Title: Latent Unknown Clustering with Integrated Data
Description: An implementation of LUCID model (Peng (2019) <doi:10.1093/bioinformatics/btz667>).
LUCID conducts integrated clustering using exposures, omics data (and outcome
of interest). An EM algorithm is implemented to estimate MLE of LUCID model.
LUCID features integrated variable selection, incorporation of missing omics
data, bootstrap inference and visualization via Sankey diagram.
Author: Yinqi Zhao, David V. Conti, Cheng Peng, Zhao Yang
Maintainer: Yinqi Zhao <yinqiz@usc.edu>
Diff between LUCIDus versions 2.1.5-2 dated 2022-06-01 and 2.2 dated 2022-08-07
LUCIDus-2.1.5-2/LUCIDus/tests/testthat/test-binary-single-omics.R |only LUCIDus-2.1.5-2/LUCIDus/tests/testthat/test-normal-single-omics.R |only LUCIDus-2.1.5-2/LUCIDus/tests/testthat/test-plot.R |only LUCIDus-2.1.5-2/LUCIDus/tests/testthat/test-predict.R |only LUCIDus-2.2/LUCIDus/DESCRIPTION | 6 LUCIDus-2.2/LUCIDus/MD5 | 70 - LUCIDus-2.2/LUCIDus/NAMESPACE | 4 LUCIDus-2.2/LUCIDus/NEWS.md | 8 LUCIDus-2.2/LUCIDus/R/boot_lucid.R | 34 LUCIDus-2.2/LUCIDus/R/data.R | 4 LUCIDus-2.2/LUCIDus/R/deprecated_fun.R |only LUCIDus-2.2/LUCIDus/R/est_lucid.R | 53 - LUCIDus-2.2/LUCIDus/R/est_lucid_helper.R | 4 LUCIDus-2.2/LUCIDus/R/lucid.R | 279 ++++-- LUCIDus-2.2/LUCIDus/R/missing.R | 27 LUCIDus-2.2/LUCIDus/R/plot_lucid.R | 4 LUCIDus-2.2/LUCIDus/R/pred_lucid.R | 6 LUCIDus-2.2/LUCIDus/R/summary_lucid.R | 12 LUCIDus-2.2/LUCIDus/R/tune_lucid.R |only LUCIDus-2.2/LUCIDus/build/vignette.rds |binary LUCIDus-2.2/LUCIDus/data/helix_data.rda |binary LUCIDus-2.2/LUCIDus/inst/doc/LUCID_vignette.R | 89 -- LUCIDus-2.2/LUCIDus/inst/doc/LUCID_vignette.Rmd | 230 +++-- LUCIDus-2.2/LUCIDus/inst/doc/LUCID_vignette.html | 433 +++++----- LUCIDus-2.2/LUCIDus/man/Istep_Z.Rd |only LUCIDus-2.2/LUCIDus/man/boot.lucid.Rd | 42 LUCIDus-2.2/LUCIDus/man/boot_lucid.Rd |only LUCIDus-2.2/LUCIDus/man/check_na.Rd |only LUCIDus-2.2/LUCIDus/man/est.lucid.Rd | 96 -- LUCIDus-2.2/LUCIDus/man/est_lucid.Rd |only LUCIDus-2.2/LUCIDus/man/helix_data.Rd | 4 LUCIDus-2.2/LUCIDus/man/lucid.Rd | 83 - LUCIDus-2.2/LUCIDus/man/plot_lucid.Rd | 4 LUCIDus-2.2/LUCIDus/man/predict_lucid.Rd | 4 LUCIDus-2.2/LUCIDus/man/print.lucid.Rd | 6 LUCIDus-2.2/LUCIDus/man/print.sumlucid.Rd | 2 LUCIDus-2.2/LUCIDus/man/summary_lucid.Rd | 8 LUCIDus-2.2/LUCIDus/man/tune_lucid.Rd |only LUCIDus-2.2/LUCIDus/tests/testthat/test-boot_lucid.R |only LUCIDus-2.2/LUCIDus/tests/testthat/test-lucid-binary.R |only LUCIDus-2.2/LUCIDus/tests/testthat/test-lucid-normal.R |only LUCIDus-2.2/LUCIDus/tests/testthat/test-plot_lucid.R |only LUCIDus-2.2/LUCIDus/tests/testthat/test-predict_lucid.R |only LUCIDus-2.2/LUCIDus/vignettes/LUCID_vignette.Rmd | 230 +++-- 44 files changed, 936 insertions(+), 806 deletions(-)
Title: 'Too Many, Too Improbable' (TMTI) Test Procedures
Description: Methods for computing joint tests, controlling the Familywise Error Rate (FWER) and getting lower bounds on the number of false hypotheses in a set. The methods implemented here are described in Mogensen and Markussen (2021) <arXiv:2108.04731>.
Author: Phillip B. Mogensen
Maintainer: Phillip B. Mogensen <pbm@math.ku.dk>
Diff between TMTI versions 0.1.0 dated 2021-08-13 and 1.0.0 dated 2022-08-07
TMTI-0.1.0/TMTI/R/GetMinima.R |only TMTI-0.1.0/TMTI/R/TMTI_CTP.R |only TMTI-0.1.0/TMTI/R/TestSet_localTest.R |only TMTI-0.1.0/TMTI/R/TopDown_localTest.R |only TMTI-0.1.0/TMTI/R/localTest_CTP.R |only TMTI-0.1.0/TMTI/R/make_Y.R |only TMTI-0.1.0/TMTI/man/TMTI_CTP.Rd |only TMTI-0.1.0/TMTI/man/TestSet_localTest.Rd |only TMTI-0.1.0/TMTI/man/TopDown_localTest.Rd |only TMTI-0.1.0/TMTI/man/dot-GetMinima.Rd |only TMTI-0.1.0/TMTI/man/localTest_CTP.Rd |only TMTI-0.1.0/TMTI/man/make_Y.Rd |only TMTI-1.0.0/TMTI/DESCRIPTION | 13 - TMTI-1.0.0/TMTI/MD5 | 78 +++++---- TMTI-1.0.0/TMTI/NAMESPACE | 14 + TMTI-1.0.0/TMTI/R/CTP_LocalTest.R |only TMTI-1.0.0/TMTI/R/CTP_TMTI.R |only TMTI-1.0.0/TMTI/R/RcppExports.R |only TMTI-1.0.0/TMTI/R/TMTI.R | 124 +++++++------- TMTI-1.0.0/TMTI/R/TMTI_CDF.R | 18 +- TMTI-1.0.0/TMTI/R/TestSet_LocalTest.R |only TMTI-1.0.0/TMTI/R/TestSet_TMTI.R | 208 ++++++++++++++++-------- TMTI-1.0.0/TMTI/R/TopDown_LocalTest.R |only TMTI-1.0.0/TMTI/R/TopDown_TMTI.R | 119 +++++-------- TMTI-1.0.0/TMTI/R/adjust_LocalTest.R |only TMTI-1.0.0/TMTI/R/adjust_TMTI.R |only TMTI-1.0.0/TMTI/R/gamma_bootstrapper.R | 68 ++++--- TMTI-1.0.0/TMTI/R/gamma_bootstrapper_Ttest.R |only TMTI-1.0.0/TMTI/R/kFWER_LocalTest.R |only TMTI-1.0.0/TMTI/R/kFWER_TMTI.R |only TMTI-1.0.0/TMTI/R/rtTMTI_CDF.R | 22 +- TMTI-1.0.0/TMTI/R/tTMTI_CDF.R | 38 ++-- TMTI-1.0.0/TMTI/R/zzz.R |only TMTI-1.0.0/TMTI/README.md | 40 ---- TMTI-1.0.0/TMTI/man/CTP_LocalTest.Rd |only TMTI-1.0.0/TMTI/man/CTP_TMTI.Rd |only TMTI-1.0.0/TMTI/man/FWER_set_C.Rd |only TMTI-1.0.0/TMTI/man/FullCTP_C.Rd |only TMTI-1.0.0/TMTI/man/MakeY_C.Rd |only TMTI-1.0.0/TMTI/man/MakeZ_C.Rd |only TMTI-1.0.0/TMTI/man/MakeZ_C_nsmall.Rd |only TMTI-1.0.0/TMTI/man/TMTI.Rd | 34 ++- TMTI-1.0.0/TMTI/man/TMTI_CDF.Rd | 4 TMTI-1.0.0/TMTI/man/TestSet_C.Rd |only TMTI-1.0.0/TMTI/man/TestSet_LocalTest.Rd |only TMTI-1.0.0/TMTI/man/TestSet_TMTI.Rd | 39 +++- TMTI-1.0.0/TMTI/man/TopDown_C.Rd |only TMTI-1.0.0/TMTI/man/TopDown_C_binary.Rd |only TMTI-1.0.0/TMTI/man/TopDown_C_binary_subset.Rd |only TMTI-1.0.0/TMTI/man/TopDown_LocalTest.Rd |only TMTI-1.0.0/TMTI/man/TopDown_TMTI.Rd | 39 +++- TMTI-1.0.0/TMTI/man/adjust_LocalTest.Rd |only TMTI-1.0.0/TMTI/man/adjust_TMTI.Rd |only TMTI-1.0.0/TMTI/man/gamma_bootstrapper.Rd | 23 -- TMTI-1.0.0/TMTI/man/gamma_bootstrapper_Ttest.Rd |only TMTI-1.0.0/TMTI/man/kFWER_LocalTest.Rd |only TMTI-1.0.0/TMTI/man/kFWER_TMTI.Rd |only TMTI-1.0.0/TMTI/man/kFWER_set_C.Rd |only TMTI-1.0.0/TMTI/man/rtTMTI_CDF.Rd | 4 TMTI-1.0.0/TMTI/man/tTMTI_CDF.Rd | 7 TMTI-1.0.0/TMTI/src |only 61 files changed, 477 insertions(+), 415 deletions(-)
Title: Computing Envelope Estimators
Description: Provides a general routine, envMU, which allows estimation of the M envelope of span(U) given root n consistent estimators of M and U. The routine envMU does not presume a model. This package implements response envelopes, partial response envelopes, envelopes in the predictor space, heteroscedastic envelopes, simultaneous envelopes, scaled response envelopes, scaled envelopes in the predictor space, groupwise envelopes, weighted envelopes, envelopes in logistic regression, envelopes in Poisson regression and envelopes in function-on-function linear regression. For each of these model-based routines the package provides inference tools including bootstrap, cross validation, estimation and prediction, hypothesis testing on coefficients are included except for weighted envelopes. Tools for selection of dimension include AIC, BIC and likelihood ratio testing. Background is available at Cook, R. D., Forzani, L. and Su, Z. (2016) <doi:10.1016/j.jmva.2016.05.006>. Optimization is based on a clockwise coordinate descent algorithm.
Author: Minji Lee, Zhihua Su
Maintainer: Minji Lee <minjilee101@gmail.com>
Diff between Renvlp versions 3.1 dated 2022-05-13 and 3.2 dated 2022-08-07
DESCRIPTION | 13 +++--- MD5 | 28 +++++++++++--- NAMESPACE | 7 +++ R/felmKL.R |only R/felmdir.R |only R/genvMU.R | 75 ++++++++++++--------------------------- R/henv.R | 32 ++++++++++++---- R/henvMU.R | 99 ++++++++++++++++++++++++++-------------------------- R/pred.felmKL.R |only R/pred.felmdir.R |only R/u.felmKL.R |only R/u.felmdir.R |only R/u.stenv.R | 6 +-- data/NJdata.rda |only man/NJdata.Rd |only man/Renvlp.Rd | 10 +++-- man/felmKL.Rd |only man/felmdir.Rd |only man/pred.felmKL.Rd |only man/pred.felmdir.Rd |only man/u.felmKL.Rd |only man/u.felmdir.Rd |only 22 files changed, 141 insertions(+), 129 deletions(-)
Title: Fast 2D Constrained Delaunay Triangulation
Description: Performs 2D Delaunay triangulation, constrained or
unconstrained, with the help of the C++ library 'CDT'. A function to
plot the triangulation is provided. The constrained Delaunay
triangulation has applications in geographic information systems.
Author: Stephane Laurent [aut, cre],
Artem Amirkhanov [cph]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between RCDT versions 1.1.0 dated 2022-04-06 and 1.2.0 dated 2022-08-07
DESCRIPTION | 31 - MD5 | 47 - NEWS.md | 43 - R/RcppExports.R | 8 R/delaunay.R | 98 ++- R/plot.R | 107 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/the-RCDT-package.R | 146 ++--- inst/doc/the-RCDT-package.html | 538 +++++++++++--------- man/delaunay.Rd | 28 - src/CDT.h | 628 +++++++---------------- src/CDTUtils.h | 101 ++- src/CDTUtils_hpp.h | 37 - src/CDT_hpp.h | 1090 +---------------------------------------- src/KDTree.h | 28 - src/LocatorKDTree.h | 25 src/Makevars | 2 src/Makevars.win | 2 src/RcppExports.cpp | 18 src/Triangulation.h |only src/Triangulation_hpp.h |only src/delaunay.cpp | 113 ++-- src/predicates.h | 11 tests |only 25 files changed, 1050 insertions(+), 2051 deletions(-)
Title: "Eating the Liver of Data Science"
Description: Provides a collection of helper functions that make various techniques from data science more user-friendly for non-experts. In this way, our aim is to allow non-experts to become familiar with the techniques with only a minimal level of coding knowledge. Indeed, following an ancient Persian idiom, we refer to this as "eating the liver of data science" which could be interpreted as "getting intimately close with data science". Examples of procedures we include are: data partitioning for out-of-sample testing, computing Mean Squared Error (MSE) for quantifying prediction accuracy, and data transformation (z-score and min-max). Besides such helper functions, the package also includes several interesting datasets that are useful for multivariate analysis.
Author: Reza Mohammadi [aut, cre] ,
Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between liver versions 1.12 dated 2022-05-06 and 1.13 dated 2022-08-07
DESCRIPTION | 6 MD5 | 22 +-- NEWS.md | 4 R/conf.mat.R | 5 R/kNN.plot.R | 6 data/corona.RData |only data/datalist | 1 inst/doc/liver-example.R | 2 inst/doc/liver-example.Rmd | 10 + inst/doc/liver-example.html | 280 ++++++++++++++++++++++++++++++++++---------- man/cereal.Rd | 4 man/corona.Rd |only vignettes/liver-example.Rmd | 10 + 13 files changed, 261 insertions(+), 89 deletions(-)
Title: Regression Helper Functions
Description: Methods for manipulating regression models and for describing these in a style adapted for medical journals.
Contains functions for generating an HTML table with crude and adjusted estimates, plotting hazard ratio, plotting model
estimates and confidence intervals using forest plots, extending this to comparing multiple models in a single forest plots.
In addition to the descriptive methods, there are add-ons for the robust covariance matrix provided by the 'sandwich'
package, a function for adding non-linearities to a model, and a wrapper around the 'Epi' package's Lexis() functions for
time-splitting a dataset when modeling non-proportional hazards in Cox regressions.
Author: Max Gordon [aut, cre],
Reinhard Seifert [aut]
Maintainer: Max Gordon <max@gforge.se>
Diff between Greg versions 1.4.0 dated 2021-11-23 and 1.4.1 dated 2022-08-07
DESCRIPTION | 9 MD5 | 30 - NEWS.md | 6 R/addNonlinearity.R | 10 R/getCrudeAndAdjustedModelData.R | 24 + R/getCrudeAndAdjustedModelData.rms.R | 5 R/plotHR.R | 16 R/private_plotHR.R | 85 ++-- README.md | 2 build/vignette.rds |binary inst/doc/printCrudeAndAdjustedModel.html | 240 +++++++++++++ inst/doc/timeSplitter.html | 366 +++++++++++++++++++-- inst/examples/plotHR_example.R | 87 ++-- man/plotHR.Rd | 85 +--- tests/testthat/Rplots.pdf |binary tests/testthat/test-getCrudeAndAdjustedModelData.R | 17 16 files changed, 754 insertions(+), 228 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 0.7.1 dated 2022-07-13 and 0.7.2 dated 2022-08-07
shinyWidgets-0.7.1/shinyWidgets/tests/testthat/test-shinyWidgetsGallery.R |only shinyWidgets-0.7.2/shinyWidgets/DESCRIPTION | 12 shinyWidgets-0.7.2/shinyWidgets/MD5 | 133 +++++----- shinyWidgets-0.7.2/shinyWidgets/NEWS.md | 9 shinyWidgets-0.7.2/shinyWidgets/R/dependencies.R | 26 + shinyWidgets-0.7.2/shinyWidgets/R/input-actiongroupbuttons.R | 2 shinyWidgets-0.7.2/shinyWidgets/R/input-airDatepicker.R | 33 +- shinyWidgets-0.7.2/shinyWidgets/R/input-circlebutton.R | 2 shinyWidgets-0.7.2/shinyWidgets/R/input-dropdown.R | 4 shinyWidgets-0.7.2/shinyWidgets/R/input-icon.R | 2 shinyWidgets-0.7.2/shinyWidgets/R/input-noUiSlider.R | 41 ++- shinyWidgets-0.7.2/shinyWidgets/R/input-search.R | 8 shinyWidgets-0.7.2/shinyWidgets/R/module-pickerGroup.R | 2 shinyWidgets-0.7.2/shinyWidgets/R/module-selectizeGroup.R | 4 shinyWidgets-0.7.2/shinyWidgets/R/onLoad.R | 7 shinyWidgets-0.7.2/shinyWidgets/R/sw-dropdown.R | 4 shinyWidgets-0.7.2/shinyWidgets/R/useShinydashboard.R | 4 shinyWidgets-0.7.2/shinyWidgets/R/useShinydashboardPlus.R | 2 shinyWidgets-0.7.2/shinyWidgets/R/vertical-tab.R | 2 shinyWidgets-0.7.2/shinyWidgets/README.md | 2 shinyWidgets-0.7.2/shinyWidgets/inst/assets/nouislider/nouislider-bindings.js | 6 shinyWidgets-0.7.2/shinyWidgets/inst/assets/shinyWidgets-bindings.min.js | 2 shinyWidgets-0.7.2/shinyWidgets/inst/assets/tools.R | 3 shinyWidgets-0.7.2/shinyWidgets/inst/assets/utils.js |only shinyWidgets-0.7.2/shinyWidgets/inst/examples/airDatepicker/datepicker/app.R | 28 +- shinyWidgets-0.7.2/shinyWidgets/inst/examples/checkboxGroupButtons/ui.R | 2 shinyWidgets-0.7.2/shinyWidgets/inst/examples/dropdown/ex-sw-dropdown.R | 2 shinyWidgets-0.7.2/shinyWidgets/inst/examples/radioGroupButtons/ui.R | 2 shinyWidgets-0.7.2/shinyWidgets/inst/examples/shinyWidgets/code_dropdown.R | 2 shinyWidgets-0.7.2/shinyWidgets/inst/examples/shinyWidgets/code_dropdownButton.R | 2 shinyWidgets-0.7.2/shinyWidgets/inst/examples/shinyWidgets/ui.R | 30 +- shinyWidgets-0.7.2/shinyWidgets/inst/packer/air-datepicker.js |only shinyWidgets-0.7.2/shinyWidgets/man/actionGroupButtons.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/airDatepicker.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/animateOptions.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/checkboxGroupButtons.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/circleButton.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/colorSelectorInput.Rd | 6 shinyWidgets-0.7.2/shinyWidgets/man/dropdown.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/dropdownButton.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/noUiSliderInput.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/prettyToggle.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/radioGroupButtons.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/searchInput.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/show_toast.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/stati-card.Rd | 10 shinyWidgets-0.7.2/shinyWidgets/man/sweetalert.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/textInputIcon.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/toggleDropdownButton.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/updateCheckboxGroupButtons.Rd | 12 shinyWidgets-0.7.2/shinyWidgets/man/updateNoUiSliderInput.Rd | 8 shinyWidgets-0.7.2/shinyWidgets/man/updatePrettyCheckboxGroup.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/updatePrettyRadioButtons.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/updateRadioGroupButtons.Rd | 11 shinyWidgets-0.7.2/shinyWidgets/man/updateSearchInput.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/updateTextInputIcon.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/updateVerticalTabsetPanel.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/useShinydashboard.Rd | 4 shinyWidgets-0.7.2/shinyWidgets/man/useShinydashboardPlus.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/useSweetAlert.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/man/vertical-tab.Rd | 2 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-airdatepicker.R | 3 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-bsplus.R | 4 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-checkboxGroupButtons.R | 10 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-dropdown.R | 4 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-dropdownButton.R | 4 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-input-icon.R | 4 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-radioGroupButtons.R | 10 shinyWidgets-0.7.2/shinyWidgets/tests/testthat/test-vertical-tab.R | 4 69 files changed, 286 insertions(+), 248 deletions(-)
Title: Create 'Ascii' Screen Casts from R Scripts
Description: Record 'asciicast' screen casts from R scripts. Convert them
to animated SVG images, to be used in 'README' files, or blog posts.
Includes 'asciinema-player' as an 'HTML' widget, and an 'asciicast'
'knitr' engine, to embed 'ascii' screen casts in 'Rmarkdown' documents.
Author: Gabor Csardi [aut, cre],
Romain Francois [aut],
Mario Nebl [aut] ,
Marcin Kulik [aut]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between asciicast versions 2.0.0 dated 2022-07-14 and 2.1.0 dated 2022-08-07
asciicast-2.0.0/asciicast/src/Makevars |only asciicast-2.1.0/asciicast/DESCRIPTION | 11 asciicast-2.1.0/asciicast/MD5 | 75 +- asciicast-2.1.0/asciicast/NAMESPACE | 1 asciicast-2.1.0/asciicast/NEWS.md | 10 asciicast-2.1.0/asciicast/R/embed.R | 87 ++- asciicast-2.1.0/asciicast/R/errors.R | 17 asciicast-2.1.0/asciicast/R/frames.R | 6 asciicast-2.1.0/asciicast/R/html.R |only asciicast-2.1.0/asciicast/R/knitr.R | 61 ++ asciicast-2.1.0/asciicast/R/svg.R | 17 asciicast-2.1.0/asciicast/README.md | 6 asciicast-2.1.0/asciicast/configure |only asciicast-2.1.0/asciicast/configure.win |only asciicast-2.1.0/asciicast/man/figures/README-/unnamed-chunk-3.svg | 2 asciicast-2.1.0/asciicast/man/figures/README-/unnamed-chunk-5.svg | 2 asciicast-2.1.0/asciicast/man/figures/README-/unnamed-chunk-7.svg | 2 asciicast-2.1.0/asciicast/man/load_frames.Rd | 6 asciicast-2.1.0/asciicast/man/write_html.Rd |only asciicast-2.1.0/asciicast/man/write_svg.Rd | 2 asciicast-2.1.0/asciicast/src/Makevars.in |only asciicast-2.1.0/asciicast/src/asciicast.h |only asciicast-2.1.0/asciicast/src/client.c |only asciicast-2.1.0/asciicast/src/common.c |only asciicast-2.1.0/asciicast/src/install.libs.R | 6 asciicast-2.1.0/asciicast/src/r.c | 254 ---------- asciicast-2.1.0/asciicast/tests/testthat.R | 4 asciicast-2.1.0/asciicast/tests/testthat/_snaps/knitr/1-cpp11-mean.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/knitr/1-letters.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/knitr/3-echo.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/knitr/3-header.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/knitr/5-process.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/merge/merge-1.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/merge/merge-2.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/merge/merge-3.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/svg/hello.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/svg/hello1.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/_snaps/svg/hello2.svg | 2 asciicast-2.1.0/asciicast/tests/testthat/fixtures/test-1.Rmd | 3 asciicast-2.1.0/asciicast/tests/testthat/fixtures/test-4.Rmd | 6 asciicast-2.1.0/asciicast/tests/testthat/test-asciicast.R | 5 asciicast-2.1.0/asciicast/tests/testthat/test-embed.R | 10 asciicast-2.1.0/asciicast/tests/testthat/test-src-c.R | 3 43 files changed, 264 insertions(+), 354 deletions(-)
Title: Spatial Network Autocorrelation for Flow Data
Description: Identify statistically significant flow clusters using the local spatial network autocorrelation statistic G_ij*
proposed by 'Berglund' and 'Karlström' (1999) <doi:10.1007/s101090050013>.
The metric, an extended statistic of 'Getis/Ord' G ('Getis' and 'Ord' 1992) <doi:10.1111/j.1538-4632.1992.tb00261.x>,
detects a group of flows having similar traits in terms of directionality.
You provide OD data and the associated polygon to get results
with several parameters, some of which are defined by spdep package.
Author: Youngbin Lee [aut, cre] ,
Hui Jeong Ha [aut] ,
Sohyun Park [aut] ,
Kyusik Kim [aut] ,
Jinhyung Lee [aut]
Maintainer: Youngbin Lee <youngbin@snu.ac.kr>
Diff between spnaf versions 0.1.0 dated 2022-03-23 and 0.2.0 dated 2022-08-07
DESCRIPTION | 10 +++---- MD5 | 26 ++++++++++---------- NAMESPACE | 1 R/Boot.R | 11 ++++++-- R/Gij.polygon.R | 13 +++++----- R/Gstat.R | 46 ++++++++++++++++++++++++++---------- R/Resultlines.R | 4 +++ R/SpatialWeight.R | 41 ++++++++++++++++++++++++-------- README.md | 5 +-- inst/doc/Introduction_to_spnaf.R | 2 - inst/doc/Introduction_to_spnaf.Rmd | 2 - inst/doc/Introduction_to_spnaf.html | 39 ++++++++++++++++++------------ man/Gij.polygon.Rd | 6 ++-- vignettes/Introduction_to_spnaf.Rmd | 2 - 14 files changed, 134 insertions(+), 74 deletions(-)
Title: Snow Profile Alignment, Aggregation, and Clustering
Description: Snow profiles describe the vertical (1D) stratigraphy of layered
snow with different layer characteristics, such as grain type, hardness,
deposition date, and many more. Hence, they represent a data format similar
to multivariate time series containing categorical, ordinal, and numerical
data types. Use this package to align snow profiles by matching their
individual layers based on Dynamic Time Warping (DTW). The aligned profiles
can then be assessed with an independent, global similarity measure that is
geared towards avalanche hazard assessment. Finally, through exploiting data
aggregation and clustering methods, the similarity measure provides the
foundation for grouping and summarizing snow profiles according to similar
hazard conditions. In particular, this package allows for averaging large
numbers of snow profiles with DTW Barycenter Averaging and thereby
facilitates the computation of individual layer distributions and summary
statistics that are relevant for avalanche forecasting purposes.
For more background information refer to Herla, Horton, Mair,
and Haegeli (2021) <doi:10.5194/gmd-14-239-2021>, and Herla, Mair, and Haegeli
(2022) <doi:10.5194/tc-16-3149-2022>.
Author: Florian Herla [aut, cre],
Pascal Haegeli [aut],
Simon Horton [aut],
Paul Billecocq [aut],
SFU Avalanche Research Program [fnd]
Maintainer: Florian Herla <fherla@sfu.ca>
Diff between sarp.snowprofile.alignment versions 1.1.4 dated 2022-02-10 and 1.2.1 dated 2022-08-07
DESCRIPTION | 17 - MD5 | 75 +++-- NAMESPACE | 1 NEWS.md | 13 R/averageSP.R | 60 +++- R/averageSPalongSeason.R | 90 ++++-- R/backtrackLayers.R | 12 R/data-SPgroup2.R |only R/data-SPspacetime.R |only R/dbaSP.R | 37 ++ R/distMatSP.R | 22 + R/dtwSP.R | 7 R/interactiveAlignment.R | 233 ++++++++-------- R/medoidSP.R | 12 R/sarp.snowprofile.alignment-package.R | 2 R/simSP.R | 103 ++++--- R/utils.R | 44 +++ R/warpSP.R | 9 build/vignette.rds |binary data/SPgroup2.rda |only data/SPspacetime.rda |only inst/CITATION | 9 inst/doc/averaging.R |only inst/doc/averaging.Rmd |only inst/doc/averaging.html |only inst/doc/technical-details.Rmd | 2 inst/doc/technical-details.html | 329 +++++++++++++++++++++--- inst/doc/workflow.Rmd | 4 inst/doc/workflow.html | 302 ++++++++++++++++++++-- man/SPgroup2.Rd |only man/SPspacetime.Rd |only man/averageSP.Rd | 54 +++ man/averageSPalongSeason.Rd | 48 ++- man/backtrackLayers.Rd | 2 man/densityDistance.Rd |only man/distMatSP.Rd | 2 man/dtwSP.Rd | 3 man/ogsDistance.Rd |only man/sarp.snowprofile.alignment-package.Rd | 5 man/simSP.Rd | 7 man/warpSP.Rd | 3 vignettes/averaging.Rmd |only vignettes/figures/averageSPseason_stability.png |only vignettes/technical-details.Rmd | 2 vignettes/workflow.Rmd | 4 45 files changed, 1160 insertions(+), 353 deletions(-)
More information about sarp.snowprofile.alignment at CRAN
Permanent link
Title: R API Serialization
Description: Access to the internal R serialization code is provided for
use by other packages at the C function level by using the registration of
native function mechanism. Client packages simply include a single header
file RApiSerializeAPI.h provided by this package. This packages builds on
the Rhpc package by Ei-ji Nakama and Junji Nakano which also includes a
(partial) copy of the file src/main/serialize.c from R itself. The R Core
group is the original author of the serialization code made available by
this package.
Author: Dirk Eddelbuettel, Ei-ji Nakama, Junji Nakano, and R Core
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RApiSerialize versions 0.1.0 dated 2014-04-19 and 0.1.1 dated 2022-08-07
ChangeLog | 69 +++++++++++++++++++++++++++++++++++++++- DESCRIPTION | 33 +++++++++---------- MD5 | 24 ++++++------- NAMESPACE | 5 +- R/serialization.R | 10 ++--- README.md | 28 +++++++++------- inst/NEWS.Rd | 10 +++++ inst/include/RApiSerializeAPI.h | 8 ++-- man/RApiSerialize-package.Rd | 5 +- src/init.c | 8 ++-- src/serialize.cpp | 35 ++++++++++++++++---- tests/simpleTests.R | 4 ++ tests/simpleTests.Rout.save | 16 ++++++--- 13 files changed, 187 insertions(+), 68 deletions(-)
Title: A Package for Importing Data from Our World in Data
Description: Imports data from the Our World in Data website, offering easy to use functions for searching for datasets, downloading them into R and visualising them.
Author: Piers York
Maintainer: Piers York <piersyork@gmail.com>
Diff between owidR versions 1.3.0 dated 2022-07-14 and 1.3.1 dated 2022-08-07
DESCRIPTION | 8 +- MD5 | 28 +++++----- NEWS.md | 3 + R/owid.R | 40 ++++++-------- R/owid_map.R | 41 +++++++------- R/owid_plot.R | 43 ++++++++------- R/theme_owid.R | 53 ++++++++++--------- R/utils.R | 22 ++++--- README.md | 74 +++++++++++++------------- build/vignette.rds |binary inst/doc/example-analysis.html | 114 ++++++++++++++++++++--------------------- man/owid.Rd | 1 man/owid_plot.Rd | 6 +- man/scale_owid.Rd | 1 tests/testthat/test-owid.R | 4 - 15 files changed, 227 insertions(+), 211 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is easier to use, and it is faster.
Author: Robert J. Hijmans [cre, aut] ,
Roger Bivand [ctb] ,
Karl Forner [ctb],
Jeroen Ooms [ctb] ,
Edzer Pebesma [ctb] ,
Michael D. Sumner [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.6-3 dated 2022-07-25 and 1.6-7 dated 2022-08-07
DESCRIPTION | 8 +- MD5 | 108 ++++++++++++++++---------------- NAMESPACE | 2 NEWS.md | 39 ++++++++--- R/Agenerics.R | 4 + R/aggregate.R | 2 R/coerce.R | 4 - R/crosstab.R | 2 R/crs.R | 2 R/extract.R | 113 +++++++++++++++++++-------------- R/focal.R | 4 - R/gdal.R | 1 R/generics.R | 17 ++--- R/ncdf.R | 2 R/plot_let.R | 46 ++++++++----- R/plot_raster.R | 53 +++++++++++---- R/predict.R | 77 +++++++++++++---------- R/rasterize.R | 4 - R/replace.R | 13 ++- R/sample.R | 2 R/show.R | 25 ++++++- R/tapp.R | 4 - R/tiles.R | 6 - R/values.R | 71 ++++++++++++++------- R/vect.R | 20 +++--- R/write.R | 6 - R/zonal.R | 2 inst/tinytest/test_extract.R | 20 +++++- man/crs.Rd | 3 man/expanse.Rd | 17 ++++- man/extract.Rd | 26 ++----- man/gridDistance.Rd | 2 man/plet.Rd | 10 +-- man/plot.Rd | 10 +-- man/predict.Rd | 9 +- man/readwrite.Rd | 16 +++- man/subst.Rd | 2 man/vrt.Rd | 15 ++-- src/crs.cpp | 39 ++++------- src/distRaster.cpp | 143 +++++++++++++++++++++++++++++++------------ src/extract.cpp | 33 +++++++-- src/gdal_algs.cpp | 8 +- src/gdalio.cpp | 30 ++++++++- src/geos_methods.cpp | 8 ++ src/geos_spat.h | 8 ++ src/math_utils.h | 25 ------- src/raster_methods.cpp | 57 ++++++++++------- src/raster_stats.cpp | 7 +- src/rasterize.cpp | 76 ++++++++++++++++++---- src/sample.cpp | 5 + src/spatBase.cpp | 8 +- src/spatRaster.cpp | 4 - src/spatRaster.h | 8 +- src/write.cpp | 8 +- src/write_gdal.cpp | 68 ++++++++++++++++++-- 55 files changed, 839 insertions(+), 463 deletions(-)
Title: SPArse Matrix
Description: Set of functions for sparse matrix algebra.
Differences with other sparse matrix packages are:
(1) we only support (essentially) one sparse matrix format,
(2) based on transparent and simple structure(s),
(3) tailored for MCMC calculations within G(M)RF.
(4) and it is fast and scalable (with the extension package spam64).
Documentation about 'spam' is provided by vignettes included in this package, see also Furrer and Sain (2010) <doi:10.18637/jss.v036.i10>; see 'citation("spam")' for details.
Author: Reinhard Furrer [aut, cre] ,
Florian Gerber [aut] ,
Roman Flury [aut] ,
Daniel Gerber [ctb],
Kaspar Moesinger [ctb],
Youcef Saad [ctb] ,
Esmond G. Ng [ctb] ,
Barry W. Peyton [ctb] ,
Joseph W.H. Liu [ctb] ,
Alan D. George [ctb] ,
Lehoucq B. Rich [ctb] [...truncated...]
Maintainer: Reinhard Furrer <reinhard.furrer@math.uzh.ch>
Diff between spam versions 2.9-0 dated 2022-07-11 and 2.9-1 dated 2022-08-07
DESCRIPTION | 8 +++--- MD5 | 32 +++++++++++++-------------- NEWS.md | 8 ++++++ inst/CITATION | 4 +-- inst/doc/spam.pdf |binary man/ordering.Rd | 7 +++--- man/spam.Rd | 2 + tests/Examples/spam-Ex.Rout.save | 36 ++++++++++++++++++------------- tests/demo_cholesky.Rout.save | 6 ++--- tests/demo_jss10-example1.Rout.save | 6 ++--- tests/demo_jss10-figures-table.Rout.save | 6 ++--- tests/demo_jss15-BYM.Rout.save | 6 ++--- tests/demo_jss15-Leroux.Rout.save | 6 ++--- tests/demo_spam.Rout.save | 6 ++--- tests/demo_timing.Rout.save | 6 ++--- tests/jss_areal_counts.Rout.save | 6 ++--- tests/testthat.Rout.save | 6 ++--- 17 files changed, 84 insertions(+), 67 deletions(-)
Title: Robust Linear Mixed Effects Models
Description: Implements the Robust Scoring Equations estimator to fit linear
mixed effects models robustly.
Robustness is achieved by modification of the scoring equations
combined with the Design Adaptive Scale approach.
Includes some references to the archived packages 'robustvarComp' and 'heavy'.
Both packages are only needed to reproduce a simulation
study and are not required for the running of the regular package
functions. You can install both packages by downloading the latest
version from the CRAN archive.
Author: Manuel Koller
Maintainer: Manuel Koller <kollerma@proton.me>
Diff between robustlmm versions 2.5-1 dated 2022-03-22 and 3.0-1 dated 2022-08-07
DESCRIPTION | 36 +- MD5 | 158 ++++++++--- NAMESPACE | 70 ++++ R/AllClass.R | 51 +-- R/AllGeneric.R | 11 R/DAS-scale.R | 29 -- R/accessors.R | 25 - R/asymptoticEfficiency.R |only R/fitDatasets.R |only R/generateAnovaDatasets.R |only R/generateMixedEffectDatasets.R |only R/generateSensitivityCurveDatasets.R |only R/helpers.R | 76 ++--- R/lmer.R | 8 R/manageDatasets.R |only R/plot.R | 31 -- R/processFile.R |only R/processFit.R |only R/psiFunc2.R | 85 +++-- R/rlmer.R | 458 ++++++++++++++++++-------------- R/simulationStudies.R |only README.md | 2 build/vignette.rds |binary inst/doc/Penicillin.R | 2 inst/doc/rlmer.R | 8 inst/doc/rlmer.Rnw | 25 + inst/doc/rlmer.pdf |binary inst/doc/simulationStudies.R |only inst/doc/simulationStudies.Rnw |only inst/doc/simulationStudies.pdf |only inst/simulationStudy |only man/asymptoticEfficiency.Rd |only man/bindDatasets.Rd |only man/chgDefaults.Rd | 4 man/compare.Rd | 30 -- man/createDatasetsFromList.Rd |only man/createRhoFunction.Rd |only man/extractTuningParameter.Rd |only man/fitDatasets.Rd |only man/generateAnovaDatasets.Rd |only man/generateMixedEffectDatasets.Rd |only man/generateSensitivityCurveDatasets.Rd |only man/lapplyDatasets.Rd |only man/loadAndMergePartialResults.Rd |only man/mergeProcessedFits.Rd |only man/partialMoment_standardNormal.Rd |only man/plot.rlmerMod.Rd | 31 -- man/prepareMixedEffectDataset.Rd |only man/processDatasetsInParallel.Rd |only man/processFile.Rd |only man/processFit.Rd |only man/psi-functions.Rd | 49 +-- man/psi2propII.Rd | 16 - man/residuals.rlmerMod.Rd | 10 man/rlmer.Rd | 354 +++++++++++++----------- man/rlmerMod-class.Rd | 27 - man/robustlmm-package.Rd | 15 - man/saveDatasets.Rd |only man/shortenLabelsKS2022.Rd |only man/splitDatasets.Rd |only man/viewCopyOfSimulationStudy.Rd |only src/PsiFunction.cpp | 2 tests/DASvar-fallback.R |only tests/PsiFunction.R | 4 tests/asymptoticEfficiency.R |only tests/compare-methods.R | 4 tests/compare-methods.Rout.save | 52 +-- tests/fitDatasets.R |only tests/getME.Rout.save | 12 tests/multipleGroupingFactorsTestData.R | 4 tests/simulationStudies.R |only vignettes/rlmer.Rnw | 25 + vignettes/simulationStudies.Rnw |only vignettes/simulationStudies.bib |only 74 files changed, 996 insertions(+), 718 deletions(-)
Title: Analyses of Protein Post-Translational Modifications
Description: Contains utilities for the analysis of post-translational modifications (PTMs) in proteins,
with particular emphasis on the sulfoxidation of methionine residues. Features include the ability to download,
filter and analyze data from the sulfoxidation database 'MetOSite', and integrate data from other main PTMs
(other databases). Utilities to search and characterize S-aromatic motifs in proteins are also provided.
In addition, functions to analyze sequence environments around modifiable residues in proteins can be found.
For instance, 'ptm' allows to search for amino acids either overrepresented or avoided around the modifiable
residues from the proteins of interest. Functions tailored to test statistical hypothesis related to
these differential sequence environments are also implemented. A number of utilities to assess the effect
of the modification/mutation of a given residue on the protein stability, have also been included in this package.
Further and detailed information regarding the methods in this package can be found in (Aledo (2020) <https://metositeptm.com>).
Author: Juan Carlos Aledo [aut, cre]
Maintainer: Juan Carlos Aledo <caledo@uma.es>
Diff between ptm versions 0.2.5 dated 2022-02-14 and 0.2.6 dated 2022-08-07
ptm-0.2.5/ptm/man/compute.dssp.Rd |only ptm-0.2.5/ptm/tests/testthat/split_chain |only ptm-0.2.6/ptm/DESCRIPTION | 8 ptm-0.2.6/ptm/MD5 | 48 +---- ptm-0.2.6/ptm/NAMESPACE | 4 ptm-0.2.6/ptm/NEWS.md |only ptm-0.2.6/ptm/R/accdpx.R | 166 +------------------ ptm-0.2.6/ptm/R/getseq.R | 241 +++++++++++++++++++--------- ptm-0.2.6/ptm/R/go.R | 136 +++++++-------- ptm-0.2.6/ptm/man/get.go.Rd | 7 ptm-0.2.6/ptm/man/id.features.Rd | 4 ptm-0.2.6/ptm/tests/testthat/Rplots.pdf |binary ptm-0.2.6/ptm/tests/testthat/test_accdpx.R | 37 ---- ptm-0.2.6/ptm/tests/testthat/test_getseq.R | 8 ptm-0.2.6/ptm/tests/testthat/test_go.R | 34 +-- ptm-0.2.6/ptm/tests/testthat/test_ptmScan.R | 44 ++++- 16 files changed, 328 insertions(+), 409 deletions(-)
Title: Classes and Methods for Lagged Objects
Description: Provides classes and methods for objects, whose indexing
naturally starts from zero. Subsetting, indexing and mathematical
operations are defined naturally between lagged objects and lagged
and base R objects. Recycling is not used, except for singletons.
The single bracket operator doesn't drop dimensions by default.
Author: Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between lagged versions 0.3-1 dated 2021-12-05 and 0.3.2 dated 2022-08-07
DESCRIPTION | 18 +++++++++++------- MD5 | 20 ++++++++++---------- NEWS.md | 10 ++++++++-- README.md | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/Guide_lagged.pdf |binary man/Lagged.Rd | 24 ++++++++++++++++++++++++ man/fill.slMatrix-methods.Rd | 2 +- man/nSeasons.Rd | 20 ++++++++++++++------ man/sl2acfbase.Rd | 2 +- 11 files changed, 70 insertions(+), 28 deletions(-)
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to easily manipulate, clean, transform,
and prepare your data for analysis. It also forms the data wrangling
backend for the packages in the 'easystats' ecosystem.
Author: Indrajeet Patil [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Etienne Bacher [aut]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between datawizard versions 0.4.1 dated 2022-05-16 and 0.5.0 dated 2022-08-07
datawizard-0.4.1/datawizard/R/data_cut.R |only datawizard-0.4.1/datawizard/R/data_recode.R |only datawizard-0.4.1/datawizard/R/data_shift.R |only datawizard-0.4.1/datawizard/R/data_to_factor.R |only datawizard-0.4.1/datawizard/R/data_to_numeric.R |only datawizard-0.4.1/datawizard/man/data_cut.Rd |only datawizard-0.4.1/datawizard/man/data_recode.Rd |only datawizard-0.4.1/datawizard/man/data_rescale.Rd |only datawizard-0.4.1/datawizard/man/data_reverse.Rd |only datawizard-0.4.1/datawizard/man/data_shift.Rd |only datawizard-0.4.1/datawizard/man/data_to_factor.Rd |only datawizard-0.4.1/datawizard/man/data_to_numeric.Rd |only datawizard-0.4.1/datawizard/tests/spelling.R |only datawizard-0.4.1/datawizard/tests/testthat/_snaps/convert_data_to_numeric.md |only datawizard-0.4.1/datawizard/tests/testthat/test-data_findcols.R |only datawizard-0.4.1/datawizard/tests/testthat/test-extract.R |only datawizard-0.5.0/datawizard/DESCRIPTION | 39 datawizard-0.5.0/datawizard/MD5 | 230 +-- datawizard-0.5.0/datawizard/NAMESPACE | 90 - datawizard-0.5.0/datawizard/NEWS.md | 159 +- datawizard-0.5.0/datawizard/R/adjust.R | 5 datawizard-0.5.0/datawizard/R/backports.R | 10 datawizard-0.5.0/datawizard/R/categorize.R |only datawizard-0.5.0/datawizard/R/center.R | 9 datawizard-0.5.0/datawizard/R/change_code.R |only datawizard-0.5.0/datawizard/R/convert_na_to.R | 8 datawizard-0.5.0/datawizard/R/data_extract.R | 25 datawizard-0.5.0/datawizard/R/data_find.R | 100 - datawizard-0.5.0/datawizard/R/data_merge.R | 1 datawizard-0.5.0/datawizard/R/data_partition.R | 175 +- datawizard-0.5.0/datawizard/R/data_relocate.R | 1 datawizard-0.5.0/datawizard/R/data_remove.R | 1 datawizard-0.5.0/datawizard/R/data_rename.R | 9 datawizard-0.5.0/datawizard/R/data_rescale.R | 81 - datawizard-0.5.0/datawizard/R/data_reshape.R | 442 +++++- datawizard-0.5.0/datawizard/R/data_restoretype.R | 29 datawizard-0.5.0/datawizard/R/data_reverse.R | 72 - datawizard-0.5.0/datawizard/R/data_tabulate.R | 14 datawizard-0.5.0/datawizard/R/demean.R | 1 datawizard-0.5.0/datawizard/R/describe_distribution.R | 6 datawizard-0.5.0/datawizard/R/format_text.R | 43 datawizard-0.5.0/datawizard/R/normalize.R | 37 datawizard-0.5.0/datawizard/R/ranktransform.R | 2 datawizard-0.5.0/datawizard/R/replace_nan_inf.R | 2 datawizard-0.5.0/datawizard/R/reshape_ci.R | 3 datawizard-0.5.0/datawizard/R/slide.R |only datawizard-0.5.0/datawizard/R/standardize.R | 3 datawizard-0.5.0/datawizard/R/standardize.models.R | 4 datawizard-0.5.0/datawizard/R/to_factor.R |only datawizard-0.5.0/datawizard/R/to_numeric.R |only datawizard-0.5.0/datawizard/R/unnormalize.R | 8 datawizard-0.5.0/datawizard/R/utils.R | 20 datawizard-0.5.0/datawizard/R/utils_data.R | 103 + datawizard-0.5.0/datawizard/R/utils_standardize_center.R | 17 datawizard-0.5.0/datawizard/R/visualisation_recipe.R | 5 datawizard-0.5.0/datawizard/R/winsorize.R | 100 + datawizard-0.5.0/datawizard/README.md | 66 - 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Title: An Implementation of Ordinal Pattern Analysis
Description: Quantifies hypothesis to data fit for repeated measures
and longitudinal data, as described by Thorngate (1987)
<doi:10.1016/S0166-4115(08)60083-7> and Grice et al., (2015)
<doi:10.1177/2158244015604192>. Hypothesis and data are encoded as
pairwise relative orderings which are then compared to determine the
percentage of orderings in the data that are matched by the hypothesis.
Author: Timothy Beechey [aut, cre]
Maintainer: Timothy Beechey <tim.beechey@proton.me>
Diff between opa versions 0.4.3 dated 2022-07-11 and 0.5.2 dated 2022-08-07
DESCRIPTION | 14 - MD5 | 32 ++- NAMESPACE | 15 + R/calculate_cvalues.R | 32 +-- R/calculate_pccs.R | 2 R/condition_comparison.R | 4 R/opa-package.R | 20 ++ R/utility.R | 255 +++++++++++++++++++++---------- README.md | 151 ++++++++++-------- man/cval_plot.Rd |only man/figures/README-plot_hypothesis-1.png |binary man/figures/README-plot_opamod1-1.png |binary man/figures/README-plot_opamod2-1.png |binary man/figures/README-threshold_plots-1.png |only man/figures/README-threshold_plots-2.png |only man/pcc_plot.Rd |only man/pcc_threshold_plot.Rd | 2 man/plot.opafit.Rd | 8 man/plot_hypothesis.Rd | 6 19 files changed, 356 insertions(+), 185 deletions(-)
Title: Solve Systems of Nonlinear Equations
Description: Solve a system of nonlinear equations using a Broyden or a Newton method
with a choice of global strategies such as line search and trust region.
There are options for using a numerical or user supplied Jacobian,
for specifying a banded numerical Jacobian and for allowing
a singular or ill-conditioned Jacobian.
Author: Berend Hasselman
Maintainer: Berend Hasselman <bhh@xs4all.nl>
Diff between nleqslv versions 3.3.2 dated 2018-05-17 and 3.3.3 dated 2022-08-07
nleqslv-3.3.2/nleqslv/inst/iterationreport/dsdbldog.Rout.txt |only nleqslv-3.3.2/nleqslv/inst/iterationreport/dshook.Rout.txt |only nleqslv-3.3.2/nleqslv/inst/iterationreport/dslnsrch.Rout.txt |only nleqslv-3.3.2/nleqslv/inst/iterationreport/dspure.Rout.txt |only nleqslv-3.3.2/nleqslv/inst/iterationreport/dspwldog.Rout.txt |only nleqslv-3.3.3/nleqslv/DESCRIPTION | 8 +++--- nleqslv-3.3.3/nleqslv/MD5 | 13 +++-------- nleqslv-3.3.3/nleqslv/NEWS | 9 +++++-- nleqslv-3.3.3/nleqslv/build/partial.rdb |binary nleqslv-3.3.3/nleqslv/man/nleqslv.Rd | 4 +-- 10 files changed, 17 insertions(+), 17 deletions(-)
Title: Directional Penalties for Optimal Matching in Observational
Studies
Description: Improves the balance of optimal matching with near-fine balance by giving penalties on the unbalanced covariates with the unbalanced directions. Many directional penalties can also be viewed as Lagrange multipliers, pushing a matched sample in the direction of satisfying a linear constraint that would not be satisfied without penalization.
Yu and Rosenbaum (2019) <doi:10.1111/biom.13098>.
Author: Ruoqi Yu
Maintainer: Ruoqi Yu <ruoqiyu125@gmail.com>
Diff between DiPs versions 0.6.3 dated 2022-05-31 and 0.6.4 dated 2022-08-07
DESCRIPTION | 17 ++-- MD5 | 4 R/match.R | 252 +++++++++++++++++++++++++++++++++--------------------------- 3 files changed, 152 insertions(+), 121 deletions(-)
Title: Dimensional Data Frames
Description: Provides a 'dibble' that implements data cubes (derived from
'dimensional tibble'), and allows broadcasting by dimensional names.
Author: Mizuki Uchida [aut, cre]
Maintainer: Mizuki Uchida <uchidamizuki@vivaldi.net>
Diff between dibble versions 0.2.0 dated 2022-05-29 and 0.2.1 dated 2022-08-07
DESCRIPTION | 8 +-- MD5 | 20 ++++---- NEWS.md | 6 ++ R/broadcast.R | 90 +++++++++++++++++++--------------------- R/dibble.R | 16 ++++--- R/matrix.R | 48 +++++++-------------- R/utils.R | 6 +- R/zzz.R | 2 man/grapes-times-grapes.Rd | 55 ++++++++++++------------ tests/testthat/test-broadcast.R | 28 ++++++++++++ tests/testthat/test-matrix.R | 29 ++---------- 11 files changed, 156 insertions(+), 152 deletions(-)
Title: Biological Geometries
Description: Is used to simulate and fit biological geometries. 'biogeom' incorporates several novel universal parametric equations that can generate the profiles of bird eggs, flowers, linear and lanceolate leaves, seeds, starfish, and tree-rings (Gielis (2003) <doi:10.3732/ajb.90.3.333>; Shi et al. (2020) <doi:10.3390/sym12040645>), three growth-rate curves representing the ontogenetic growth trajectories of animals and plants against time, and the axially symmetrical and integral forms of all these functions (Shi et al. (2017) <doi:10.1016/j.ecolmodel.2017.01.012>; Shi et al. (2021) <doi:10.3390/sym13081524>). The optimization method proposed by Nelder and Mead (1965) <doi:10.1093/comjnl/7.4.308> was used to estimate model parameters. 'biogeom' includes several real data sets of the boundary coordinates of natural shapes, including avian eggs, fruit, lanceolate and ovate leaves, tree rings, seeds, and sea stars,and can be potentially applied to other natural shapes. 'biogeom' can quantify the conspecific or interspecific similarity of natural outlines, and provides information with important ecological and evolutionary implications for the growth and form of living organisms. Please see Shi et al. (2022) <doi:10.1111/nyas.14862> for details.
Author: Peijian Shi [aut, cre],
Johan Gielis [aut],
Brady K. Quinn [aut]
Maintainer: Peijian Shi <pjshi@njfu.edu.cn>
Diff between biogeom versions 1.0.7 dated 2022-07-16 and 1.0.9 dated 2022-08-07
DESCRIPTION | 8 ++--- MD5 | 20 +++++++------ R/TSE.R |only R/fitNRGE.R | 82 ++++++++++++++++++++++++++---------------------------- R/lmPE.R |only build/partial.rdb |binary man/PE.Rd | 11 +++++-- man/TSE.Rd |only man/curvePE.Rd | 11 +++++-- man/fitGE.Rd | 37 +++++++++++++++++++++--- man/fitNRGE.Rd | 5 +-- man/fitPE.Rd | 25 +++++++++++++--- man/lmPE.Rd |only 13 files changed, 130 insertions(+), 69 deletions(-)
Title: Quantitative Structural Model ('QSM') Treatment for Tree
Architecture
Description: Provides a set of tools to make quantitative structural model of trees (i.e the so-called 'QSM') from LiDAR point cloud, to manipulate and visualize the QSMs as well as to compute metrics from them. It can be used in various context of forest ecology (i.e biomass estimation) and tree architecture (i.e architectural metrics), see Martin-Ducup et al. (2020) <doi:10.1111/1365-2435.13678>. The package is based on a new S4 class called 'aRchi'.
Author: Olivier Martin and Bastien Lecigne
Maintainer: Olivier Martin <oli.martin@ntymail.com>
Diff between aRchi versions 2.1.0 dated 2022-04-12 and 2.1.2 dated 2022-08-07
DESCRIPTION | 8 ++-- MD5 | 54 ++++++++++++++-------------- NAMESPACE | 1 NEWS | 9 ++++ R/BranchAngle.R | 2 - R/Compute_A0.R | 4 +- R/Compute_Mf.R | 2 - R/DAI.R | 2 - R/ForkRate.R | 2 - R/LeonardoRatio.R | 2 - R/Make_Node.R | 2 - R/Make_Path.R | 2 - R/PathFraction.R | 2 - R/SelectinQSM_3d.R | 2 - R/TreeBiomass.R | 2 - R/TreeVolume.R | 2 - R/Truncate_QSM.R | 17 +++++---- R/WBEparameters.R | 2 - R/WoodSurface.R | 2 - R/add_non_reconstructed.R | 2 - R/add_physiological_ages.R | 2 - R/clean_QSM.R | 2 - R/clean_point_cloud.R | 2 - R/plot.R | 6 +-- R/read_QSM.R | 60 ++++++++++++++++++++++++++++---- R/smooth_skeleton.R | 2 - README.md | 84 ++++++++++++++++++++++++++++++++++----------- man/read_QSM.Rd | 4 +- 28 files changed, 195 insertions(+), 88 deletions(-)
Title: Access Scottish Health and Social Care Open Data
Description: Allows potential users of Scottish Health and Social Care Open Data
(<https://www.opendata.nhs.scot/>) to easily explore and extract the
available data.
Author: James Hardy [aut, cre]
Maintainer: James Hardy <jrh-dev@protonmail.com>
Diff between odns versions 1.0.0 dated 2022-06-28 and 1.0.1 dated 2022-08-07
DESCRIPTION | 10 MD5 | 72 ++- NAMESPACE | 1 NEWS.md | 31 + R/all_packages.R | 43 +- R/all_resources.R | 82 ++-- R/cap_url.R | 6 R/detect_error.R |only R/get_data.R | 98 +++-- R/get_resource.R | 99 +++-- R/nrow_resource.R |only R/package_metadata.R | 2 R/prep_queries.R | 29 - R/resource_metadata.R | 2 README.md | 366 +++++++++++--------- inst/doc/using_odns.Rmd | 178 ++++++--- inst/doc/using_odns.html | 179 ++++++--- man/all_packages.Rd | 23 - man/all_resources.Rd | 5 man/detect_error.Rd |only man/get_data.Rd | 11 man/get_resource.Rd | 33 + man/nrow_resource.Rd |only man/prep_nosql_query.Rd | 4 man/prep_sql_query.Rd | 4 tests/testthat/test-all_packages.R | 16 tests/testthat/test-all_resources.R | 46 -- tests/testthat/test-detect_error.R |only tests/testthat/test-get_data.R | 172 ++++++--- tests/testthat/test-get_resource.R | 134 ++++++- tests/testthat/test-nrow_resource.R |only tests/testthat/test-prep_nosql_query.R | 49 +- tests/testthat/test-prep_sql_query.R | 59 --- tests/testthat/test-resource_metadata.R | 2 tests/testthat/test_data/get_data_test_1.rda |only tests/testthat/test_data/get_data_test_2.rda |only tests/testthat/test_data/get_data_test_3.rda |only tests/testthat/test_data/nrow_resource_test_dat.rda |only tests/testthat/test_data/pck_list_res.rda |binary tests/testthat/test_data/pck_list_res_filt.rda |only tests/testthat/test_data/pck_res.rda |binary tests/testthat/test_data/res_all_res.rda |only vignettes/using_odns.Rmd | 178 ++++++--- 43 files changed, 1233 insertions(+), 701 deletions(-)
Title: The Time Series Modeling Companion to 'healthyR'
Description: Hospital time series data analysis workflow tools, modeling, and automations.
This library provides many useful tools to review common administrative time
series hospital data. Some of these include average length of stay, and
readmission rates. The aim is to provide a simple and consistent verb
framework that takes the guesswork out of everything.
Author: Steven Sanderson [aut, cre],
Steven Sanderson [cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between healthyR.ts versions 0.2.1 dated 2022-07-19 and 0.2.2 dated 2022-08-07
healthyR.ts-0.2.1/healthyR.ts/R/time-helpers.R |only healthyR.ts-0.2.2/healthyR.ts/DESCRIPTION | 6 healthyR.ts-0.2.2/healthyR.ts/MD5 | 72 - healthyR.ts-0.2.2/healthyR.ts/NAMESPACE | 1 healthyR.ts-0.2.2/healthyR.ts/NEWS.md | 20 healthyR.ts-0.2.2/healthyR.ts/R/00_global_variables.R | 3 healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-autoarima-xgboost.R | 526 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-autoarima.R | 508 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-croston.R | 526 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-exp-smoothing.R | 534 +++++---- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-glmnet.R | 522 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-lm.R | 347 +++--- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-mars.R | 514 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-misc-functions.R | 70 - healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-nnetar.R | 526 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-prophet-reg.R | 528 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-prophet-xgboost.R | 540 +++++---- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-smooth-es.R | 542 +++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-svm-poly.R | 530 +++++---- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-svm-rbf.R | 528 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-theta.R | 332 +++--- healthyR.ts-0.2.2/healthyR.ts/R/boilerplate-xgboost.R | 516 ++++----- healthyR.ts-0.2.2/healthyR.ts/R/ts-lag-correlation.R | 2 healthyR.ts-0.2.2/healthyR.ts/R/ts-sma-plot.R | 288 ++--- healthyR.ts-0.2.2/healthyR.ts/R/utils-get-boilerplate-fit-wflw.R |only healthyR.ts-0.2.2/healthyR.ts/R/utils-tidy-eval.R | 99 - healthyR.ts-0.2.2/healthyR.ts/R/utils-time-helpers.R |only healthyR.ts-0.2.2/healthyR.ts/README.md | 12 healthyR.ts-0.2.2/healthyR.ts/inst/doc/getting-started.html | 30 healthyR.ts-0.2.2/healthyR.ts/inst/doc/using-tidy-fft.html | 42 healthyR.ts-0.2.2/healthyR.ts/man/assign_value.Rd | 4 healthyR.ts-0.2.2/healthyR.ts/man/figures/README-ts_random_walk_ggplot_layers-1.png |binary healthyR.ts-0.2.2/healthyR.ts/man/figures/README-unnamed-chunk-2-1.png |binary healthyR.ts-0.2.2/healthyR.ts/man/tidyeval.Rd | 1 healthyR.ts-0.2.2/healthyR.ts/man/ts_auto_lm.Rd | 14 healthyR.ts-0.2.2/healthyR.ts/man/ts_extract_auto_fitted_workflow.Rd |only healthyR.ts-0.2.2/healthyR.ts/man/ts_get_date_columns.Rd | 2 healthyR.ts-0.2.2/healthyR.ts/man/ts_is_date_class.Rd | 2 healthyR.ts-0.2.2/healthyR.ts/man/ts_sma_plot.Rd | 23 39 files changed, 4206 insertions(+), 4004 deletions(-)
Title: Transformation Models
Description: Formula-based user-interfaces to specific transformation models
implemented in package 'mlt'. Available models include Cox models, some parametric
survival models (Weibull, etc.), models for ordered categorical variables,
normal and non-normal (Box-Cox type) linear models, and continuous outcome logistic regression
(Lohse et al., 2017, <DOI:10.12688/f1000research.12934.1>). The underlying theory
is described in Hothorn et al. (2018) <DOI:10.1111/sjos.12291>. An extension to
transformation models for clustered data is provided (Barbanti and Hothorn, 2022, <arxiv:1910.09219>).
Multivariate conditional transformation models (Klein et al, 2022, <DOI:10.1111/sjos.12501>)
can be fitted as well.
Author: Torsten Hothorn [aut, cre] ,
Luisa Barbanti [aut] ,
Sandra Siegfried [aut] ,
Brian Ripley [ctb],
Bill Venables [ctb],
Douglas M. Bates [ctb],
Nadja Klein [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between tram versions 0.7-1 dated 2022-05-18 and 0.7-2 dated 2022-08-07
DESCRIPTION | 16 ++++++++++------ MD5 | 27 ++++++++++++++------------- R/models.R | 5 +++-- R/tram.R | 2 +- build/partial.rdb |binary build/vignette.rds |binary demo/00Index | 1 + demo/stram.R |only inst/NEWS.Rd | 9 +++++++++ inst/doc/mtram.pdf |binary inst/doc/tram.pdf |binary man/Polr.Rd | 2 +- man/tram-methods.Rd | 4 ++-- man/tram.Rd | 3 ++- vignettes/mtram-rendered.pdf |binary 15 files changed, 43 insertions(+), 26 deletions(-)
Title: Create Tidy Data Frames of Marginal Effects for 'ggplot' from
Model Outputs
Description: Compute marginal effects and adjusted predictions from statistical
models and returns the result as tidy data frames. These data frames are
ready to use with the 'ggplot2'-package. Effects and predictions can be
calculated for many different models. Interaction terms, splines and
polynomial terms are also supported. The main functions are ggpredict(),
ggemmeans() and ggeffect(). There is a generic plot()-method to plot the
results using 'ggplot2'.
Author: Daniel Luedecke [aut, cre] ,
Frederik Aust [ctb] ,
Sam Crawley [ctb] ,
Mattan S. Ben-Shachar [ctb]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between ggeffects versions 1.1.2 dated 2022-04-10 and 1.1.3 dated 2022-08-07
DESCRIPTION | 8 +- MD5 | 38 ++++++------ NEWS.md | 8 ++ R/get_predictions_glm.R | 17 ++++- R/plot.R | 14 ++-- R/simulate_predictions.R | 9 +- R/utils_get_data_grid.R | 19 +++++- R/utils_handle_labels.R | 5 + build/partial.rdb |binary build/vignette.rds |binary inst/doc/content.html | 4 - man/collapse_by_group.Rd | 86 +++++++++++++-------------- man/efc.Rd | 42 ++++++------- man/fish.Rd | 20 +++--- man/lung2.Rd | 24 +++---- man/new_data.Rd | 104 ++++++++++++++++----------------- man/pool_predictions.Rd | 78 ++++++++++++------------ man/vcov.Rd | 132 +++++++++++++++++++++--------------------- tests/testthat/test-lmer.R | 2 tests/testthat/test-logistf.R | 4 - 20 files changed, 327 insertions(+), 287 deletions(-)
Title: Simple Git Client for R
Description: Simple git client for R based on 'libgit2' <https://libgit2.org> with
support for SSH and HTTPS remotes. All functions in 'gert' use basic R data
types (such as vectors and data-frames) for their arguments and return values.
User credentials are shared with command line 'git' through the git-credential
store and ssh keys stored on disk or ssh-agent.
Author: Jeroen Ooms [aut, cre] ,
Jennifer Bryan [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between gert versions 1.6.0 dated 2022-03-29 and 1.7.0 dated 2022-08-07
DESCRIPTION | 8 +++--- MD5 | 26 ++++++++++----------- NEWS | 4 +++ R/commit.R | 13 +++++++--- build/vignette.rds |binary cleanup | 2 - configure | 7 +++-- inst/doc/gert.html | 53 +++++++++++++++++++++++++++++-------------- man/gert-package.Rd | 4 --- man/git_commit.Rd | 6 +++- src/files.c | 31 ++++++++++++++++++++----- src/init.c | 8 +++--- tests/testthat/test-clone.R | 2 - tests/testthat/test-commit.R | 10 ++++---- 14 files changed, 111 insertions(+), 63 deletions(-)
Title: Embedded JavaScript and WebAssembly Engine for R
Description: An R interface to V8: Google's open source JavaScript and WebAssembly
engine. This package can be compiled either with V8 version 6 and up or NodeJS
when built as a shared library.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between V8 versions 4.2.0 dated 2022-05-14 and 4.2.1 dated 2022-08-07
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS | 3 +++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/npm.html | 4 ++-- inst/doc/v8_intro.html | 6 +++--- src/bindings.cpp | 1 - tools/test.cpp | 4 ++++ 9 files changed, 23 insertions(+), 17 deletions(-)
Title: Estimate the Four Parameters of Stable Laws using Different
Methods
Description: Estimate the four parameters of stable laws using maximum
likelihood method, generalised method of moments with
finite and continuum number of points, iterative
Koutrouvelis regression and Kogon-McCulloch method. The
asymptotic properties of the estimators (covariance
matrix, confidence intervals) are also provided.
Author: Tarak Kharrat [aut],
Georgi N. Boshnakov [aut, cre]
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between StableEstim versions 2.1 dated 2016-07-26 and 2.2 dated 2022-08-07
StableEstim-2.1/StableEstim/man/BestTClass.Rd |only StableEstim-2.1/StableEstim/man/CF.Rd |only StableEstim-2.1/StableEstim/man/EstimClass.Rd |only StableEstim-2.1/StableEstim/man/EstimFct.Rd |only StableEstim-2.1/StableEstim/man/FirstRoot.Rd |only StableEstim-2.1/StableEstim/man/Integrate.Rd |only StableEstim-2.1/StableEstim/man/Inverse.Rd |only StableEstim-2.1/StableEstim/man/KogonParamsEstim.Rd |only StableEstim-2.1/StableEstim/man/MLEstimFct.Rd |only StableEstim-2.1/StableEstim/man/Output.Rd |only StableEstim-2.1/StableEstim/man/abMat.Rd |only StableEstim-2.1/StableEstim/man/almostEqual.Rd |only StableEstim-2.1/StableEstim/man/getTime.Rd |only StableEstim-2.1/StableEstim/man/jacCF.Rd |only StableEstim-2.2/StableEstim/DESCRIPTION | 28 StableEstim-2.2/StableEstim/MD5 | 69 +- StableEstim-2.2/StableEstim/NAMESPACE | 22 StableEstim-2.2/StableEstim/NEWS.md |only StableEstim-2.2/StableEstim/README.md |only StableEstim-2.2/StableEstim/build |only StableEstim-2.2/StableEstim/inst/REFERENCES.bib |only StableEstim-2.2/StableEstim/man/Best_t-class.Rd |only StableEstim-2.2/StableEstim/man/CgmmParamsEstim.Rd | 256 ++++---- StableEstim-2.2/StableEstim/man/ComplexCF.Rd |only StableEstim-2.2/StableEstim/man/ComputeBest_t.Rd | 35 - StableEstim-2.2/StableEstim/man/ComputeBest_tau.Rd | 42 - StableEstim-2.2/StableEstim/man/ComputeDuration.Rd | 28 StableEstim-2.2/StableEstim/man/ComputeFirstRootRealeCF.Rd |only StableEstim-2.2/StableEstim/man/ComputeStatObjectFromFiles.Rd |only StableEstim-2.2/StableEstim/man/Estim-class.Rd |only StableEstim-2.2/StableEstim/man/Estim.Rd |only StableEstim-2.2/StableEstim/man/Estim_Simulation.Rd | 259 ++++---- StableEstim-2.2/StableEstim/man/GMMParametersEstim.Rd | 291 +++++----- StableEstim-2.2/StableEstim/man/IGParametersEstim.Rd |only StableEstim-2.2/StableEstim/man/IntegrateRandomVectorsProduct.Rd |only StableEstim-2.2/StableEstim/man/KoutParamsEstim.Rd | 111 +-- StableEstim-2.2/StableEstim/man/MLParametersEstim.Rd |only StableEstim-2.2/StableEstim/man/McCullochParametersEstim.Rd | 22 StableEstim-2.2/StableEstim/man/PrintDuration.Rd | 14 StableEstim-2.2/StableEstim/man/PrintEstimatedRemainingTime.Rd | 28 StableEstim-2.2/StableEstim/man/RegularisedSol.Rd |only StableEstim-2.2/StableEstim/man/StableEstim-package.Rd | 56 + StableEstim-2.2/StableEstim/man/StableEstim_reexports.Rd |only StableEstim-2.2/StableEstim/man/StatFcts.Rd | 22 StableEstim-2.2/StableEstim/man/TexSummary.Rd | 46 - StableEstim-2.2/StableEstim/man/expect_almost_equal.Rd |only StableEstim-2.2/StableEstim/man/get.StatFcts.Rd | 24 StableEstim-2.2/StableEstim/man/get.abMat.Rd |only StableEstim-2.2/StableEstim/man/getTime_.Rd |only StableEstim-2.2/StableEstim/man/jacobianComplexCF.Rd |only StableEstim-2.2/StableEstim/man/sampleComplexCFMoment.Rd | 71 +- StableEstim-2.2/StableEstim/man/sampleRealCFMoment.Rd | 80 +- 52 files changed, 798 insertions(+), 706 deletions(-)
Title: Small Area Estimation using Fay-Herriot Models with Additive
Logistic Transformation
Description: Implements Additive Logistic Transformation (alr) for Small Area Estimation under Fay Herriot Model. Small Area Estimation is used to borrow strength from auxiliary variables to improve the effectiveness of a domain sample size. This package uses Empirical Best Linear Unbiased Prediction (EBLUP). The Additive Logistic Transformation (alr) are based on transformation by Aitchison J (1986). The covariance matrix for multivariate application is based on covariance matrix used by Esteban M, Lombardía M, López-Vizcaíno E, Morales D, and Pérez A <doi:10.1007/s11749-019-00688-w>. The non-sampled models are modified area-level models based on models proposed by Anisa R, Kurnia A, and Indahwati I <doi:10.9790/5728-10121519>, with univariate model using model-3, and multivariate model using model-1. The MSE are estimated using Parametric Bootstrap approach. For non-sampled cases, MSE are estimated using modified approach proposed by Haris F and Ubaidillah A <doi:10.4108/eai.2-8-2019.2290339>.
Author: M. Rijalus Sholihin [aut, cre],
Cucu Sumarni [aut]
Maintainer: M. Rijalus Sholihin <221810400@stis.ac.id>
Diff between sae.prop versions 0.1.0 dated 2022-06-16 and 0.1.1 dated 2022-08-07
DESCRIPTION | 10 ++++++---- MD5 | 35 +++++++++++++++++++++++------------ R/datasaeu.R | 2 +- R/datasaeu.ns.R | 2 +- R/mseFH.mprop.R | 44 +++++++++++++++++++++++++++++++------------- R/mseFH.ns.mprop.R | 43 +++++++++++++++++++++++++++++++++++-------- R/mseFH.ns.uprop.R | 25 +++++++++++++++++-------- R/mseFH.uprop.R | 52 ++++++++++++++++++++++++++-------------------------- R/saeFH.mprop.R | 16 +++++++++------- R/saeFH.ns.mprop.R | 26 ++++++++++++++++++-------- R/saeFH.uprop.R | 26 ++++++++++---------------- man/datasaeu.Rd | 2 +- man/datasaeu.ns.Rd | 2 +- tests |only 14 files changed, 179 insertions(+), 106 deletions(-)
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
The package includes demos reproducing analyzes presented
in the book "Multiple Comparisons Using R" (Bretz, Hothorn,
Westfall, 2010, CRC Press).
Author: Torsten Hothorn [aut, cre] ,
Frank Bretz [aut],
Peter Westfall [aut],
Richard M. Heiberger [ctb],
Andre Schuetzenmeister [ctb],
Susan Scheibe [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between multcomp versions 1.4-19 dated 2022-04-26 and 1.4-20 dated 2022-08-07
DESCRIPTION | 8 +++--- MD5 | 22 +++++++++---------- NAMESPACE | 2 - R/expressions.R | 2 - R/helpers.R | 47 ++++++++++++++++++++++++++++++++++++++++- build/vignette.rds |binary data/cholesterol.rda |binary data/litter.rda |binary inst/NEWS | 5 ++++ inst/doc/chfls1.pdf |binary inst/doc/generalsiminf.pdf |binary inst/doc/multcomp-examples.pdf |binary 12 files changed, 68 insertions(+), 18 deletions(-)
Title: Create Flexible Forest Plot
Description: Create forest plot based on the layout of the data. Confidence interval in multiple columns by groups can be done easily. Editing plot, inserting/adding text, applying theme to the plot and much more.
Author: Alimu Dayimu [aut, cre]
Maintainer: Alimu Dayimu <ad938@cam.ac.uk>
Diff between forestploter versions 0.1.6 dated 2022-06-23 and 0.1.7 dated 2022-08-07
DESCRIPTION | 6 MD5 | 19 NEWS.md | 91 - R/forest.R | 4 R/insert_text.R | 2 R/theme.R | 4 inst/doc/forestploter-intro.html | 4 tests/testthat/Rplots.pdf |binary tests/testthat/_snaps/forest/edit-plot-with-theme.svg | 1521 +++++++++--------- tests/testthat/_snaps/forest/insert-text-vector.svg |only tests/testthat/test-forest.R | 12 11 files changed, 847 insertions(+), 816 deletions(-)
Title: Transform Files to 'microtable' Object with 'microeco' Package
Description: Transform output files of some tools to the 'microtable' object of 'microtable' class in 'microeco' package. The 'microtable' class is the basic class in 'microeco' package and is necessary for the downstream microbial community data analysis.
Author: Chi Liu [aut, cre]
Maintainer: Chi Liu <liuchi0426@126.com>
Diff between file2meco versions 0.3.0 dated 2022-06-07 and 0.4.0 dated 2022-08-07
DESCRIPTION | 6 +- MD5 | 8 +-- R/humann2meco.R | 2 R/mpa2meco.R | 121 ++++++++++++++++++++++++++++++++++++++------------------ man/mpa2meco.Rd | 36 +++++++++++++--- 5 files changed, 121 insertions(+), 52 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-13 0.1.7
2019-11-07 0.1.6
2018-07-04 0.1.5
2018-02-18 0.1.4
2017-12-18 0.1.3
2017-09-20 0.1.2
2017-06-05 0.1.1
2017-04-20 0.1.0
Title: Tools for qPCR
Description: RT-qPCR is a widely used method to detect the expression level of genes in
biological research. A crucial step in processing qPCR data is to calculate
the amplification efficiency of genes to determine which method should be used
to calculate expression level of genes. This Package can do it easily.
In addition to that, this package can calculate the expression level of genes
based on three methods.
Author: Xiang LI [cre, aut]
Maintainer: Xiang LI <lixiang117423@gmail.com>
Diff between qPCRtools versions 0.1.1 dated 2022-07-03 and 0.2.0 dated 2022-08-07
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- R/CalExp2ddCt.R | 8 ++++++-- 3 files changed, 13 insertions(+), 9 deletions(-)
Title: Investigating the Functional Characteristics of Selected SNPs
and Their Vicinity Genomic Region
Description: To investigate the functional characteristics of selected SNPs and their vicinity genomic region. Linked SNPs in moderate to high linkage disequilibrium (e.g. r2>0.50) with the corresponding index SNPs will be selected for further analysis.
Author: Alireza Ani [aut, cre],
Zoha Kamali [aut],
Ahmad Vaez [aut]
Maintainer: Alireza Ani <a.ani@umcg.nl>
Diff between SNPannotator versions 0.2.2.0 dated 2022-04-28 and 0.2.4.0 dated 2022-08-07
DESCRIPTION | 8 +-- MD5 | 16 +++---- R/codes.R | 104 ++++++++++++++++++++++++++++++++++++-------------- R/getVariantData.R | 4 - R/getVariantLDs.R | 12 ----- man/LDlist.Rd | 14 ------ man/listDatabases.Rd | 8 --- man/pingServer.Rd | 8 --- man/releaseVersion.Rd | 8 --- 9 files changed, 90 insertions(+), 92 deletions(-)
Title: Data Visualization for Statistics in Social Science
Description: Collection of plotting and table output functions for data
visualization. Results of various statistical analyses (that are commonly used
in social sciences) can be visualized using this package, including simple and
cross tabulated frequencies, histograms, box plots, (generalized) linear models,
mixed effects models, principal component analysis and correlation matrices,
cluster analyses, scatter plots, stacked scales, effects plots of regression
models (including interaction terms) and much more. This package supports
labelled data.
Author: Daniel Luedecke [aut, cre] ,
Alexander Bartel [ctb] ,
Carsten Schwemmer [ctb],
Chuck Powell [ctb] ,
Amir Djalovski [ctb],
Johannes Titz [ctb]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between sjPlot versions 2.8.10 dated 2021-11-26 and 2.8.11 dated 2022-08-07
DESCRIPTION | 8 MD5 | 134 +++---- NAMESPACE | 66 --- NEWS.md | 9 R/color_utils.R | 1 R/helpfunctions.R | 22 - R/html_print.R | 18 R/html_print_utils.R | 1 R/plot_diag_stan.R | 3 R/plot_gpt.R | 4 R/plot_grpfrq.R | 4 R/plot_kfold_cv.R | 20 - R/plot_likert.R | 5 R/plot_model.R | 50 +- R/plot_model_estimates.R | 4 R/plot_models.R | 20 - R/plot_point_estimates.R | 4 R/plot_residuals.R | 1 R/plot_scatter.R | 2 R/plot_stackfrq.R | 6 R/plot_type_est.R | 3 R/plot_type_int.R | 7 R/plot_type_ranef.R | 18 R/plot_type_slope.R | 5 R/tab_itemscale.R | 8 R/tab_model.R | 71 +-- R/tab_stackfrq.R | 3 R/tidiers.R | 34 - R/utils.R | 6 R/view_df.R | 8 build/vignette.rds |binary inst/doc/blackwhitefigures.html | 337 ++++++++++++++---- inst/doc/custplot.html | 376 ++++++++++++++++---- inst/doc/plot_interactions.html | 403 +++++++++++++++++----- inst/doc/plot_likert_scales.html | 324 ++++++++++++++--- inst/doc/plot_marginal_effects.R | 2 inst/doc/plot_marginal_effects.html | 419 ++++++++++++++++++----- inst/doc/plot_model_estimates.html | 458 ++++++++++++++++++++----- inst/doc/sjtitemanalysis.html | 651 ++++++++++++++++++++++++++---------- inst/doc/tab_bayes.R | 2 inst/doc/tab_bayes.html | 355 +++++++++++++++---- inst/doc/tab_mixed.R | 2 inst/doc/tab_mixed.html | 418 +++++++++++++++++------ inst/doc/tab_model_estimates.html | 474 ++++++++++++++++++++------ inst/doc/tab_model_robust.R | 18 inst/doc/tab_model_robust.Rmd | 20 - inst/doc/tab_model_robust.html | 406 +++++++++++++++++----- inst/doc/table_css.html | 367 ++++++++++++++++---- man/dist_chisq.Rd | 130 +++---- man/dist_f.Rd | 122 +++--- man/dist_norm.Rd | 120 +++--- man/dist_t.Rd | 116 +++--- man/plot_grid.Rd | 118 +++--- man/plot_kfold_cv.Rd | 118 +++--- man/plot_model.Rd | 38 +- man/plot_models.Rd | 28 - man/plot_residuals.Rd | 140 +++---- man/plot_stackfrq.Rd | 278 +++++++-------- man/save_plot.Rd | 124 +++--- man/set_theme.Rd | 582 ++++++++++++++++---------------- man/sjPlot-themes.Rd | 304 ++++++++-------- man/sjp.poly.Rd | 278 +++++++-------- man/sjplot.Rd | 162 ++++---- man/tab_df.Rd | 315 ++++++++--------- man/tab_model.Rd | 39 +- man/tab_stackfrq.Rd | 5 man/view_df.Rd | 298 ++++++++-------- vignettes/tab_model_robust.Rmd | 20 - 68 files changed, 5809 insertions(+), 3103 deletions(-)
Title: Standardized Moderation Effect and Its Confidence Interval
Description: Functions for computing a standardized moderation effect
in moderated regression and forming its confidence interval
by nonparametric bootstrapping as proposed in
Cheung, Cheung, Lau, Hui, and Vong (2022)
<doi:10.1037/hea0001188>. Also includes simple-to-use
functions for computing conditional effects (unstandardized
or standardized) and plotting moderation effects.
Author: Shu Fai Cheung [aut, cre] ,
David Weng Ngai Vong [ctb]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between stdmod versions 0.1.7.1 dated 2022-05-11 and 0.1.7.4 dated 2022-08-07
DESCRIPTION | 8 +-- MD5 | 25 ++++++----- NEWS.md | 8 +++ R/plotmod.R | 40 +++++++++++++------ README.md | 8 ++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/cond_effect.html | 4 - inst/doc/moderation.html | 10 ++-- inst/doc/plotmod.html | 26 ++++++------ inst/doc/std_selected.html | 12 ++--- inst/doc/stdmod.html | 4 - inst/doc/stdmod_lavaan.html | 12 ++--- tests/testthat/test_plotmod_percentile_more_levels.R |only 14 files changed, 93 insertions(+), 64 deletions(-)
Title: Structurally Guided Sampling
Description: Structurally guided sampling (SGS) approaches for airborne laser scanning (ALS; LIDAR). Primary functions provide means
to generate data-driven stratifications & methods for allocating samples. Intermediate functions for calculating and extracting important information
about input covariates and samples are also included. Processing outcomes are intended to help forest and environmental management
practitioners better optimize field sample placement as well as assess and augment existing sample networks in the context of data
distributions and conditions. ALS data is the primary intended use case, however any rasterized remote sensing data can be used,
enabling data-driven stratifications and sampling approaches.
Author: Tristan RH Goodbody [aut, cre, cph]
,
Nicholas C Coops [aut] ,
Martin Queinnec [aut]
Maintainer: Tristan RH Goodbody <goodbody.t@gmail.com>
Diff between sgsR versions 1.0.0 dated 2022-06-24 and 1.2.0 dated 2022-08-07
DESCRIPTION | 8 MD5 | 85 ++- NAMESPACE | 1 NEWS.md | 36 + R/calculate_allocation.R | 6 R/calculate_coobs.R | 18 R/calculate_representation.R | 6 R/sample_ahels.R | 81 ++- R/sample_clhs.R | 75 ++- R/sample_nc.R |only R/sample_strat.R | 446 ++++++++++++-------- R/sample_systematic.R | 25 + R/strat_kmeans.R | 16 R/strat_quantiles.R | 2 README.md | 23 - inst/doc/calculating.Rmd | 2 inst/doc/calculating.html | 30 - inst/doc/sampling.R | 34 + inst/doc/sampling.Rmd | 63 ++ inst/doc/sampling.html | 557 +++++++++++++++----------- inst/doc/sgsR.html | 8 inst/doc/stratification.R | 2 inst/doc/stratification.Rmd | 2 inst/doc/stratification.html | 20 man/allocating.Rd | 90 ++-- man/calculate_allocation.Rd | 6 man/figures/logo.png |binary man/sample_ahels.Rd | 1 man/sample_balanced.Rd | 1 man/sample_clhs.Rd | 1 man/sample_nc.Rd |only man/sample_srs.Rd | 1 man/sample_strat.Rd | 8 man/sample_systematic.Rd | 1 tests/testthat.R | 24 - tests/testthat/test-calculate_represenation.R | 1 tests/testthat/test-sample_ahels.R | 3 tests/testthat/test-sample_clhs.R | 2 tests/testthat/test-sample_nc.R |only tests/testthat/test-sample_strat.R | 13 tests/testthat/test-sample_systematic.R | 25 - tests/testthat/test-strat_kmeans.R | 2 vignettes/calculating.Rmd | 2 vignettes/sampling.Rmd | 63 ++ vignettes/stratification.Rmd | 2 45 files changed, 1129 insertions(+), 663 deletions(-)
Title: Shiny/R Wrapper for 'clipboard.js'
Description: Leverages the functionality of 'clipboard.js', a JavaScript library
for HMTL5-based copy to clipboard from web pages (see <https://clipboardjs.com>
for more information), and provides a reactive copy-to-clipboard UI button
component, called 'rclipButton', and a a reactive copy-to-clipboard UI link
component, called 'rclipLink', for 'shiny' R applications.
Author: Sebastien Bihorel
Maintainer: Sebastien Bihorel <sb.pmlab@gmail.com>
Diff between rclipboard versions 0.1.5 dated 2022-02-02 and 0.1.6 dated 2022-08-07
DESCRIPTION | 6 +++--- MD5 | 4 ++-- man/rclipButton.Rd | 6 +++++- 3 files changed, 10 insertions(+), 6 deletions(-)
Title: Human-Friendly Formatting Functions
Description: Format quantities of time or bytes into human-friendly strings.
Author: Dustin Sallings
Maintainer: Dustin Sallings <dustin@spy.net>
Diff between humanFormat versions 1.0 dated 2013-11-25 and 1.2 dated 2022-08-07
DESCRIPTION | 10 +++---- MD5 | 16 +++++------ NAMESPACE | 3 ++ R/formatBytes.R | 6 ++-- R/formatDuration.R | 30 +++++++++++++++++---- inst/tests/test-bytes.R | 62 +++++++++++++++++++++++++++------------------ inst/tests/test-duration.R | 10 ++++--- man/formatBytes.Rd | 6 ++-- man/humanFormat.Rd | 10 ++----- 9 files changed, 95 insertions(+), 58 deletions(-)
Title: Download Geographic Data
Description: Functions for downloading of geographic data for use in spatial analysis and mapping. The package facilitates access to climate, elevation, land use, soil, species occurrence, accessibility, administrative boundaries and other data.
Author: Robert J. Hijmans [cre, aut], Aniruddha Ghosh [ctb], Alex Mandel [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between geodata versions 0.4-6 dated 2022-04-09 and 0.4-9 dated 2022-08-07
DESCRIPTION | 8 +++---- MD5 | 27 +++++++++++++------------ R/gadm.R | 45 +++++++++++++++++++++++++++++++++---------- R/landuse.R | 43 +++++++++++++++++++++++++++++++++++++++-- R/occurrence.R | 51 ++++++++++++++++++++++++------------------------- R/worldclim.R | 40 +++++++++++++++++++++++++++----------- build/partial.rdb |binary inst/ex/countries.rds |binary man/cmip6.Rd | 2 - man/crop_spam.Rd | 2 - man/cropland.Rd | 26 +++++++++++++++--------- man/gadm.Rd | 18 ++++++++--------- man/geodata-package.Rd | 9 +++----- man/sp_occurrence.Rd | 12 ++++++++--- man/world.Rd |only 15 files changed, 188 insertions(+), 95 deletions(-)
Title: Censored Regression (Tobit) Models
Description: Maximum Likelihood estimation of censored regression (Tobit) models
with cross-sectional and panel data.
Author: Arne Henningsen <arne.henningsen@gmail.com>
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between censReg versions 0.5-34 dated 2022-02-28 and 0.5-36 dated 2022-08-07
DESCRIPTION | 8 MD5 | 14 - R/censReg.R | 2 build/vignette.rds |binary inst/NEWS.Rd | 5 inst/doc/censReg.pdf |binary tests/censRegTest.R | 4 tests/censRegTest.Rout.save | 392 ++++++++++++++++++++++---------------------- 8 files changed, 217 insertions(+), 208 deletions(-)
Title: Efficient Implementation of Binary Segmentation
Description: Standard template library
containers are used to implement an efficient binary segmentation
algorithm, which is log-linear on average and quadratic in the
worst case.
Author: Toby Dylan Hocking
Maintainer: Toby Dylan Hocking <toby.hocking@r-project.org>
Diff between binsegRcpp versions 2022.7.19 dated 2022-07-20 and 2022.7.21 dated 2022-08-07
DESCRIPTION | 6 MD5 | 106 - NAMESPACE | 62 NEWS | 248 +-- R/binseg.R | 580 ++++---- R/binseg_normal.R | 234 +-- R/binseg_normal_cv.R | 248 +-- R/complexity.R | 1050 ++++++++-------- R/cum_median.R | 18 R/random_set_vec.R | 332 ++--- build/vignette.rds |binary inst/doc/comparisons.R | 164 +- inst/doc/comparisons.Rmd | 328 ++-- inst/doc/comparisons.html | 857 ++++++------- inst/doc/cross-validation.R | 290 ++-- inst/doc/cross-validation.Rmd | 334 ++--- inst/doc/cross-validation.html | 730 +++++------ man/binseg.Rd | 360 ++--- man/binseg_interface.Rd | 74 - man/binseg_normal.Rd | 248 +-- man/binseg_normal_cv.Rd | 138 +- man/case.colors.Rd | 24 man/case.sizes.Rd | 22 man/check_sizes.Rd | 46 man/coef.binsegRcpp.Rd | 44 man/coef.binseg_normal_cv.Rd | 46 man/cum_median.Rd | 40 man/cum_median_interface.Rd | 42 man/depth_first_interface.Rd | 50 man/get_complexity.Rd | 286 ++-- man/get_complexity_best_heuristic_equal_breadth_full.Rd | 42 man/get_complexity_best_heuristic_equal_depth_full.Rd | 42 man/get_complexity_best_optimal_cost.Rd | 68 - man/get_complexity_best_optimal_splits.Rd | 44 man/get_complexity_best_optimal_tree.Rd | 54 man/get_complexity_empirical.Rd | 42 man/get_complexity_extreme.Rd | 48 man/get_complexity_worst.Rd | 44 man/get_distribution_info.Rd | 32 man/get_tree_empirical.Rd | 36 man/plot.binsegRcpp.Rd | 36 man/plot.binseg_normal_cv.Rd | 38 man/plot.complexity.Rd | 36 man/print.binsegRcpp.Rd | 36 man/print.binseg_normal_cv.Rd | 38 man/qp.x.Rd | 44 man/random_set_vec.Rd | 326 ++-- man/size_to_splits.Rd | 40 man/tree_layout.Rd | 110 - src/binseg.h | 2 tests/testthat.R | 2 tests/testthat/test-CRAN.R | 1020 +++++++-------- vignettes/comparisons.Rmd | 328 ++-- vignettes/cross-validation.Rmd | 334 ++--- 54 files changed, 4925 insertions(+), 4924 deletions(-)