data/essay_data.rda |binary inst/doc/vignette_mvord.Rnw | 20 +-- inst/doc/vignette_mvord.pdf |binary inst/doc/vignette_mvord2.html | 239 ++++++++++++++++++++---------------------- vignettes/vignette_mvord.Rnw | 20 +-- 14 files changed, 164 insertions(+), 162 deletions(-)
Title: Access to the Global Inventory of Floras and Traits (GIFT)
Description: Retrieving regional plant checklists, species traits and
distributions, and environmental data from the Global Inventory of Floras and
Traits (GIFT). More information about the GIFT database can be found at
<https://gift.uni-goettingen.de/about> and the map of available floras can be
visualized at <https://gift.uni-goettingen.de/map>. The API and associated
queries can be accessed according the following scheme:
<https://gift.uni-goettingen.de/api/extended/index2.0.php?query=env_raster>.
Author: Pierre Denelle [aut, cre] ,
Patrick Weigelt [aut]
Maintainer: Pierre Denelle <pierre.denelle@gmail.com>
Diff between GIFT versions 1.3.1 dated 2024-01-08 and 1.3.2 dated 2024-02-27
DESCRIPTION | 6 ++-- MD5 | 26 +++++++++--------- NEWS.md | 10 +++++++ R/GIFT_env_meta_misc.R | 6 ++++ R/GIFT_env_meta_raster.R | 6 ++++ R/GIFT_spatial.R | 13 ++++++++- R/check_functions.R | 47 +++++++++++++++++++++++++++++++++ inst/doc/GIFT.R | 7 ++++ inst/doc/GIFT.Rmd | 7 ++++ inst/doc/GIFT.html | 54 +++++++++++++++++++++----------------- inst/doc/GIFT_API.html | 4 +- inst/doc/GIFT_advanced_users.html | 4 +- man/GIFT_spatial.Rd | 13 ++++++++- vignettes/GIFT.Rmd | 7 ++++ 14 files changed, 161 insertions(+), 49 deletions(-)
Title: Read and Write 'jamovi' Files ('.omv')
Description: The free and open a statistical spreadsheet 'jamovi'
(<https://www.jamovi.org>) aims to make statistical analyses easy and
intuitive. 'jamovi' produces syntax that can directly be used in R (in
connection with the R-package 'jmv'). Having import / export routines for
the data files 'jamovi' produces ('.omv') permits an easy transfer of
data and analyses between 'jamovi' and R.
Author: Sebastian Jentschke [aut, cre]
Maintainer: Sebastian Jentschke <sebastian.jentschke@uib.no>
Diff between jmvReadWrite versions 0.4.2 dated 2023-11-22 and 0.4.4 dated 2024-02-27
DESCRIPTION | 8 MD5 | 77 +++++---- NAMESPACE | 1 NEWS.md | 33 ++++ R/convert_to_omv.R | 4 R/describe_omv.R | 10 - R/globals.R | 33 +++- R/label_vars_omv.R |only R/long2wide_omv.R | 8 R/merge_cols_omv.R | 23 +- R/merge_rows_omv.R | 6 R/read_omv.R | 98 ++++++------ R/replace_omv.R | 41 ++--- R/search_omv.R | 6 R/sort_omv.R | 8 R/transpose_omv.R | 2 R/wide2long_omv.R | 18 +- R/write_omv.R | 269 +++++++++++++++++++-------------- README.md | 23 ++ inst/CITATION | 2 inst/WORDLIST | 3 inst/doc/jmvReadWrite.html | 10 - inst/extdata/ToothGrowth.omv |binary inst/extdata/label_example.csv |only man/convert_to_omv.Rd | 3 man/label_vars_omv.Rd |only tests/ToothGrowth.omv |binary tests/label_example.csv |only tests/testthat/test-arrange_cols_omv.R | 16 - tests/testthat/test-describe_omv.R | 24 +- tests/testthat/test-globals.R | 23 ++ tests/testthat/test-label_vars_omv.R |only tests/testthat/test-long2wide_omv.R | 49 ++++-- tests/testthat/test-merge_cols_omv.R | 17 +- tests/testthat/test-merge_rows_omv.R | 2 tests/testthat/test-read_omv.R | 90 ++++++----- tests/testthat/test-replace_omv.R | 8 tests/testthat/test-search_omv.R | 2 tests/testthat/test-sort_omv.R | 16 - tests/testthat/test-transpose_omv.R | 10 - tests/testthat/test-wide2long_omv.R | 34 +++- tests/testthat/test-write_omv.R | 16 - 42 files changed, 606 insertions(+), 387 deletions(-)
Title: Process NEON Plant Data for Ecological Analysis
Description: Downloading and organizing plant presence and percent cover data from the National Ecological Observatory Network <https://www.neonscience.org>.
Author: Adam Mahood [aut, cre],
Jacob Macdonald [ctb],
Ranjan Muthukrishnan [ctb]
Maintainer: Adam Mahood <admahood@gmail.com>
Diff between neonPlantEcology versions 1.4.0 dated 2024-01-24 and 1.5.0 dated 2024-02-27
DESCRIPTION | 14 LICENSE | 4 MD5 | 60 NAMESPACE | 34 R/data.R | 114 - R/diversity_data_prep.R | 3577 ++++++++++++++++++++-------------------- R/pkg_housekeeping.R | 48 README.md | 196 +- build/vignette.rds |binary data/site_polygons.rda |binary inst/doc/neonPlantEcology.R |only inst/doc/neonPlantEcology.Rmd |only inst/doc/neonPlantEcology.html |only inst/doc/using_npe.R | 276 +-- inst/doc/using_npe.Rmd | 394 ++-- inst/doc/using_npe.html | 1072 +++++------ man/D14.Rd | 44 man/npe_change_native_status.Rd | 68 man/npe_cm_metadata.Rd | 50 man/npe_community_matrix.Rd | 112 - man/npe_download.Rd | 98 - man/npe_eventID_fixer.Rd | 52 man/npe_groundcover.Rd | 84 man/npe_heights.Rd | 74 man/npe_longform.Rd | 102 - man/npe_plot_centroids.Rd | 66 man/npe_site_ids.Rd | 72 man/npe_summary.Rd | 110 - man/npe_update_subplots.Rd | 48 man/site_polygons.Rd | 62 man/sites.Rd | 68 vignettes/neonPlantEcology.Rmd |only vignettes/using_npe.Rmd | 394 ++-- 33 files changed, 3684 insertions(+), 3609 deletions(-)
More information about neonPlantEcology at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-08-24 3.3.5.1
2020-12-12 3.3.3.1
2019-06-10 3.3.2
2018-12-12 3.3.0
2018-03-16 3.2.2
2017-06-15 3.1.0
2016-11-07 3.0.7
2016-08-03 3.0.5
2016-06-13 3.0.2
2016-05-09 3.0.0
2014-03-18 2.5.0
2013-10-18 2.4.2
2013-07-23 2.4.0
2013-02-05 2.3.0
2012-08-17 2.2.0
2012-03-13 2.1.0
2011-11-17 2.0.8
2011-10-25 2.0.6
2011-10-10 2.0.4
2011-09-24 2.0.3
2011-08-05 2.0.1
2010-10-23 1.6.0
2010-06-29 1.5.0
2010-06-15 1.4.4
2010-03-13 1.4.0
2009-11-10 1.3.0
2009-08-21 1.2.0
2009-06-16 1.1.0
2009-05-14 1.0.5
Title: Download Online Imagery Tiles
Description: Download imagery tiles to a standard cache and load the data into raster objects.
Facilities for 'AWS' terrain <https://registry.opendata.aws/terrain-tiles/> terrain and 'Mapbox'
<https://www.mapbox.com/> servers are provided.
Author: Michael Sumner [aut, cre] ,
Miles McBain [ctb] ,
Ben Raymond [ctb]
Maintainer: Michael Sumner <mdsumner@gmail.com>
Diff between ceramic versions 0.9.0 dated 2024-01-22 and 0.9.5 dated 2024-02-27
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 8 +++++++- R/ceramic-package.R | 5 ++++- R/gdal.R | 3 ++- R/locale.R | 2 ++ R/utils.R | 4 ++-- man/cc_location.Rd | 2 ++ man/ceramic-package.Rd | 5 ++++- 9 files changed, 34 insertions(+), 17 deletions(-)
Title: CRISPR Screen and Gene Expression Differential Analysis
Description: Provides analytical methods for analyzing CRISPR screen data
at different levels of gene expression. Multi-component normal mixture models
and EM algorithms are used for modeling.
Author: Lianbo Yu [aut, cre],
Yue Zhao [aut],
Kevin R. Coombes [aut],
Lang Li [aut]
Maintainer: Lianbo Yu <Lianbo.Yu@osumc.edu>
Diff between CEDA versions 1.1.0 dated 2022-08-11 and 1.1.1 dated 2024-02-27
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/CEDA.R | 9 +++++---- build/vignette.rds |binary inst/doc/Userguide.R | 4 +--- inst/doc/Userguide.Rmd | 6 ++---- inst/doc/Userguide.pdf |binary vignettes/Userguide.Rmd | 6 ++---- 8 files changed, 20 insertions(+), 25 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-02-26 2.4.3
2023-12-12 2.4.2
2023-12-06 2.4.1
Title: Lightweight Logging for R Scripts
Description: Provides flexible but lightweight logging facilities for R scripts.
Supports priority levels for logs and messages, flagging messages, capturing
script output, switching logs, and logging to files or connections.
Author: Ben Bond-Lamberty [cre, aut]
Maintainer: Ben Bond-Lamberty <bondlamberty@pnnl.gov>
Diff between luzlogr versions 0.2.0 dated 2016-02-25 and 0.2.1 dated 2024-02-27
luzlogr-0.2.0/luzlogr/man/luzlogr.Rd |only luzlogr-0.2.1/luzlogr/DESCRIPTION | 21 luzlogr-0.2.1/luzlogr/MD5 | 44 - luzlogr-0.2.1/luzlogr/NAMESPACE | 2 luzlogr-0.2.1/luzlogr/NEWS | 8 luzlogr-0.2.1/luzlogr/R/internals.R | 2 luzlogr-0.2.1/luzlogr/R/logging.R | 9 luzlogr-0.2.1/luzlogr/R/luzlogr.R | 10 luzlogr-0.2.1/luzlogr/README.md | 6 luzlogr-0.2.1/luzlogr/build/vignette.rds |binary luzlogr-0.2.1/luzlogr/inst/doc/intro-luzlogr.R | 23 luzlogr-0.2.1/luzlogr/inst/doc/intro-luzlogr.Rmd | 11 luzlogr-0.2.1/luzlogr/inst/doc/intro-luzlogr.html | 556 +++++++++++++++----- luzlogr-0.2.1/luzlogr/man/closelog.Rd | 6 luzlogr-0.2.1/luzlogr/man/getloginfo.Rd | 1 luzlogr-0.2.1/luzlogr/man/newlog.Rd | 1 luzlogr-0.2.1/luzlogr/man/nlogs.Rd | 1 luzlogr-0.2.1/luzlogr/man/openlog.Rd | 2 luzlogr-0.2.1/luzlogr/man/printlog.Rd | 8 luzlogr-0.2.1/luzlogr/man/removelog.Rd | 1 luzlogr-0.2.1/luzlogr/man/setlogdata.Rd | 5 luzlogr-0.2.1/luzlogr/tests/testthat/test_logging.R | 18 luzlogr-0.2.1/luzlogr/tests/testthat/test_luzlogr.R |only luzlogr-0.2.1/luzlogr/vignettes/intro-luzlogr.Rmd | 11 24 files changed, 545 insertions(+), 201 deletions(-)
Title: Make 'shiny' App to Executable Program
Description: Make your 'shiny' application as executable program.
Users do not need to install 'R' and 'shiny' on their system.
Author: Changwoo Lim [aut, cre]
Maintainer: Changwoo Lim <limcw@zarathu.com>
Diff between executablePackeR versions 0.0.1 dated 2024-02-16 and 0.0.2 dated 2024-02-27
DESCRIPTION | 6 +++--- MD5 | 18 ++++++++++-------- NAMESPACE | 2 ++ NEWS.md |only R/check_prerequisites.R | 2 +- R/check_version.R |only R/pack.R | 27 ++++++++++++++++++++------- R/prepare_electron.R | 2 +- README.md | 46 +++++++++++++++++++++++++++++++++++++++++++--- inst/forge.config.js | 6 ++++-- man/pack.Rd | 6 +++--- 11 files changed, 87 insertions(+), 28 deletions(-)
More information about executablePackeR at CRAN
Permanent link
Title: Covariate Balance Tables and Plots
Description: Generate balance tables and plots for covariates of groups preprocessed through
matching, weighting or subclassification, for example, using propensity scores. Includes
integration with 'MatchIt', 'twang', 'Matching', 'optmatch', 'CBPS', 'ebal', 'WeightIt',
'cem', 'sbw', and 'designmatch' for assessing balance on the output of their preprocessing
functions. Users can also specify data for balance assessment not generated through
the above packages. Also included are methods for assessing balance in clustered or
multiply imputed data sets or data sets with multi-category, continuous, or longitudinal treatments.
Author: Noah Greifer [aut, cre]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between cobalt versions 4.5.3 dated 2024-01-09 and 4.5.4 dated 2024-02-27
DESCRIPTION | 8 MD5 | 105 +++++------ NAMESPACE | 1 NEWS.md | 10 + R/SHARED.R | 4 R/bal.compute.R | 12 - R/bal.tab.R | 2 R/bal.tab.cem.match.R | 2 R/balance-summary.R | 35 ++- R/base.bal.tab.R | 43 +++- R/class-bal.tab.cluster.R | 33 +++ R/class-bal.tab.imp.R | 31 +++ R/class-bal.tab.msm.R | 46 ++-- R/class-bal.tab.multi.R | 34 ++- R/class-bal.tab.subclass.R | 30 ++- R/cobalt-package.R | 1 R/functions_for_processing.R | 195 +++++++++++++-------- R/love.plot.R | 255 +++++++++++++++------------ R/print.bal.tab.R | 72 ++++--- R/var.names.R | 4 R/x2base.R | 169 +++++++----------- R/zzz.R | 4 README.md | 2 build/cobalt.pdf |binary build/stage23.rdb |binary build/vignette.rds |binary inst/doc/cobalt.R | 28 +-- inst/doc/cobalt.Rmd | 6 inst/doc/cobalt.html | 287 ++++++++++++++++--------------- inst/doc/faq.R |only inst/doc/faq.Rmd |only inst/doc/faq.html |only inst/doc/longitudinal-treat.R | 6 inst/doc/longitudinal-treat.html | 14 - inst/doc/love.plot.R | 4 inst/doc/love.plot.html | 118 ++++++------ inst/doc/optimizing-balance.R | 18 - inst/doc/optimizing-balance.html | 8 inst/doc/other-packages.R | 130 +++----------- inst/doc/other-packages.Rmd | 105 ++--------- inst/doc/other-packages.html | 188 +++++++------------- inst/doc/segmented-data.R | 2 inst/doc/segmented-data.html | 6 man/bal.tab.Rd | 2 man/bal.tab.cem.match.Rd | 2 man/class-bal.tab.subclass.Rd | 2 man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-3-2.png |binary man/var.names.Rd | 2 tests/testthat/test-bal.tab.data.frame.R | 8 tests/testthat/test-github-issues.R | 32 ++- tests/testthat/test-s.d.denom.R |only vignettes/cobalt.Rmd | 6 vignettes/faq.Rmd |only vignettes/other-packages.Rmd | 105 ++--------- vignettes/references.bib | 7 56 files changed, 1112 insertions(+), 1072 deletions(-)