Title: Classification Trees for Ordinal Responses
Description: Recursive partitioning methods to build
classification trees for ordinal responses within the CART
framework. Trees are grown using the Generalized Gini
impurity function, where the misclassification costs are given
by the absolute or squared differences in scores assigned to
the categories of the response. Pruning is based on the total
misclassification rate or on the total misclassification cost.
Author: Giuliano Galimberti, Gabriele Soffritti, Matteo Di Maso
Maintainer: Giuliano Galimberti <giuliano.galimberti@unibo.it>
Diff between rpartScore versions 1.0-1 dated 2012-12-08 and 1.0-2 dated 2022-05-25
DESCRIPTION | 18 +++++++-------- MD5 | 21 +++++++++-------- NAMESPACE | 2 - build |only inst/CITATION | 17 ++++++++------ man/evalMedian.Rd | 9 +++---- man/evalMode.Rd | 8 +++--- man/initScore.Rd | 10 ++++---- man/rpartScore-package.Rd | 55 ++++++++++++++++++---------------------------- man/rpartScore.Rd | 51 ++++++++++++++++-------------------------- man/splitAbs.Rd | 8 +++--- man/splitQuad.Rd | 8 +++--- 12 files changed, 94 insertions(+), 113 deletions(-)
Title: Mapping Smoothed Effect Estimates from Individual-Level Data
Description: Contains functions for mapping odds ratios, hazard ratios, or other effect estimates using individual-level data such as case-control study data, using generalized additive models (GAMs) or Cox models for smoothing with a two-dimensional predictor (e.g., geolocation or exposure to chemical mixtures) while adjusting linearly for confounding variables, using methods described by Kelsall and Diggle (1998), Webster at al. (2006), and Bai et al. (2020). Includes convenient functions for mapping point estimates and confidence intervals, efficient control sampling, and permutation tests for the null hypothesis that the two-dimensional predictor is not associated with the outcome variable (adjusting for confounders).
Author: Lu Bai, Scott Bartell, Robin Bliss, and Veronica Vieira
Maintainer: Scott Bartell <sbartell@uci.edu>
Diff between MapGAM versions 1.2-5 dated 2019-07-27 and 1.2-6 dated 2022-05-25
ChangeLog | 246 +++++++++++++----------- DESCRIPTION | 10 - MD5 | 26 +- R/MapGAM.version.R | 53 ++--- R/colormap.R | 12 - R/modgam.R | 495 +++++++++++++++++++++++++------------------------- R/predgrid.R | 4 R/sampcont.R | 116 ++++++----- R/summary.gamcox.R | 90 ++++----- R/summary.modgam.R | 11 - R/trimdata.R | 6 man/MapGAM-package.Rd | 16 - man/modgam.Rd | 10 - man/sampcont.Rd | 13 + 14 files changed, 579 insertions(+), 529 deletions(-)
Title: Decision Curve Analysis for Model Evaluation
Description: Diagnostic and prognostic models are typically evaluated with
measures of accuracy that do not address clinical consequences.
Decision-analytic techniques allow assessment of clinical outcomes,
but often require collection of additional information may be
cumbersome to apply to models that yield a continuous result. Decision
curve analysis is a method for evaluating and comparing prediction
models that incorporates clinical consequences, requires only the data
set on which the models are tested, and can be applied to models that
have either continuous or dichotomous results. See the following references
for details on the methods: Vickers (2006) <doi:10.1177/0272989X06295361>,
Vickers (2008) <doi:10.1186/1472-6947-8-53>,
and Pfeiffer (2020) <doi:10.1002/bimj.201800240>.
Author: Daniel D. Sjoberg [aut, cre, cph],
Emily Vertosick [ctb]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between dcurves versions 0.2.0 dated 2021-07-20 and 0.3.0 dated 2022-05-25
DESCRIPTION | 23 MD5 | 47 - NAMESPACE | 1 NEWS.md | 44 + R/dca.r | 256 +-------- R/plot.R | 2 R/print.R | 1 R/standardize_net_benefit.R | 5 R/test_consequences.R |only README.md | 5 build/partial.rdb |only build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/dca.R | 2 inst/doc/dca.Rmd | 6 inst/doc/dca.html | 839 +++++++++++++++++++++++++------- man/dca.Rd | 2 man/dcurves-package.Rd | 20 man/df_binary.Rd | 52 - man/df_case_control.Rd | 50 - man/df_surv.Rd | 54 +- man/figures/two-by-two-table.png |only man/print.dca.Rd | 1 man/test_consequences.Rd |only tests/testthat/test-dca.R | 15 tests/testthat/test-test_consequences.R |only vignettes/dca.Rmd | 6 27 files changed, 915 insertions(+), 517 deletions(-)
Title: Simulate IRT-Based Computerized Adaptive Tests
Description: Functions designed to simulate data that conform to basic
unidimensional IRT models (for now 3-parameter binary response models
and graded response models) along with Post-Hoc CAT simulations of
those models given various item selection methods, ability estimation
methods, and termination criteria. See
Wainer (2000) <doi:10.4324/9781410605931>,
van der Linden & Pashley (2010) <doi:10.1007/978-0-387-85461-8_1>,
and Eggen (1999) <doi:10.1177/01466219922031365> for more details.
Author: Steven Nydick [cre, aut]
Maintainer: Steven Nydick <swnydick@gmail.com>
Diff between catIrt versions 0.5-0 dated 2014-10-05 and 0.5.1 dated 2022-05-25
catIrt-0.5-0/catIrt/inst/NEWS.Rd |only catIrt-0.5.1/catIrt/DESCRIPTION | 29 ++++++++---- catIrt-0.5.1/catIrt/MD5 | 47 ++++++++++++++------ catIrt-0.5.1/catIrt/NAMESPACE | 15 +++++- catIrt-0.5.1/catIrt/NEWS.md |only catIrt-0.5.1/catIrt/R/bmeEst.R | 57 +++++++++++------------- catIrt-0.5.1/catIrt/R/eapEst.R | 69 +++++++++++++++--------------- catIrt-0.5.1/catIrt/R/mleEst.R | 47 +++++++++----------- catIrt-0.5.1/catIrt/R/wleEst.R | 56 +++++++++++------------- catIrt-0.5.1/catIrt/README.md |only catIrt-0.5.1/catIrt/inst/ARRT_Updates |only catIrt-0.5.1/catIrt/inst/TODO.rtf |only catIrt-0.5.1/catIrt/man/FI.Rd | 4 - catIrt-0.5.1/catIrt/man/KL.Rd | 2 catIrt-0.5.1/catIrt/man/catIrt-package.Rd | 4 - catIrt-0.5.1/catIrt/man/catIrt.Rd | 4 - catIrt-0.5.1/catIrt/man/itChoose.Rd | 2 catIrt-0.5.1/catIrt/man/mleEst.Rd | 7 +-- catIrt-0.5.1/catIrt/man/simIrt.Rd | 2 catIrt-0.5.1/catIrt/src/catIrt_init.c |only 20 files changed, 189 insertions(+), 156 deletions(-)
Title: Automate Package and Project Setup
Description: Automate package and project setup tasks that are
otherwise performed manually. This includes setting up unit testing,
test coverage, continuous integration, Git, 'GitHub', licenses,
'Rcpp', 'RStudio' projects, and more.
Author: Hadley Wickham [aut] ,
Jennifer Bryan [aut, cre] ,
Malcolm Barrett [aut] ,
RStudio [cph, fnd]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between usethis versions 2.1.5 dated 2021-12-09 and 2.1.6 dated 2022-05-25
usethis-2.1.5/usethis/tests/testthat/teardown.R |only usethis-2.1.6/usethis/DESCRIPTION | 14 usethis-2.1.6/usethis/MD5 | 153 +++++----- usethis-2.1.6/usethis/NAMESPACE | 1 usethis-2.1.6/usethis/NEWS.md | 28 + usethis-2.1.6/usethis/R/badge.R | 28 + usethis-2.1.6/usethis/R/code-of-conduct.R | 34 +- usethis-2.1.6/usethis/R/course.R | 5 usethis-2.1.6/usethis/R/create.R | 17 - usethis-2.1.6/usethis/R/data-table.R | 18 - usethis-2.1.6/usethis/R/data.R | 6 usethis-2.1.6/usethis/R/description.R | 2 usethis-2.1.6/usethis/R/git-default-branch.R | 2 usethis-2.1.6/usethis/R/github-actions.R | 145 ++++++--- usethis-2.1.6/usethis/R/github-labels.R | 9 usethis-2.1.6/usethis/R/github-pages.R | 17 - usethis-2.1.6/usethis/R/issue.R | 6 usethis-2.1.6/usethis/R/package.R | 25 + usethis-2.1.6/usethis/R/pkgdown.R | 11 usethis-2.1.6/usethis/R/pr.R | 6 usethis-2.1.6/usethis/R/r.R | 35 ++ usethis-2.1.6/usethis/R/readme.R | 11 usethis-2.1.6/usethis/R/release.R | 104 +++++- usethis-2.1.6/usethis/R/roxygen.R | 62 ++-- usethis-2.1.6/usethis/R/tidy-upkeep.R | 40 ++ usethis-2.1.6/usethis/R/tidyverse.R | 8 usethis-2.1.6/usethis/R/use_github_file.R | 6 usethis-2.1.6/usethis/R/usethis-package.R | 6 usethis-2.1.6/usethis/R/utils-github.R | 51 ++- usethis-2.1.6/usethis/R/version.R | 34 +- usethis-2.1.6/usethis/R/vignette.R | 1 usethis-2.1.6/usethis/R/vscode.R |only usethis-2.1.6/usethis/README.md | 56 +-- usethis-2.1.6/usethis/inst/templates/CODE_OF_CONDUCT.md | 41 +- usethis-2.1.6/usethis/inst/templates/testthat.R | 8 usethis-2.1.6/usethis/inst/templates/vscode-c_cpp_properties.json |only usethis-2.1.6/usethis/inst/templates/vscode-debug.R |only usethis-2.1.6/usethis/inst/templates/vscode-launch.json |only usethis-2.1.6/usethis/man/badges.Rd | 9 usethis-2.1.6/usethis/man/create_from_github.Rd | 20 - usethis-2.1.6/usethis/man/git_protocol.Rd | 6 usethis-2.1.6/usethis/man/github_actions.Rd | 25 + usethis-2.1.6/usethis/man/tidyverse.Rd | 8 usethis-2.1.6/usethis/man/use_code_of_conduct.Rd | 4 usethis-2.1.6/usethis/man/use_course_details.Rd | 42 +- usethis-2.1.6/usethis/man/use_data.Rd | 9 usethis-2.1.6/usethis/man/use_data_table.Rd | 14 usethis-2.1.6/usethis/man/use_description.Rd | 6 usethis-2.1.6/usethis/man/use_github_file.Rd | 6 usethis-2.1.6/usethis/man/use_github_pages.Rd | 8 usethis-2.1.6/usethis/man/use_pkgdown.Rd | 2 usethis-2.1.6/usethis/man/use_r.Rd | 36 ++ usethis-2.1.6/usethis/man/use_readme_rmd.Rd | 11 usethis-2.1.6/usethis/man/use_roxygen_md.Rd | 12 usethis-2.1.6/usethis/man/use_version.Rd | 23 - usethis-2.1.6/usethis/man/usethis-package.Rd | 2 usethis-2.1.6/usethis/man/zip-utils.Rd | 6 usethis-2.1.6/usethis/tests/testthat/_snaps/badge.md | 12 usethis-2.1.6/usethis/tests/testthat/_snaps/course.md | 13 usethis-2.1.6/usethis/tests/testthat/_snaps/git-default-branch.md | 2 usethis-2.1.6/usethis/tests/testthat/_snaps/github-actions.md | 22 - usethis-2.1.6/usethis/tests/testthat/_snaps/lifecycle.md | 2 usethis-2.1.6/usethis/tests/testthat/_snaps/package.md | 25 + usethis-2.1.6/usethis/tests/testthat/_snaps/release.md | 21 + usethis-2.1.6/usethis/tests/testthat/_snaps/tibble.md | 2 usethis-2.1.6/usethis/tests/testthat/_snaps/tidy-upkeep.md | 24 + usethis-2.1.6/usethis/tests/testthat/_snaps/tidyverse.md | 2 usethis-2.1.6/usethis/tests/testthat/_snaps/ui.md | 15 usethis-2.1.6/usethis/tests/testthat/_snaps/use_import_from.md | 15 usethis-2.1.6/usethis/tests/testthat/_snaps/utils-github.md | 16 - usethis-2.1.6/usethis/tests/testthat/_snaps/vignette.md | 10 usethis-2.1.6/usethis/tests/testthat/setup.R | 4 usethis-2.1.6/usethis/tests/testthat/test-badge.R | 9 usethis-2.1.6/usethis/tests/testthat/test-data.R | 12 usethis-2.1.6/usethis/tests/testthat/test-github-actions.R | 20 + usethis-2.1.6/usethis/tests/testthat/test-package.R | 8 usethis-2.1.6/usethis/tests/testthat/test-release.R | 8 usethis-2.1.6/usethis/tests/testthat/test-roxygen.R | 18 + usethis-2.1.6/usethis/tests/testthat/test-tidy-upkeep.R | 4 usethis-2.1.6/usethis/tests/testthat/test-utils-github.R | 4 80 files changed, 1053 insertions(+), 454 deletions(-)
Title: Inference of Trait Associations with SNP Haplotypes and Other
Attributes using the EM Algorithm
Description: The following R functions are used for inference of trait
associations with haplotypes and other covariates in
generalized linear models. The functions are developed
primarily for data collected in cohort or cross-sectional
studies. They can accommodate uncertain haplotype phase and
handle missing genotypes at some SNPs.
Author: K. Burkett <kburkett@uottawa.ca>, B. McNeney <mcneney@sfu.ca>, J.
Graham <jgraham@stat.sfu.ca>, with code for case-control data
contributed by Zhijian Chen <z11chen@math.uwaterloo.ca>
Maintainer: K. Burkett <kburkett@uottawa.ca>
Diff between hapassoc versions 1.2-8 dated 2015-05-10 and 1.2-9 dated 2022-05-25
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NAMESPACE | 5 +++++ build/vignette.rds |binary inst/CITATION | 4 ++-- inst/ChangeLog | 4 ++++ inst/doc/hapassoc.pdf |binary src/hapassoc_init.c |only 8 files changed, 22 insertions(+), 12 deletions(-)
Title: Version, Share, Deploy, and Monitor Models
Description: The goal of 'vetiver' is to provide fluent tooling to
version, share, deploy, and monitor a trained model. Functions handle
both recording and checking the model's input data prototype, and
predicting from a remote API endpoint. The 'vetiver' package is
extensible, with generics that can support many kinds of models.
Author: Julia Silge [cre, aut] ,
RStudio [cph, fnd]
Maintainer: Julia Silge <julia.silge@rstudio.com>
Diff between vetiver versions 0.1.4 dated 2022-04-28 and 0.1.5 dated 2022-05-25
vetiver-0.1.4/vetiver/inst/rmarkdown/templates/vetiver_dashboard |only vetiver-0.1.5/vetiver/DESCRIPTION | 31 ++++--- vetiver-0.1.5/vetiver/MD5 | 40 +++++----- vetiver-0.1.5/vetiver/NAMESPACE | 22 +++-- vetiver-0.1.5/vetiver/NEWS.md | 6 + vetiver-0.1.5/vetiver/R/endpoint.R | 18 +++- vetiver-0.1.5/vetiver/R/monitor.R |only vetiver-0.1.5/vetiver/R/vetiver-package.R | 15 +-- vetiver-0.1.5/vetiver/R/write-docker.R | 1 vetiver-0.1.5/vetiver/README.md | 14 ++- vetiver-0.1.5/vetiver/inst/doc/model-card.html | 2 vetiver-0.1.5/vetiver/inst/doc/vetiver.R | 3 vetiver-0.1.5/vetiver/inst/doc/vetiver.Rmd | 3 vetiver-0.1.5/vetiver/inst/doc/vetiver.html | 10 +- vetiver-0.1.5/vetiver/man/vetiver-package.Rd | 7 + vetiver-0.1.5/vetiver/man/vetiver_compute_metrics.Rd |only vetiver-0.1.5/vetiver/man/vetiver_endpoint.Rd | 4 - vetiver-0.1.5/vetiver/tests/testthat/_snaps/caret.md | 2 vetiver-0.1.5/vetiver/tests/testthat/_snaps/monitor |only vetiver-0.1.5/vetiver/tests/testthat/_snaps/monitor.md |only vetiver-0.1.5/vetiver/tests/testthat/test-caret.R | 6 - vetiver-0.1.5/vetiver/tests/testthat/test-monitor.R |only vetiver-0.1.5/vetiver/tests/testthat/test-predict.R | 1 vetiver-0.1.5/vetiver/vignettes/vetiver.Rmd | 3 24 files changed, 110 insertions(+), 78 deletions(-)
Title: Run Predictions Inside the Database
Description: It parses a fitted 'R' model object, and returns a formula in
'Tidy Eval' code that calculates the predictions. It works with
several databases back-ends because it leverages 'dplyr' and 'dbplyr'
for the final 'SQL' translation of the algorithm. It currently
supports lm(), glm(), randomForest(), ranger(), earth(),
xgb.Booster.complete(), cubist(), and ctree() models.
Author: Max Kuhn [aut, cre],
Edgar Ruiz [aut]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between tidypredict versions 0.4.8 dated 2020-10-28 and 0.4.9 dated 2022-05-25
DESCRIPTION | 47 +-- LICENSE |only MD5 | 130 ++++---- NEWS.md | 10 R/model-cubist.R | 26 - R/model-lm.R | 6 R/model-rf.R | 55 ++- R/model-xgboost.R | 2 R/predict-column.R | 2 R/to_sql.R | 4 README.md | 44 +- build/vignette.rds |binary inst/doc/cubist.Rmd | 2 inst/doc/cubist.html | 277 +++++++----------- inst/doc/glm.Rmd | 2 inst/doc/glm.html | 252 +++++++--------- inst/doc/lm.Rmd | 2 inst/doc/lm.html | 351 ++++++++++------------- inst/doc/mars.Rmd | 2 inst/doc/mars.html | 347 +++++++++-------------- inst/doc/non-r.Rmd | 2 inst/doc/non-r.html | 300 ++++++++----------- inst/doc/ranger.Rmd | 2 inst/doc/ranger.html | 231 +++++---------- inst/doc/regression.Rmd | 2 inst/doc/regression.html | 42 -- inst/doc/rf.R | 7 inst/doc/rf.Rmd | 10 inst/doc/rf.html | 233 +++++---------- inst/doc/save.Rmd | 2 inst/doc/save.html | 265 +++++++---------- inst/doc/sql.R | 7 inst/doc/sql.Rmd | 13 inst/doc/sql.html | 369 +++++++++++------------- inst/doc/tree.Rmd | 2 inst/doc/tree.html | 44 +- inst/doc/xgboost.Rmd | 2 inst/doc/xgboost.html | 587 +++++++++++++++++---------------------- man/tidypredict-package.Rd | 9 tests/testthat/_snaps |only tests/testthat/test-acceptable.R | 7 tests/testthat/test-cubist.R | 11 tests/testthat/test-earth.R | 9 tests/testthat/test-list.R | 8 tests/testthat/test-party.R | 5 tests/testthat/test-ranger.R | 9 tests/testthat/test-rf.R | 14 tests/testthat/test-sql.R | 6 tests/testthat/test-tester.R | 4 tests/testthat/test_glm.R | 9 tests/testthat/test_lm.R | 9 tests/testthat/test_xgboost.R | 17 - vignettes/cubist.Rmd | 2 vignettes/glm.Rmd | 2 vignettes/lm.Rmd | 2 vignettes/mars.Rmd | 2 vignettes/non-r.Rmd | 2 vignettes/ranger.Rmd | 2 vignettes/regression.Rmd | 2 vignettes/rf.Rmd | 10 vignettes/save.Rmd | 2 vignettes/sql.Rmd | 13 vignettes/tree.Rmd | 2 vignettes/xgboost.Rmd | 2 64 files changed, 1689 insertions(+), 2152 deletions(-)
Title: Stepped Wedge Cluster Randomized Trial (SW CRT) Design
Description: A set of tools for examining the design and analysis aspects of stepped wedge cluster randomized trials (SW CRT) based on a repeated cross-sectional sampling scheme (Hussey MA and Hughes JP (2007) Contemporary Clinical Trials 28:182-191. <doi:10.1016/j.cct.2006.05.007>).
Author: Jim Hughes, Navneet R. Hakhu, Emily Voldal, and Fan Xia
Maintainer: Jim Hughes <jphughes@uw.edu>
Diff between swCRTdesign versions 3.1 dated 2019-10-25 and 3.2 dated 2022-05-25
DESCRIPTION | 12 ++++++------ MD5 | 10 ++++++---- NAMESPACE | 2 +- R/swGlmPwr.R |only man/swCRTdesign-package.Rd | 10 ++++++---- man/swGlmPwr.Rd |only man/swPwr.Rd | 6 +++--- 7 files changed, 22 insertions(+), 18 deletions(-)
Title: A Collection of Physical and Chemical Adsorption Isotherm Models
Description: The PUPAIM R package can generally fit any adsorption experimental data to any of the 55 available adsorption isotherm models - 32 nonlinear models and 23 linear models. This package provides parameter estimation, model accuracy analysis, model error analysis, and adsorption plot created using the package 'ggplot2'. This package will help the users for a much easier way of adsorption model data fitting.
Author: Keith T. Ostan [aut] ,
Paul Angelo C. Manlapaz [aut] ,
Jemimah Christine L. Mesias [aut]
,
Chester C. Deocaris [aut, ths, cre]
Maintainer: Chester C. Deocaris <ccdeocaris@pup.edu.ph>
Diff between PUPAIM versions 0.3.0 dated 2022-05-12 and 0.3.1 dated 2022-05-25
PUPAIM-0.3.0/PUPAIM/R/PUPAIM.R |only PUPAIM-0.3.0/PUPAIM/R/henryLM.r |only PUPAIM-0.3.0/PUPAIM/R/volmeranalysis.R |only PUPAIM-0.3.0/PUPAIM/man/PUPAIM.Rd |only PUPAIM-0.3.0/PUPAIM/man/henry.LM.Rd |only PUPAIM-0.3.1/PUPAIM/DESCRIPTION | 12 - PUPAIM-0.3.1/PUPAIM/MD5 | 198 ++++++++--------- PUPAIM-0.3.1/PUPAIM/NAMESPACE | 6 PUPAIM-0.3.1/PUPAIM/R/BETLM.r | 2 PUPAIM-0.3.1/PUPAIM/R/BETanalysis.R | 5 PUPAIM-0.3.1/PUPAIM/R/FS3analysis.R | 11 PUPAIM-0.3.1/PUPAIM/R/FS4analysis.R | 7 PUPAIM-0.3.1/PUPAIM/R/SSLangmuir1analysis.R | 13 - PUPAIM-0.3.1/PUPAIM/R/SSLangmuir2analysis.R | 13 - PUPAIM-0.3.1/PUPAIM/R/SSLangmuir3.R | 2 PUPAIM-0.3.1/PUPAIM/R/SSLangmuir3analysis.R | 13 - PUPAIM-0.3.1/PUPAIM/R/SSLangmuir4analysis.R | 13 - PUPAIM-0.3.1/PUPAIM/R/aranovichanalysis.R | 6 PUPAIM-0.3.1/PUPAIM/R/bauduanalysis.R | 8 PUPAIM-0.3.1/PUPAIM/R/dubininradushkevichLM.R | 4 PUPAIM-0.3.1/PUPAIM/R/dubininradushkevichanalysis.R | 9 PUPAIM-0.3.1/PUPAIM/R/elovichLM.r | 6 PUPAIM-0.3.1/PUPAIM/R/elovichanalysis.r | 16 - PUPAIM-0.3.1/PUPAIM/R/floryhugginsLM.R | 8 PUPAIM-0.3.1/PUPAIM/R/floryhugginsanalysis.R | 21 + PUPAIM-0.3.1/PUPAIM/R/fowlerguggenheimLM.R | 12 - PUPAIM-0.3.1/PUPAIM/R/fowlerguggenheimanalysis.R | 15 - PUPAIM-0.3.1/PUPAIM/R/freundlichLM.R | 6 PUPAIM-0.3.1/PUPAIM/R/freundlichanalysis.R | 7 PUPAIM-0.3.1/PUPAIM/R/halseyLM.R | 4 PUPAIM-0.3.1/PUPAIM/R/halseyanalysis.R | 9 PUPAIM-0.3.1/PUPAIM/R/harkinsjuraLM.R | 4 PUPAIM-0.3.1/PUPAIM/R/harkinsjuraanalysis.R | 8 PUPAIM-0.3.1/PUPAIM/R/henryanalysis.r |only PUPAIM-0.3.1/PUPAIM/R/hillLM.R | 2 PUPAIM-0.3.1/PUPAIM/R/hillanalysis.R | 14 - PUPAIM-0.3.1/PUPAIM/R/hilldeboerLM.R | 8 PUPAIM-0.3.1/PUPAIM/R/hilldeboeranalysis.R | 13 - PUPAIM-0.3.1/PUPAIM/R/jossensLM.r | 4 PUPAIM-0.3.1/PUPAIM/R/jossensanalysis.r | 15 - PUPAIM-0.3.1/PUPAIM/R/jovanovicLM.R | 6 PUPAIM-0.3.1/PUPAIM/R/jovanovicanalysis.R | 5 PUPAIM-0.3.1/PUPAIM/R/kahnanalysis.R | 8 PUPAIM-0.3.1/PUPAIM/R/kiselevLM.R | 7 PUPAIM-0.3.1/PUPAIM/R/kiselevanalysis.R | 11 PUPAIM-0.3.1/PUPAIM/R/koblecarrigananalysis.R | 5 PUPAIM-0.3.1/PUPAIM/R/koblecorriganLM.R | 4 PUPAIM-0.3.1/PUPAIM/R/langmuir1LM.R |only PUPAIM-0.3.1/PUPAIM/R/langmuir2LM.R |only PUPAIM-0.3.1/PUPAIM/R/langmuir3LM.R |only PUPAIM-0.3.1/PUPAIM/R/langmuir4LM.R |only PUPAIM-0.3.1/PUPAIM/R/langmuiranalysis.R | 15 - PUPAIM-0.3.1/PUPAIM/R/marckzewskijaroniecanalysis.r | 8 PUPAIM-0.3.1/PUPAIM/R/radkeprausnitzanalysis.R | 9 PUPAIM-0.3.1/PUPAIM/R/radkepraustnitzLM.R | 2 PUPAIM-0.3.1/PUPAIM/R/redlichpetersonLM.R | 2 PUPAIM-0.3.1/PUPAIM/R/redlichpetersonanalysis.R | 5 PUPAIM-0.3.1/PUPAIM/R/sipsLM.R | 2 PUPAIM-0.3.1/PUPAIM/R/sipsanalysis.R | 13 - PUPAIM-0.3.1/PUPAIM/R/temkinLM.R | 12 - PUPAIM-0.3.1/PUPAIM/R/temkinanalysis.r | 5 PUPAIM-0.3.1/PUPAIM/R/tothanalysis.R | 10 PUPAIM-0.3.1/PUPAIM/R/volmeranalysis.r |only PUPAIM-0.3.1/PUPAIM/R/webervanvlietanalysis.r | 7 PUPAIM-0.3.1/PUPAIM/inst/doc/PUPAIM.R | 2 PUPAIM-0.3.1/PUPAIM/inst/doc/PUPAIM.Rmd | 9 PUPAIM-0.3.1/PUPAIM/inst/doc/PUPAIM.html | 89 ++++++- PUPAIM-0.3.1/PUPAIM/man/FS3analysis.Rd | 6 PUPAIM-0.3.1/PUPAIM/man/FS4analysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/SSLangmuir3.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/bauduanalysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/dubininradushkevichanalysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/dubininraduskevich.LM.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/elovich.LM.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/elovichanalysis.Rd | 12 - PUPAIM-0.3.1/PUPAIM/man/floryhuggins.LM.Rd | 10 PUPAIM-0.3.1/PUPAIM/man/floryhugginsanalysis.Rd | 10 PUPAIM-0.3.1/PUPAIM/man/fowlerguggenheim.LM.Rd | 12 - PUPAIM-0.3.1/PUPAIM/man/fowlerguggenheimanalysis.Rd | 10 PUPAIM-0.3.1/PUPAIM/man/freundlich.LM.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/freundlichanalysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/halsey.LM.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/halseyanalysis.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/harkinsjura.LM.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/harkinsjuraanalysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/henryanalysis.Rd |only PUPAIM-0.3.1/PUPAIM/man/hillanalysis.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/hilldeboer.LM.Rd | 10 PUPAIM-0.3.1/PUPAIM/man/hilldeboeranalysis.Rd | 10 PUPAIM-0.3.1/PUPAIM/man/jossens.LM.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/jossensanalysis.Rd | 14 - PUPAIM-0.3.1/PUPAIM/man/jovanovic.LM.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/kahnanalysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/kiselev.LM.Rd | 8 PUPAIM-0.3.1/PUPAIM/man/kiselevanalysis.Rd | 8 PUPAIM-0.3.1/PUPAIM/man/koblecarrigan.LM.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/langmuir1.LM.Rd |only PUPAIM-0.3.1/PUPAIM/man/langmuir2.LM.Rd |only PUPAIM-0.3.1/PUPAIM/man/langmuir3.LM.Rd |only PUPAIM-0.3.1/PUPAIM/man/langmuir4.LM.Rd |only PUPAIM-0.3.1/PUPAIM/man/langmuiranalysis.Rd |only PUPAIM-0.3.1/PUPAIM/man/marckzewskijaroniecanalysis.Rd | 2 PUPAIM-0.3.1/PUPAIM/man/radkeprausnitzanalysis.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/temkin.LM.Rd | 4 PUPAIM-0.3.1/PUPAIM/man/temkinanalysis.Rd | 48 ---- PUPAIM-0.3.1/PUPAIM/man/tothanalysis.Rd |only PUPAIM-0.3.1/PUPAIM/man/volmeranalysis.Rd | 10 PUPAIM-0.3.1/PUPAIM/man/webervanvlietanalysis.Rd | 8 PUPAIM-0.3.1/PUPAIM/vignettes/PUPAIM.Rmd | 9 109 files changed, 537 insertions(+), 432 deletions(-)
Title: Stereo Camera Calibration and Reconstruction
Description: Functions for the collection of 3D points and curves using a stereo camera setup.
Author: Aaron Olsen, Annat Haber
Maintainer: Aaron Olsen <aarolsen@gmail.com>
Diff between StereoMorph versions 1.6.5 dated 2022-05-12 and 1.6.7 dated 2022-05-25
DESCRIPTION | 8 - MD5 | 16 +-- R/XML4R2listLines.R | 9 + R/digitizeImages.R | 2 R/list2XML4R.R | 81 ++++++++-------- R/readShapes.R | 6 - R/readXMLLines.R | 9 + inst/extdata/apps/digitizeImages/session_parameters.txt | 2 man/StereoMorph-package.Rd | 4 9 files changed, 81 insertions(+), 56 deletions(-)
Title: Bayesian Variable Selection for a Poisson-Logistic Model
Description: Bayesian variable selection for regression models of under-reported
count data as well as for (overdispersed) Poisson, negative binomal and
binomial logit regression models using spike and slab priors.
Author: Michaela Dvorzak [aut, cre],
Helga Wagner [aut]
Maintainer: Michaela Dvorzak <m.dvorzak@gmx.at>
Diff between pogit versions 1.2.0 dated 2019-01-17 and 1.3.0 dated 2022-05-25
DESCRIPTION | 11 ++++++----- MD5 | 45 +++++++++++++++++++++++---------------------- R/logitBvs.R | 13 ++++++++----- R/negbinBvs.R | 11 +++++++---- R/pogitBvs.R | 16 ++++++++++------ R/poissonBvs.R | 15 +++++++++------ R/simul1.R | 2 +- R/simul2.R | 2 +- build |only inst/CITATION | 2 +- inst/NEWS.Rd | 6 ++++++ man/cervical.Rd | 6 ++++-- man/cervical_validation.Rd | 6 ++++-- man/logitBvs.Rd | 32 ++++++++++++++++++++++---------- man/negbinBvs.Rd | 27 +++++++++++++++++++-------- man/plot.pogit.Rd | 12 ++++++++++-- man/pogit-package.Rd | 4 ++-- man/pogitBvs.Rd | 38 ++++++++++++++++++++++++++------------ man/poissonBvs.Rd | 29 ++++++++++++++++++++--------- man/simul1.Rd | 8 +++++--- man/simul2.Rd | 8 +++++--- man/simul_binomial.Rd | 6 ++++-- man/simul_pois1.Rd | 6 ++++-- man/simul_pois2.Rd | 6 ++++-- 24 files changed, 201 insertions(+), 110 deletions(-)
Title: Detecting Spatial Clustering Based on Connection Cost Between
Grids
Description: Based on landscape connectivity, spatial boundaries were
identified using community detection algorithm at grid level. Methods
using raster as input and the value of each cell of the raster is the
"smoothness" to indicate how easy the cell connecting with neighbor cells.
Details about the 'habCluster' package methods can be found in Zhang et al.
<bioRxiv:2022.05.06.490926>.
Author: Qiang Dai
Maintainer: Qiang Dai <daiqiang@cib.ac.cn>
Diff between habCluster versions 1.0.3 dated 2022-05-18 and 1.0.5 dated 2022-05-25
DESCRIPTION | 8 ++++---- MD5 | 24 +++++++++++++----------- NEWS.md | 8 ++++++++ R/cluster.R | 6 +++--- R/raster2Graph.R | 13 ++++++++++++- inst/WORDLIST |only inst/doc/introduction-to-habCluster.html | 6 +++--- man/cluster.Rd | 4 +++- man/figures/README-Greedy_plot-1.png |binary man/figures/README-cluster-1.png |binary man/figures/README-discard-1.png |binary man/raster2Graph.Rd | 4 +++- src/getEdge.cpp | 2 +- tests/spelling.R |only 14 files changed, 50 insertions(+), 25 deletions(-)
Title: Credible Visualization for Two-Dimensional Projections of Data
Description: Projections are common dimensionality reduction methods, which represent high-dimensional data in a two-dimensional space. However, when restricting the output space to two dimensions, which results in a two dimensional scatter plot (projection) of the data, low dimensional similarities do not represent high dimensional distances coercively [Thrun, 2018] <DOI: 10.1007/978-3-658-20540-9>. This could lead to a misleading interpretation of the underlying structures [Thrun, 2018]. By means of the 3D topographic map the generalized Umatrix is able to depict errors of these two-dimensional scatter plots. The package is derived from the book of Thrun, M.C.: "Projection Based Clustering through Self-Organization and Swarm Intelligence" (2018) <DOI:10.1007/978-3-658-20540-9> and the main algorithm called simplified self-organizing map for dimensionality reduction methods is published in <DOI: 10.1016/j.mex.2020.101093>.
Author: Michael Thrun [aut, cre, cph] ,
Felix Pape [ctb, ctr],
Tim Schreier [ctb, ctr],
Luis Winckelman [ctb, ctr],
Quirin Stier [ctb, ctr],
Alfred Ultsch [ths]
Maintainer: Michael Thrun <m.thrun@gmx.net>
Diff between GeneralizedUmatrix versions 1.2.2 dated 2021-01-12 and 1.2.4 dated 2022-05-25
GeneralizedUmatrix-1.2.2/GeneralizedUmatrix/src/packagename_init.c |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/DESCRIPTION | 20 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/MD5 | 45 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/NAMESPACE | 29 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/DefaultColorSequence.R |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/GeneralizedUmatrix.R | 695 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/LowLand.R |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/RcppExports.R | 4 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/ReduceToLowLand.R |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/TopviewTopographicMap.R | 264 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/Uheights4Data.R |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/UniqueBestMatchingUnits.R |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/plotTopographicMap.R | 2 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/R/sESOM4BMUs.R | 202 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/build/partial.rdb |binary GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/build/vignette.rds |binary GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/inst/doc/GeneralizedUmatrix.html |12817 ++++++---- GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/GeneralizedUmatrix.Rd | 19 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/LowLand.Rd |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/ReduceToLowLand.Rd |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/TopviewTopographicMap.Rd | 26 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/Uheights4Data.Rd |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/UniqueBestMatchingUnits.Rd |only GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/man/sESOM4BMUs.Rd | 11 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/src/Makevars | 22 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/src/Makevars.win | 27 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/src/RcppExports.cpp | 37 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/src/trainstepC.cpp | 15 GeneralizedUmatrix-1.2.4/GeneralizedUmatrix/src/trainstepC2.cpp |only 29 files changed, 9070 insertions(+), 5165 deletions(-)
More information about GeneralizedUmatrix at CRAN
Permanent link
Title: Fitting Bayesian Poisson Regression
Description: Posterior sampling and inference for Bayesian Poisson regression models. The model specification makes use of Gaussian (or conditionally Gaussian) prior distributions on the regression coefficients. Details on the algorithm are found in D'Angelo and Canale (2021) <arXiv:2109.09520>.
Author: Laura D'Angelo
Maintainer: Laura D'Angelo <laura.dangelo@live.com>
Diff between bpr versions 1.0.4 dated 2021-09-22 and 1.0.5 dated 2022-05-25
DESCRIPTION | 10 +++--- MD5 | 8 ++--- build/partial.rdb |binary src/is_polya_adaptive.cpp | 23 +++++--------- src/is_polya_horseshoe_adaptive.cpp | 56 +++++++++++++----------------------- 5 files changed, 39 insertions(+), 58 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-13 0.0.1
Title: Prediction Intervals with Random Forests and Boosted Forests
Description: Implements various prediction interval methods with random forests and boosted forests.
The package has two main functions: pibf() produces prediction intervals with boosted forests
(PIBF) as described in Alakus et al. (2021) <arXiv:2106.08217> and rfpi() builds 15 distinct
variations of prediction intervals with random forests (RFPI) proposed by Roy and Larocque (2020)
<doi:10.1177/0962280219829885>.
Author: Cansu Alakus [aut, cre],
Denis Larocque [aut],
Aurelie Labbe [aut],
Hemant Ishwaran [ctb] ,
Udaya B. Kogalur [ctb]
Maintainer: Cansu Alakus <cansu.alakus@hec.ca>
Diff between RFpredInterval versions 1.0.5 dated 2022-01-20 and 1.0.6 dated 2022-05-25
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 3 +++ R/RFpredInterval-package.R | 30 +++++++++++++++--------------- R/formpi.functions.R | 2 +- R/piall.R | 29 +++++++++++++++++++++++++---- R/pibf.R | 29 +++++++++++++++++++++++++---- R/rfpi.R | 29 +++++++++++++++++++++++++---- R/utilities.R | 20 ++++++++++---------- README.md | 2 -- configure | 18 +++++++++--------- configure.ac | 2 +- man/RFpredInterval-package.Rd | 29 +++++++++++++++-------------- 13 files changed, 145 insertions(+), 80 deletions(-)
More information about RFpredInterval at CRAN
Permanent link
Title: Graphical Extension with Accuracy in Parameter Estimation
(GAIPE)
Description: Implements graphical extension with accuracy in parameter estimation (AIPE) on RMSEA for sample size planning in structural equation modeling based on Lin, T.-Z. & Weng, L.-J. (2014) <doi: 10.1080/10705511.2014.915380>. And, it can also implement AIPE on RMSEA and power analysis on RMSEA.
Author: Tzu-Yao Lin
Maintainer: Yao Lin <zaiyaolin@gmail.com>
Diff between GAIPE versions 1.0 dated 2013-04-17 and 1.1 dated 2022-05-25
DESCRIPTION | 20 +--- MD5 | 23 ++-- NAMESPACE | 6 + NEWS |only R/AIPE.RMSEA.R | 38 +++++-- R/CI.RMSEA.R | 201 ++++++++++++++++++++++++++++++++-------- R/GAIPE.RMSEA.R | 253 ++++++++++++++++++++++++++++++++------------------- R/PA.RMSEA.R | 91 ++++++++++++------ man/AIPE.RMSEA.Rd | 4 man/CI.RMSEA.Rd | 2 man/GAIPE-package.Rd | 50 +++++----- man/GAIPE.RMSEA.Rd | 128 ++++++++++++------------- man/PA.RMSEA.Rd | 104 ++++++++++++-------- 13 files changed, 585 insertions(+), 335 deletions(-)
Title: 'Rcpp' Interface to the APT Package Manager
Description: The 'APT Package Management System' provides Debian and
Debian-derived Linux systems with a powerful system to resolve package
dependencies. This package offers access directly from R. This can
only work on a system with a suitable 'libapt-pkg-dev' installation
so functionality is curtailed if such a library is not found.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppAPT versions 0.0.8 dated 2021-12-04 and 0.0.9 dated 2022-05-25
ChangeLog | 26 + DESCRIPTION | 8 MD5 | 28 - build/vignette.rds |binary cleanup | 2 inst/NEWS.Rd | 7 inst/doc/binnmuAfterR340.html | 863 +++++++++++++++++++++--------------------- inst/doc/binnmuAfterR340.md | 2 inst/scripts/configure.bash | 4 src/Makevars.in | 2 src/buildDepends.cpp | 23 - src/getPackages.cpp | 6 src/hasPackage.cpp | 10 src/reverseDepends.cpp | 7 vignettes/binnmuAfterR340.md | 2 15 files changed, 509 insertions(+), 481 deletions(-)
Title: Performs Monotone Regression
Description: The monotone package contains a fast up-and-down-blocks implementation for the pool-adjacent-violators algorithm
for simple linear ordered monotone regression, including two spin-off functions
for unimodal and bivariate monotone regression (see <doi:10.18637/jss.v102.c01>).
Author: Frank Busing [aut, cre],
Juan Claramunt Gonzalez [aut]
Maintainer: Frank Busing <busing@fsw.leidenuniv.nl>
Diff between monotone versions 0.1.1 dated 2022-05-25 and 0.1.2 dated 2022-05-25
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/legacy.R | 2 +- R/monotone.R | 2 +- man/legacy.Rd | 2 +- man/monotone.Rd | 2 +- 6 files changed, 12 insertions(+), 12 deletions(-)
Title: Multi-Layer Group-Lasso
Description: It implements a new procedure of variable selection in the context of redundancy between explanatory variables, which holds true with high dimensional data (Grimonprez et al. (2018) <https://hal.inria.fr/hal-01857242>).
Author: Quentin Grimonprez [aut, cre],
Samuel Blanck [ctb],
Alain Celisse [ths],
Guillemette Marot [ths],
Yi Yang [ctb],
Hui Zou [ctb]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Diff between MLGL versions 0.6.5 dated 2020-11-28 and 0.6.7 dated 2022-05-25
DESCRIPTION | 10 +++---- MD5 | 64 +++++++++++++++++++++++------------------------ NAMESPACE | 6 ++-- NEWS | 9 ++++++ R/HMT.R | 12 +++++--- R/MLGL-package.R | 12 +++++--- R/MLGL.R | 48 ++++++++++++++++++++++------------- R/cv.MLGL.R | 12 +++++--- R/fullProcess.R | 30 ++++++++++++++-------- R/hierarchicalFDR.R | 23 ++++++++++------ R/hierarchicalFWER.R | 15 +++++------ R/overlap.R | 9 ++++-- R/plot.R | 2 - R/predict.R | 25 ++++++++++++++++-- R/print.R | 13 ++++----- R/simuBlockGaussian.R | 3 +- R/stability.R | 15 +++++++---- R/uniqueGroupHclust.R | 2 - R/utilities.R | 6 ++-- man/HMT.Rd | 3 +- man/MLGL-package.Rd | 12 +++++--- man/MLGL.Rd | 32 +++++++++++++++-------- man/cv.MLGL.Rd | 6 ++-- man/fullProcess.Rd | 23 +++++++++++----- man/hierarchicalFDR.Rd | 11 +++++--- man/hierarchicalFWER.Rd | 8 +++-- man/listToMatrix.Rd | 6 ++-- man/overlapgglasso.Rd | 9 ++++-- man/predict.MLGL.Rd | 13 ++++++++- man/predict.cv.MLGL.Rd | 3 +- man/selFDR.Rd | 6 ++-- man/simuBlockGaussian.Rd | 3 +- man/stability.MLGL.Rd | 9 ++++-- 33 files changed, 296 insertions(+), 164 deletions(-)
Title: Visualizations for 'mlr3'
Description: Provides visualizations for 'mlr3' objects such as tasks,
predictions, resample results or benchmark results via the autoplot()
generic of 'ggplot2'. The returned 'ggplot' objects are intended to
provide sensible defaults, yet can easily be customized to create
camera-ready figures. Visualizations include barplots, boxplots,
histograms, ROC curves, and Precision-Recall curves.
Author: Michel Lang [cre, aut] ,
Patrick Schratz [aut] ,
Raphael Sonabend [aut] ,
Marc Becker [aut] ,
Jakob Richter [aut] ,
Damir Pulatov [ctb]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3viz versions 0.5.8 dated 2022-04-04 and 0.5.9 dated 2022-05-25
mlr3viz-0.5.8/mlr3viz/R/PredictionSurv.R |only mlr3viz-0.5.8/mlr3viz/R/TaskDens.R |only mlr3viz-0.5.8/mlr3viz/R/TaskSurv.R |only mlr3viz-0.5.8/mlr3viz/man/autoplot.PredictionSurv.Rd |only mlr3viz-0.5.8/mlr3viz/man/autoplot.TaskDens.Rd |only mlr3viz-0.5.8/mlr3viz/man/autoplot.TaskSurv.Rd |only mlr3viz-0.5.8/mlr3viz/tests/testthat/_snaps/PredictionSurv |only mlr3viz-0.5.8/mlr3viz/tests/testthat/_snaps/TaskDens |only mlr3viz-0.5.8/mlr3viz/tests/testthat/test_PredictionSurv.R |only mlr3viz-0.5.8/mlr3viz/tests/testthat/test_TaskDens.R |only mlr3viz-0.5.8/mlr3viz/tests/testthat/test_TaskSurv.R |only mlr3viz-0.5.9/mlr3viz/DESCRIPTION | 25 ++++------ mlr3viz-0.5.9/mlr3viz/MD5 | 32 +++---------- mlr3viz-0.5.9/mlr3viz/NAMESPACE | 5 -- mlr3viz-0.5.9/mlr3viz/NEWS.md | 8 +++ mlr3viz-0.5.9/mlr3viz/R/bibentries.R | 11 ---- mlr3viz-0.5.9/mlr3viz/README.md | 10 ++-- mlr3viz-0.5.9/mlr3viz/build/partial.rdb |binary mlr3viz-0.5.9/mlr3viz/man/figures/README-demo-1.png |binary mlr3viz-0.5.9/mlr3viz/man/figures/README-demo-2.png |binary 20 files changed, 33 insertions(+), 58 deletions(-)
Title: Recommended Learners for 'mlr3'
Description: Recommended Learners for 'mlr3'. Extends 'mlr3'
with interfaces to essential machine learning packages on
CRAN. This includes, but is not limited to: (penalized) linear and
logistic regression, linear and quadratic discriminant analysis,
k-nearest neighbors, naive Bayes, support vector machines, and
gradient boosting.
Author: Michel Lang [cre, aut] ,
Quay Au [aut] ,
Stefan Coors [aut] ,
Patrick Schratz [aut]
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3learners versions 0.5.2 dated 2022-01-22 and 0.5.3 dated 2022-05-25
mlr3learners-0.5.2/mlr3learners/R/LearnerSurvCVGlmnet.R |only mlr3learners-0.5.2/mlr3learners/R/LearnerSurvGlmnet.R |only mlr3learners-0.5.2/mlr3learners/R/LearnerSurvRanger.R |only mlr3learners-0.5.2/mlr3learners/R/LearnerSurvXgboost.R |only mlr3learners-0.5.2/mlr3learners/inst/paramtest/test_paramtest_surv.cv_glmnet.R |only mlr3learners-0.5.2/mlr3learners/inst/paramtest/test_paramtest_surv.glmnet.R |only mlr3learners-0.5.2/mlr3learners/inst/paramtest/test_paramtest_surv.ranger.R |only mlr3learners-0.5.2/mlr3learners/inst/paramtest/test_paramtest_surv.xgboost.R |only mlr3learners-0.5.2/mlr3learners/man/mlr_learners_surv.cv_glmnet.Rd |only mlr3learners-0.5.2/mlr3learners/man/mlr_learners_surv.glmnet.Rd |only mlr3learners-0.5.2/mlr3learners/man/mlr_learners_surv.ranger.Rd |only mlr3learners-0.5.2/mlr3learners/man/mlr_learners_surv.xgboost.Rd |only mlr3learners-0.5.2/mlr3learners/tests/testthat/test_surv_cv_glmnet.R |only mlr3learners-0.5.2/mlr3learners/tests/testthat/test_surv_glmnet.R |only mlr3learners-0.5.2/mlr3learners/tests/testthat/test_surv_ranger.R |only mlr3learners-0.5.2/mlr3learners/tests/testthat/test_surv_xgboost.R |only mlr3learners-0.5.3/mlr3learners/DESCRIPTION | 16 - mlr3learners-0.5.3/mlr3learners/MD5 | 96 ++---- mlr3learners-0.5.3/mlr3learners/NAMESPACE | 4 mlr3learners-0.5.3/mlr3learners/NEWS.md | 6 mlr3learners-0.5.3/mlr3learners/R/LearnerClassifGlmnet.R | 4 mlr3learners-0.5.3/mlr3learners/R/LearnerClassifKKNN.R | 22 + mlr3learners-0.5.3/mlr3learners/R/LearnerClassifMultinom.R | 5 mlr3learners-0.5.3/mlr3learners/R/LearnerClassifNnet.R | 7 mlr3learners-0.5.3/mlr3learners/R/LearnerClassifRanger.R | 6 mlr3learners-0.5.3/mlr3learners/R/LearnerClassifXgboost.R | 2 mlr3learners-0.5.3/mlr3learners/R/LearnerRegrKKNN.R | 22 + mlr3learners-0.5.3/mlr3learners/R/LearnerRegrRanger.R | 4 mlr3learners-0.5.3/mlr3learners/R/LearnerRegrXgboost.R | 2 mlr3learners-0.5.3/mlr3learners/R/zzz.R | 6 mlr3learners-0.5.3/mlr3learners/README.md | 11 mlr3learners-0.5.3/mlr3learners/build/partial.rdb |binary mlr3learners-0.5.3/mlr3learners/inst/paramtest/test_paramtest_classif.kknn.R | 3 mlr3learners-0.5.3/mlr3learners/inst/paramtest/test_paramtest_regr.kknn.R | 3 mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.cv_glmnet.Rd | 116 ++------ mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.glmnet.Rd | 114 ++------ mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.kknn.Rd | 80 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.lda.Rd | 71 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.log_reg.Rd | 86 ++---- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.multinom.Rd | 92 ++---- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.naive_bayes.Rd | 67 ++-- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.nnet.Rd | 80 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.qda.Rd | 69 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.ranger.Rd | 109 ++----- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.svm.Rd | 80 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_classif.xgboost.Rd | 138 ++-------- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.cv_glmnet.Rd | 117 ++------ mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.glmnet.Rd | 119 ++------ mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.kknn.Rd | 80 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.km.Rd | 92 ++---- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.lm.Rd | 85 ++---- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.ranger.Rd | 109 ++----- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.svm.Rd | 78 ++--- mlr3learners-0.5.3/mlr3learners/man/mlr_learners_regr.xgboost.Rd | 138 ++-------- mlr3learners-0.5.3/mlr3learners/tests/testthat/helper.R | 4 mlr3learners-0.5.3/mlr3learners/tests/testthat/test_classif_kknn.R | 6 mlr3learners-0.5.3/mlr3learners/tests/testthat/test_regr_kknn.R | 6 57 files changed, 760 insertions(+), 1395 deletions(-)
Title: Mixture Hidden Markov Models for Social Sequence Data and Other
Multivariate, Multichannel Categorical Time Series
Description: Designed for fitting hidden (latent) Markov models and mixture
hidden Markov models for social sequence data and other categorical time series.
Also some more restricted versions of these type of models are available: Markov
models, mixture Markov models, and latent class models. The package supports
models for one or multiple subjects with one or multiple parallel sequences
(channels). External covariates can be added to explain cluster membership in
mixture models. The package provides functions for evaluating and comparing
models, as well as functions for visualizing of multichannel sequence data and
hidden Markov models. Models are estimated using maximum likelihood via the EM
algorithm and/or direct numerical maximization with analytical gradients. All
main algorithms are written in C++ with support for parallel computation.
Documentation is available via several vignettes in this page, and the
paper by Helske and Helske (2019, <doi:10.18637/jss.v088.i03>).
Author: Jouni Helske [aut, cre] ,
Satu Helske [aut]
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between seqHMM versions 1.2.0 dated 2021-10-18 and 1.2.1-1 dated 2022-05-25
seqHMM-1.2.0/seqHMM/NEWS |only seqHMM-1.2.1-1/seqHMM/DESCRIPTION | 10 seqHMM-1.2.1-1/seqHMM/MD5 | 171 seqHMM-1.2.1-1/seqHMM/NEWS.md |only seqHMM-1.2.1-1/seqHMM/R/build_mm.R | 71 seqHMM-1.2.1-1/seqHMM/R/build_mmm.R | 500 seqHMM-1.2.1-1/seqHMM/R/check_deprecated_args.R | 6 seqHMM-1.2.1-1/seqHMM/R/colorpalette.R | 58 seqHMM-1.2.1-1/seqHMM/R/estimate_coef.R | 126 seqHMM-1.2.1-1/seqHMM/R/fit_model.R | 4 seqHMM-1.2.1-1/seqHMM/R/gridplot.R | 1352 - seqHMM-1.2.1-1/seqHMM/R/hidden_paths.R | 21 seqHMM-1.2.1-1/seqHMM/R/mssplot.R | 789 seqHMM-1.2.1-1/seqHMM/R/plot.hmm.R | 1294 - seqHMM-1.2.1-1/seqHMM/R/plot.mhmm.R | 406 seqHMM-1.2.1-1/seqHMM/R/posterior_probs.R | 62 seqHMM-1.2.1-1/seqHMM/R/seqHMM-package.R | 76 seqHMM-1.2.1-1/seqHMM/R/simulate_hmm.R | 306 seqHMM-1.2.1-1/seqHMM/R/ssp.R | 1422 - seqHMM-1.2.1-1/seqHMM/R/ssplot.R | 499 seqHMM-1.2.1-1/seqHMM/R/zzz.R | 12 seqHMM-1.2.1-1/seqHMM/README.md |only seqHMM-1.2.1-1/seqHMM/build/vignette.rds |binary seqHMM-1.2.1-1/seqHMM/inst/CITATION | 56 seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM.R | 84 seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM.Rnw | 34 seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM.pdf | 4033 ++-- seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM_algorithms.Rnw | 446 seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM_algorithms.pdf |binary seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM_estimation.Rnw | 356 seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM_estimation.pdf |binary seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM_visualization.Rnw | 808 seqHMM-1.2.1-1/seqHMM/inst/doc/seqHMM_visualization.pdf | 9038 +++++------ seqHMM-1.2.1-1/seqHMM/man/TraMineR_imports.Rd | 24 seqHMM-1.2.1-1/seqHMM/man/biofam3c.Rd | 176 seqHMM-1.2.1-1/seqHMM/man/build_hmm.Rd | 366 seqHMM-1.2.1-1/seqHMM/man/build_lcm.Rd | 332 seqHMM-1.2.1-1/seqHMM/man/build_mhmm.Rd | 502 seqHMM-1.2.1-1/seqHMM/man/build_mm.Rd | 123 seqHMM-1.2.1-1/seqHMM/man/build_mmm.Rd | 240 seqHMM-1.2.1-1/seqHMM/man/colorpalette.Rd | 66 seqHMM-1.2.1-1/seqHMM/man/estimate_coef.Rd | 36 seqHMM-1.2.1-1/seqHMM/man/forward_backward.Rd | 88 seqHMM-1.2.1-1/seqHMM/man/gridplot.Rd | 300 seqHMM-1.2.1-1/seqHMM/man/hidden_paths.Rd | 92 seqHMM-1.2.1-1/seqHMM/man/hmm_biofam.Rd | 182 seqHMM-1.2.1-1/seqHMM/man/hmm_mvad.Rd | 134 seqHMM-1.2.1-1/seqHMM/man/logLik.hmm.Rd | 66 seqHMM-1.2.1-1/seqHMM/man/logLik.mhmm.Rd | 66 seqHMM-1.2.1-1/seqHMM/man/mc_to_sc.Rd | 102 seqHMM-1.2.1-1/seqHMM/man/mc_to_sc_data.Rd | 148 seqHMM-1.2.1-1/seqHMM/man/mhmm_biofam.Rd | 332 seqHMM-1.2.1-1/seqHMM/man/mhmm_mvad.Rd | 182 seqHMM-1.2.1-1/seqHMM/man/mssplot.Rd | 439 seqHMM-1.2.1-1/seqHMM/man/plot.hmm.Rd | 576 seqHMM-1.2.1-1/seqHMM/man/plot.mhmm.Rd | 474 seqHMM-1.2.1-1/seqHMM/man/plot.ssp.Rd | 92 seqHMM-1.2.1-1/seqHMM/man/plot_colors.Rd | 64 seqHMM-1.2.1-1/seqHMM/man/posterior_probs.Rd | 62 seqHMM-1.2.1-1/seqHMM/man/print.Rd | 58 seqHMM-1.2.1-1/seqHMM/man/separate_mhmm.Rd | 72 seqHMM-1.2.1-1/seqHMM/man/seqHMM-deprecated.Rd | 300 seqHMM-1.2.1-1/seqHMM/man/seqHMM.Rd | 50 seqHMM-1.2.1-1/seqHMM/man/simulate_hmm.Rd | 112 seqHMM-1.2.1-1/seqHMM/man/simulate_mhmm.Rd | 230 seqHMM-1.2.1-1/seqHMM/man/simulate_pars.Rd | 82 seqHMM-1.2.1-1/seqHMM/man/ssp.Rd | 551 seqHMM-1.2.1-1/seqHMM/man/ssplot.Rd | 529 seqHMM-1.2.1-1/seqHMM/man/summary.mhmm.Rd | 136 seqHMM-1.2.1-1/seqHMM/man/trim_model.Rd | 96 seqHMM-1.2.1-1/seqHMM/man/vcov.mhmm.Rd | 78 seqHMM-1.2.1-1/seqHMM/src/EM.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/EMx.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/logSumExp.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/log_EM.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/log_EMx.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/log_objectivex.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/log_optCoef.cpp | 4 seqHMM-1.2.1-1/seqHMM/src/objectivex.cpp | 2 seqHMM-1.2.1-1/seqHMM/src/optCoef.cpp | 4 seqHMM-1.2.1-1/seqHMM/src/sa_opt_coef.cpp | 2 seqHMM-1.2.1-1/seqHMM/vignettes/mhmm.rds |only seqHMM-1.2.1-1/seqHMM/vignettes/references.bib | 1172 - seqHMM-1.2.1-1/seqHMM/vignettes/references_for_vignettes.bib | 5842 +++---- seqHMM-1.2.1-1/seqHMM/vignettes/sc_fit.rds |only seqHMM-1.2.1-1/seqHMM/vignettes/seqHMM.Rnw | 34 seqHMM-1.2.1-1/seqHMM/vignettes/seqHMM_algorithms.Rnw | 446 seqHMM-1.2.1-1/seqHMM/vignettes/seqHMM_estimation.Rnw | 356 seqHMM-1.2.1-1/seqHMM/vignettes/seqHMM_visualization.Rnw | 808 89 files changed, 19476 insertions(+), 18804 deletions(-)
Title: Format R Output to Look Like SPSS
Description: Create plots and LaTeX tables that look like SPSS output for use in teaching materials. Rather than copying-and-pasting SPSS output into documents, R code that mocks up SPSS output can be integrated directly into dynamic LaTeX documents with tools such as knitr. Functionality includes statistical techniques that are typically covered in introductory statistics classes: descriptive statistics, common hypothesis tests, ANOVA, and linear regression, as well as box plots, histograms, scatter plots, and line plots (including profile plots).
Author: Andreas Alfons [aut, cre]
Maintainer: Andreas Alfons <alfons@ese.eur.nl>
Diff between r2spss versions 0.3.1 dated 2022-03-23 and 0.3.2 dated 2022-05-25
DESCRIPTION | 10 +- MD5 | 29 ++++--- NEWS | 5 + R/Eredivisie.R |only R/Exams.R |only R/r2spss-package.R |only build/partial.rdb |binary build/vignette.rds |binary data/Eredivisie.RData |binary data/Exams.RData |binary inst/doc/r2spss-intro.Rnw | 2 inst/doc/r2spss-intro.pdf |binary man/Eredivisie.Rd | 94 ++++++++++++----------- man/Exams.Rd | 63 ++++++++------- man/r2spss-package.Rd | 43 +++++----- vignettes/r2spss-intro.Rnw | 2 vignettes/r2spss.bib | 178 ++++++++++++++++++++++----------------------- 17 files changed, 219 insertions(+), 207 deletions(-)
Title: Statistical Methods for the Item Count Technique and List
Experiment
Description: Allows researchers to conduct multivariate
statistical analyses of survey data with list experiments. This
survey methodology is also known as the item count technique or
the unmatched count technique and is an alternative to the commonly
used randomized response method. The package implements the methods
developed by Imai (2011) <doi:10.1198/jasa.2011.ap10415>,
Blair and Imai (2012) <doi:10.1093/pan/mpr048>,
Blair, Imai, and Lyall (2013) <doi:10.1111/ajps.12086>,
Imai, Park, and Greene (2014) <doi:10.1093/pan/mpu017>,
Aronow, Coppock, Crawford, and Green (2015) <doi:10.1093/jssam/smu023>,
Chou, Imai, and Rosenfeld (2017) <doi:10.1177/0049124117729711>, and
Blair, Chou, and Imai (2018) <https://imai.fas.harvard.edu/research/files/listerror.pdf>.
This includes a Bayesian MCMC implementation of regression for the
standard and multiple sensitive item list experiment designs and a
random effects setup, a Bayesian MCMC hierarchical regression model
with up to three hierarchical groups, the combined list experiment
and endorsement experiment regression model, a joint model of the
list experiment that enables the analysis of the list experiment as
a predictor in outcome regression models, a method for combining
list experiments with direct questions, and methods for diagnosing and
adjusting for response error. In addition, the package implements the
statistical test that is designed to detect certain failures of list
experiments, and a placebo test for the list experiment using data from
direct questions.
Author: Graeme Blair [aut, cre],
Winston Chou [aut],
Kosuke Imai [aut],
Bethany Park [ctb],
Alexander Coppock [ctb]
Maintainer: Graeme Blair <graeme.blair@gmail.com>
Diff between list versions 9.2.1 dated 2022-05-10 and 9.2.2 dated 2022-05-25
ChangeLog | 3 + DESCRIPTION | 8 ++-- MD5 | 66 +++++++++++++++++----------------- R/ictreg.R | 8 +++- build/vignette.rds |binary inst/doc/combined-list.html | 5 +- man/affirm.Rd | 6 ++- man/combinedListDirect.Rd | 8 +++- man/combinedListExps.Rd | 6 ++- man/comp.listEndorse.Rd | 11 ++++- man/ict.hausman.test.Rd | 2 - man/ict.test.Rd | 11 ++++- man/ictreg.Rd | 36 ++++++++++++++---- man/ictreg.joint.Rd | 13 +++++- man/ictregBayes.Rd | 43 ++++++++++++++++++---- man/ictregBayesHier.Rd | 57 ++++++++++++++++++++++------- man/mexico.Rd | 6 ++- man/mis.Rd | 6 ++- man/multi.Rd | 6 ++- man/plot.predict.ictreg.Rd | 17 ++++++-- man/predict.ictreg.Rd | 19 ++++++++- man/predict.ictreg.joint.Rd | 19 +++++++-- man/predict.ictregBayes.Rd | 14 +++++-- man/predict.ictregBayesHier.Rd | 12 ++++-- man/race.Rd | 6 ++- man/summary.ictreg.Rd | 3 - src/combine.c | 2 - src/init.c | 4 +- tests/testthat/test-combined.R | 1 tests/testthat/test-ict.test.R | 1 tests/testthat/test-ictreg.R | 21 +++++----- tests/testthat/test-ictreg.joint.R | 1 tests/testthat/test-ictregBayes.R | 3 - tests/testthat/test-ictregBayesHier.R | 4 -- 34 files changed, 294 insertions(+), 134 deletions(-)
Title: Generalised Management Strategy Evaluation Simulator
Description: Integrates game theory and ecological theory to construct
social-ecological models that simulate the management of populations and
stakeholder actions. These models build off of a previously developed
management strategy evaluation (MSE) framework to simulate all aspects of
management: population dynamics, manager observation of populations, manager
decision making, and stakeholder responses to management decisions. The
newly developed generalised management strategy evaluation (GMSE)
framework uses genetic algorithms to mimic the decision-making process of
managers and stakeholders under conditions of change, uncertainty, and
conflict. Simulations can be run using gmse(), gmse_apply(), and
gmse_gui() functions.
Author: A. Bradley Duthie [aut, cre] ,
Adrian Bach [aut],
Nils Bunnefeld [aut, fnd] ,
Jeremy Cusack [ctb] ,
Isabel Jones [ctb] ,
Jeroen Minderman [aut] ,
Erlend Nilsen [ctb] ,
Ochoa Gabriela [aut] ,
Rocio Pozo [ctb] ,
Sarobidy Rakotonarivo [ctb] ,
Bram Van M [...truncated...]
Maintainer: A. Bradley Duthie <brad.duthie@gmail.com>
Diff between GMSE versions 0.7.0.0 dated 2021-08-02 and 1.0.0.1 dated 2022-05-25
DESCRIPTION | 15 + MD5 | 44 ++--- NEWS.md | 13 + R/gmse.R | 29 ++- R/gmse_apply.R | 92 ++++++++-- R/gmse_apply_summary.R | 5 README.md | 2 build/vignette.rds |binary inst/doc/SI9.pdf |only inst/doc/SI9.pdf.asis |only man/gmse.Rd | 14 + src/game.c | 267 ++++++++++++++++++++++++++----- src/game.h | 19 +- src/landscape.c | 10 - src/manager.c | 56 +++--- src/observation.c | 40 ++-- src/resource.c | 20 +- src/user.c | 74 ++++---- src/utilities.c | 2 tests/testthat/test-gmse_sim_annealing.R |only tests/testthat/test-manager.R | 4 tests/testthat/test-observation.R | 8 tests/testthat/test-resource.R | 8 tests/testthat/test-user.R | 6 vignettes/SI9.pdf.asis |only 25 files changed, 529 insertions(+), 199 deletions(-)
Title: Retrieve Data on European Union Law
Description: Access to data on European Union laws and court decisions made easy with pre-defined 'SPARQL' queries and 'GET' requests.
Author: Michal Ovadek [aut, cre, cph]
Maintainer: Michal Ovadek <michal.ovadek@gmail.com>
Diff between eurlex versions 0.4.1 dated 2022-03-31 and 0.4.2 dated 2022-05-25
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 10 ++++++++++ R/elx_make_query.R | 31 +++++++++++++++++++++++++++---- README.md | 5 +++++ inst/doc/eurlexpkg.html | 22 +++++++++++----------- man/elx_make_query.Rd | 3 +++ 7 files changed, 65 insertions(+), 24 deletions(-)
Title: Identification and Estimation using Group Testing
Description: Methods for the group testing identification problem: 1) Operating
characteristics (e.g., expected number of tests) for commonly used
hierarchical and array-based algorithms, and 2) Optimal testing
configurations for these same algorithms. Methods for the group testing
estimation problem: 1) Estimation and inference procedures for an overall
prevalence, and 2) Regression modeling for commonly used hierarchical and
array-based algorithms.
Author: Brianna Hitt [aut, cre] ,
Christopher Bilder [aut] ,
Frank Schaarschmidt [aut] ,
Brad Biggerstaff [aut] ,
Christopher McMahan [aut] ,
Joshua Tebbs [aut] ,
Boan Zhang [ctb],
Michael Black [ctb],
Peijie Hou [ctb],
Peng Chen [ctb]
Maintainer: Brianna Hitt <brianna.hitt@afacademy.af.edu>
Diff between binGroup2 versions 1.2.3 dated 2022-05-16 and 1.2.4 dated 2022-05-25
DESCRIPTION | 12 ++++++------ MD5 | 38 +++++++++++++++++++------------------- R/OTC1.R | 22 +++++++++++----------- R/OTC2.R | 18 +++++++++--------- R/OTCMethodFunctions.R | 40 ++++++++++++++++++++-------------------- R/SupportingOTCFunctions.R | 28 ++++++++++++++-------------- R/binGroup2-package.R | 12 ++++++------ R/designFunctions.R | 4 ++-- R/gtReg.R | 4 +--- R/opCharMethodFunctions.R | 2 +- R/operatingCharacteristics2.R | 2 +- build/partial.rdb |binary man/OTC1.Rd | 22 +++++++++++----------- man/OTC2.Rd | 16 ++++++++-------- man/binGroup2.Rd | 10 +++++----- man/designPower.Rd | 4 ++-- man/gtReg.Rd | 4 +--- man/plot.OTC.Rd | 18 +++++++++--------- man/summary.OTC.Rd | 22 +++++++++++----------- man/summary.opChar.Rd | 2 +- 20 files changed, 138 insertions(+), 142 deletions(-)
Title: Performs Monotone Regression
Description: The monotone package contains a fast up-and-down-blocks implementation for the pool-adjacent-violators algorithm
for simple linear ordered monotone regression, including two spin-off functions
for unimodal and bivariate monotone regression (see <doi:10.18637/jss.v102.c01>).
Author: Frank Busing [aut, cre],
Juan Claramunt Gonzalez [aut]
Maintainer: Frank Busing <busing@fsw.leidenuniv.nl>
Diff between monotone versions 0.1.0 dated 2021-03-10 and 0.1.1 dated 2022-05-25
DESCRIPTION | 13 ++++++------- MD5 | 19 ++++++++++--------- R/bimonotone.R | 5 +++-- R/legacy.R | 12 +++++++----- R/monotone.R | 6 ++++-- R/unimonotone.R | 5 +++-- inst |only man/bimonotone.Rd | 5 +++-- man/legacy.Rd | 10 +++++----- man/monotone.Rd | 6 ++++-- man/unimonotone.Rd | 5 +++-- 11 files changed, 48 insertions(+), 38 deletions(-)
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson <mark.stevenson1@unimelb.edu.au> and Evan Sergeant <evansergeant@gmail.com> with contributions from Telmo Nunes, Cord Heuer, Jonathon Marshall, Javier Sanchez, Ron Thornton, Jeno Reiczigel, Jim Robison-Cox, Paola Sebastiani, Peter Soly [...truncated...]
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.46 dated 2022-03-31 and 2.0.48 dated 2022-05-25
DESCRIPTION | 8 - MD5 | 22 ++-- NEWS | 18 +++ R/epi.kappa.R | 8 - R/epi.prev.R | 143 +++++++++++++++++++---------- inst/doc/epiR_descriptive.html | 32 +++--- inst/doc/epiR_measures_of_association.html | 52 +++++----- inst/doc/epiR_sample_size.html | 4 inst/doc/epiR_surveillance.Rmd | 20 ++-- inst/doc/epiR_surveillance.html | 84 ++++++++--------- man/epi.prev.Rd | 18 ++- vignettes/epiR_surveillance.Rmd | 20 ++-- 12 files changed, 253 insertions(+), 176 deletions(-)
Title: Soil Hydraulic Properties
Description: Provides functions for (1) soil water retention (SWC) and unsaturated hydraulic conductivity (Ku) (van Genuchten-Mualem (vGM or vG) [1, 2], Peters-Durner-Iden (PDI) [3, 4, 5], Brooks and Corey (bc) [8]), (2) fitting of parameter for SWC and/or Ku using Shuffled Complex Evolution (SCE) optimisation and (3) calculation of soil hydraulic properties (Ku and soil water contents) based on the simplified evaporation method (SEM) [6, 7].
Main references:
[1] van Genuchten (1980) <doi:10.2136/sssaj1980.03615995004400050002x>,
[2] Mualem (1976) <doi:10.1029/WR012i003p00513>,
[3] Peters (2013) <doi:10.1002/wrcr.20548>,
[4] Iden and Durner (2013) <doi:10.1002/2014WR015937>,
[5] Peters (2014) <doi:10.1002/2014WR015937>,
[6] Wind G. P. (1966),
[7] Peters and Durner (2008) <doi:10.1016/j.jhydrol.2008.04.016> and
[8] Brooks and Corey (1964).
Author: Ullrich Dettmann [aut, cre],
Felix Andrews [ctb] which is not on r-cran
. The SCEoptim function is
adapted, and substantially revised from Brecht Donckels MATLAB code
which is in turn adopted from Qingyun Duans MATLAB code),
Brecht Donckels [ctb] ,
[...truncated...]
Maintainer: Ullrich Dettmann <ullrich.dettmann@thuenen.de>
Diff between SoilHyP versions 0.1.5 dated 2021-01-08 and 0.1.6 dated 2022-05-25
DESCRIPTION | 10 +++++----- MD5 | 52 ++++++++++++++++++++++++++-------------------------- R/DK_to_SWC.R | 11 ++++++----- R/Kcap.R | 2 +- R/Kfilm.R | 2 +- R/Ku.R | 4 ++-- R/SEM.R | 7 +++---- R/SWC.R | 5 +++-- R/Sad.R | 2 +- R/Sat.R | 2 +- R/Sat_old.R | 2 +- R/Scap.R | 2 +- R/dataSEM.R | 9 +++++---- R/dataSHP.R | 8 ++++---- R/dataTestthat.R | 18 +++++++++--------- man/Kcap.Rd | 2 +- man/Kfilm.Rd | 2 +- man/Ku.Rd | 4 ++-- man/SEM.Rd | 7 +++---- man/SWC.Rd | 4 ++-- man/Sad.Rd | 2 +- man/Sat.Rd | 2 +- man/Sat_old.Rd | 2 +- man/Scap.Rd | 2 +- man/dataSEM.Rd | 9 +++++---- man/dataSHP.Rd | 8 ++++---- man/dataTestthat.Rd | 18 +++++++++--------- 27 files changed, 100 insertions(+), 98 deletions(-)
Title: The Second Dimension of Spatial Association
Description: Most of the current methods explore spatial association using
observations at sample locations, which are defined as the first
dimension of spatial association (FDA). The proposed concept of
the second dimension of spatial association (SDA) aims to extract
in-depth information about the geographical environment from
locations outside sample locations for exploring spatial
association.
Author: Yongze Song [aut, cre]
Maintainer: Yongze Song <yongze.song@postgrad.curtin.edu.au>
Diff between SecDim versions 1.3 dated 2022-05-02 and 2.2 dated 2022-05-25
DESCRIPTION | 22 ++++++++++++---------- MD5 | 20 ++++++++++++++------ NAMESPACE | 1 + R/data.R | 13 +++++++++++++ R/selectvarlm.R | 5 ++++- R/selectvarsda.R | 2 +- build |only data/sample_vars_fda.rda |only inst |only man/sample_vars_fda.Rd |only man/selectvarsda.Rd | 2 +- vignettes |only 12 files changed, 46 insertions(+), 19 deletions(-)
Title: Model Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Model menu includes interfaces for linear and logistic
regression, naive Bayes, neural networks, classification and regression trees,
model evaluation, collaborative filtering, decision analysis, and simulation.
The application extends the functionality in 'radiant.data'.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.model versions 1.4.3 dated 2021-12-21 and 1.4.4 dated 2022-05-25
DESCRIPTION | 10 ++-- MD5 | 40 ++++++++-------- NEWS.md | 4 + R/crtree.R | 6 +- R/evalbin.R | 113 +++++++++++++++++++++++------------------------ R/gbt.R | 2 R/nn.R | 100 +++++++++++++++++++---------------------- README.md | 8 +-- man/auc.Rd | 1 man/confusion.Rd | 1 man/evalbin.Rd | 1 man/nn.Rd | 1 man/plot.confusion.Rd | 1 man/plot.evalbin.Rd | 1 man/plot.nn.Rd | 1 man/predict.nn.Rd | 1 man/profit.Rd | 1 man/rig.Rd | 1 man/summary.confusion.Rd | 1 man/summary.evalbin.Rd | 1 man/summary.nn.Rd | 1 21 files changed, 142 insertions(+), 154 deletions(-)
Title: Data Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Data menu includes interfaces for loading, saving,
viewing, visualizing, summarizing, transforming, and combining data. It also
contains functionality to generate reproducible reports of the analyses
conducted in the application.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.data versions 1.4.1 dated 2021-11-12 and 1.4.2 dated 2022-05-25
DESCRIPTION | 16 ++--- MD5 | 26 ++++---- NAMESPACE | 1 NEWS.md | 5 + R/aaa.R | 2 R/radiant.R | 124 +++++++++++++++++++++------------------- R/visualize.R | 18 +---- README.md | 14 ++-- inst/app/global.R | 2 inst/app/radiant.R | 4 - inst/app/tools/app/about.md | 8 +- inst/app/tools/app/tutorials.md | 11 --- man/sshh.Rd | 2 man/sshhr.Rd | 2 14 files changed, 116 insertions(+), 119 deletions(-)
Title: The Online Regularized K-Means Clustering Algorithm
Description: Algorithm of online regularized k-means to deal with online multi(single) view data.
The philosophy of the package is described in Guo G. (2020)
<doi:10.1080/02331888.2020.1823979>.
Author: Guangbao Guo [aut, cre] ,
Miao Yu [aut],
Haoyue Song [aut],
Ruiling Niu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between ORKM versions 0.0.2.1 dated 2022-04-25 and 0.1.1.1 dated 2022-05-25
DESCRIPTION | 8 ++++---- MD5 | 34 +++++++++++++++++++++------------- R/DMC.R | 33 ++++++++++++++------------------- R/KMeans.R | 26 +++++++++++++++----------- R/OGD.R | 4 ++-- R/OMU.R | 5 ++--- R/ORKMeans.R | 23 +++++++++++------------ R/PKMeans.R | 4 ++-- R/RKMeans.R | 17 +++++++++-------- data/QCM.rda |only data/movie1.rda |only data/movie2.rda |only data/turelabel.rda |only man/DMC.Rd | 10 +++++----- man/KMeans.Rd | 10 +++++----- man/ORKMeans.Rd | 2 +- man/PKMeans.Rd | 2 +- man/QCM.Rd |only man/RKMeans.Rd | 10 +++++----- man/movie1.Rd |only man/movie2.Rd |only man/turelabel.Rd |only 22 files changed, 97 insertions(+), 91 deletions(-)
Title: Meteorological Tools
Description: Meteorological Tools following the FAO56 irrigation paper of Allen et al. (1998) [1].
Functions for calculating:
reference evapotranspiration (ETref),
extraterrestrial radiation (Ra),
net radiation (Rn),
saturation vapor pressure (satVP),
global radiation (Rs),
soil heat flux (G),
daylight hours,
and more.
[1] Allen, R. G., Pereira, L. S., Raes, D., & Smith, M. (1998). Crop evapotranspiration-Guidelines for computing crop water requirements-FAO Irrigation and drainage paper 56. FAO, Rome, 300(9).
Author: Ullrich Dettmann [aut, cre],
R. Grima [aut]
Maintainer: Ullrich Dettmann <ullrich.dettmann@thuenen.de>
Diff between MeTo versions 0.1.0 dated 2019-01-11 and 0.1.1 dated 2022-05-25
DESCRIPTION | 13 ++++++------- MD5 | 48 ++++++++++++++++++++++++------------------------ R/ETref.R | 1 + R/Ra.R | 4 ++-- R/Rn.R | 10 +++++----- R/Rns.R | 4 ++-- R/Rso.R | 8 ++++---- R/estG.R | 14 ++++++++------ R/estP.r | 12 ++++++------ R/estRs.R | 6 +++--- R/w.R | 4 ++-- man/ETref.Rd | 25 +++++++++++++++++++++---- man/Ra.Rd | 7 +++---- man/Rn.Rd | 32 +++++++++++++++++++++++--------- man/Rnl.Rd | 20 +++++++++++++++++--- man/Rns.Rd | 4 ++-- man/Rso.Rd | 19 +++++++++++++------ man/VP.Rd | 16 +++++++++++++--- man/constDefaults.Rd | 6 ++++-- man/controlDefaults.Rd | 6 ++++-- man/estG.Rd | 29 ++++++++++++++++++++--------- man/estP.Rd | 12 ++++++------ man/estRs.Rd | 16 +++++++++++----- man/satVP.Rd | 9 +++++++-- man/w.Rd | 4 ++-- 25 files changed, 209 insertions(+), 120 deletions(-)
Title: Infrastructure for Computing with Basis Functions
Description: Some very simple infrastructure for basis functions.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between basefun versions 1.1-2 dated 2022-01-14 and 1.1-3 dated 2022-05-25
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/Bernstein.R | 7 ++++++- inst/NEWS.Rd | 7 +++++++ tests/bases-Ex.R | 55 ++++++++++++++++++++++++++++++++++++------------------- 5 files changed, 57 insertions(+), 28 deletions(-)
Title: Selenium Plugin to Manage Multi Level Shadow Elements on Web
Page
Description: Shadow Document Object Model is a web standard that offers component style and markup encapsulation.
It is a critically important piece of the Web Components story as it ensures that a component will work in any environment even if other CSS or JavaScript is at play on the page.
Custom HTML tags can't be directly identified with selenium tools, because Selenium doesn't provide any way to deal with shadow elements.
Using this plugin you can handle any custom HTML tags.
Author: Ricardo Landolt [cre, aut],
Sushil Gupta [ctb]
Maintainer: Ricardo Landolt <ricardo.landolt1@gmail.com>
Diff between shadowr versions 0.0.1 dated 2022-04-22 and 0.0.2 dated 2022-05-25
DESCRIPTION | 6 MD5 | 27 +- NAMESPACE | 60 +++--- NEWS.md | 2 README.md | 11 - inst/figures |only inst/resources/test/button.html | 34 +-- inst/resources/test/index.html | 24 +- inst/resources/test/script.js | 28 +- inst/resources/test/style.css | 6 man/convert_js_to_text.Rd | 24 +- man/shadow-class.Rd | 352 ++++++++++++++++++------------------- man/shadow.Rd | 42 ++-- tests/testthat.R | 8 tests/testthat/test-check-output.R | 155 +++++----------- 15 files changed, 366 insertions(+), 413 deletions(-)
Title: The Truncated Elliptical Family of Distributions
Description: It offers random numbers generation from members of the truncated multivariate elliptical family of distribution such as the truncated versions of the Normal, Student-t, Pearson VII, Slash, Logistic, among others. Particular distributions can be provided by specifying the density generating function. It also computes the first two moments (covariance matrix as well) for some particular distributions.
References used for this package: Galarza, C. E., Matos, L. A., Castro, L. M., & Lachos, V. H. (2022). Moments of the doubly truncated selection elliptical distributions with emphasis on the unified multivariate skew-t distribution. Journal of Multivariate Analysis, 189, 104944 <doi:10.1016/j.jmva.2021.104944>; Ho, H. J., Lin, T. I., Chen, H. Y., & Wang, W. L. (2012). Some results on the truncated multivariate t distribution. Journal of Statistical Planning and Inference, 142(1), 25-40 <doi:10.1016/j.jspi.2011.06.006>; Valeriano, K. A., Galarza, C. E., & Matos, L. A. (2021). Moments and random number generation for the truncated elliptical family of distributions. arXiv preprint <arXiv:2112.09319>.
Author: Katherine A. L. Valeriano [aut, cre]
,
Larissa Avila Matos [ctb] ,
Christian Galarza Morales [ctb]
Maintainer: Katherine A. L. Valeriano <katandreina@gmail.com>
Diff between relliptical versions 1.1.0 dated 2022-01-07 and 1.2.0 dated 2022-05-25
DESCRIPTION | 14 +-- MD5 | 21 ++-- NAMESPACE | 1 NEWS.md |only R/Compute_Moments.R | 21 ++-- R/Random_Numbers.R | 26 +++--- README.md | 39 +++++---- build/partial.rdb |binary inst/REFERENCES.bib | 36 +++++--- man/mvtelliptical.Rd | 20 ++-- man/rtelliptical.Rd | 16 ++- src/Functions.cpp | 215 ++++++++++++--------------------------------------- 12 files changed, 169 insertions(+), 240 deletions(-)
Title: Business Analytics using R and Shiny
Description: A platform-independent browser-based interface for business
analytics in R, based on the shiny package. The application combines the
functionality of 'radiant.data', 'radiant.design', 'radiant.basics',
'radiant.model', and 'radiant.multivariate'.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant versions 1.4.1 dated 2021-11-22 and 1.4.2 dated 2022-05-25
DESCRIPTION | 10 - MD5 | 26 +-- NEWS.md | 5 R/radiant.R | 57 ++++++-- README.md | 8 - build/vignette.rds |binary inst/doc/programming.R | 4 inst/doc/programming.Rmd | 4 inst/doc/programming.html | 321 ++++++++++++++++++++++++++++++++++++++++------ man/launcher.Rd | 8 + man/lin_launcher.Rd | 10 + man/mac_launcher.Rd | 10 + man/win_launcher.Rd | 10 + vignettes/programming.Rmd | 4 14 files changed, 390 insertions(+), 87 deletions(-)
More information about nimbleNoBounds at CRAN
Permanent link
Title: Access to Spanish Meteorological Stations Services
Description: Access to different Spanish meteorological stations data services and APIs (AEMET, SMC, MG,
Meteoclimatic...).
Author: Victor Granda [aut, cre] ,
Miquel de Caceres [ctb] ,
Aitor Ameztegui [ctb]
Maintainer: Victor Granda <victorgrandagarcia@gmail.com>
Diff between meteospain versions 0.0.3 dated 2021-11-05 and 0.0.4 dated 2022-05-25
DESCRIPTION | 10 MD5 | 100 ++++---- NEWS.md | 12 R/aemet_helpers.R | 11 R/get_data.R | 17 + R/meteocat_helpers.R | 8 R/meteoclimatic_helpers.R | 33 +- R/meteogalicia_helpers.R | 14 - R/ria_helpers.R | 13 - R/services_options.R | 4 R/utils.R | 95 +++++++ README.md | 63 ++--- build/vignette.rds |binary inst/doc/aemet.R | 3 inst/doc/aemet.Rmd | 4 inst/doc/aemet.html | 245 ++++++++++++++++++- inst/doc/api_limits.R | 3 inst/doc/api_limits.Rmd | 3 inst/doc/api_limits.html | 254 +++++++++++++++++++- inst/doc/compatibility.R | 3 inst/doc/compatibility.Rmd | 3 inst/doc/compatibility.html | 228 +++++++++++++++++- inst/doc/meteocat.R | 3 inst/doc/meteocat.Rmd | 4 inst/doc/meteocat.html | 252 ++++++++++++++++++-- inst/doc/meteoclimatic.R | 3 inst/doc/meteoclimatic.Rmd | 4 inst/doc/meteoclimatic.html | 216 ++++++++++++++++- inst/doc/meteogalicia.R | 3 inst/doc/meteogalicia.Rmd | 24 + inst/doc/meteogalicia.html | 261 ++++++++++++++++++--- inst/doc/ria.R | 3 inst/doc/ria.Rmd | 24 + inst/doc/ria.html | 261 +++++++++++++++++++-- man/figures/README-plot_stations-1.png |binary man/figures/README-plot_stations-2.png |binary man/get_meteo_from.Rd | 1 man/get_stations_info_from.Rd | 1 tests/testthat/test-aemet.R | 22 + tests/testthat/test-concordance_between_services.R | 3 tests/testthat/test-meteocat.R | 77 ++++-- tests/testthat/test-meteoclimatic.R | 4 tests/testthat/test-meteogalicia.R | 37 ++ tests/testthat/test-riaa.R | 13 - vignettes/aemet.Rmd | 4 vignettes/api_limits.Rmd | 3 vignettes/compatibility.Rmd | 3 vignettes/meteocat.Rmd | 4 vignettes/meteoclimatic.Rmd | 4 vignettes/meteogalicia.Rmd | 24 + vignettes/ria.Rmd | 24 + 51 files changed, 2099 insertions(+), 309 deletions(-)
Title: Fit, Simulate and Diagnose Exponential-Family Models for
Networks with Count Edges
Description: A set of extensions for the 'ergm' package to fit weighted networks whose edge weights are counts. See Krivitsky (2012) <doi:10.1214/12-EJS696> and Krivitsky, Hunter, Morris, and Klumb (2021) <arXiv:2106.04997>.
Author: Pavel N. Krivitsky [aut, cre] ,
Mark S. Handcock [ctb],
David R. Hunter [ctb],
Joyce Cheng [ctb]
Maintainer: Pavel N. Krivitsky <pavel@statnet.org>
Diff between ergm.count versions 4.0.2 dated 2021-06-18 and 4.1.1 dated 2022-05-25
ergm.count-4.0.2/ergm.count/build/partial.rdb |only ergm.count-4.0.2/ergm.count/man/ergm-references.Rd |only ergm.count-4.0.2/ergm.count/man/ergm-terms.Rd |only ergm.count-4.0.2/ergm.count/src/wtMHproposals.h |only ergm.count-4.0.2/ergm.count/tests/testnet3d.RData |only ergm.count-4.0.2/ergm.count/tests/valued_fit.R |only ergm.count-4.0.2/ergm.count/tests/valued_sim.R |only ergm.count-4.1.1/ergm.count/DESCRIPTION | 22 ergm.count-4.1.1/ergm.count/LICENSE | 2 ergm.count-4.1.1/ergm.count/MD5 | 66 +- ergm.count-4.1.1/ergm.count/R/InitErgmReference.R | 99 +++ ergm.count-4.1.1/ergm.count/R/InitWtErgmProposal.R | 113 ++-- ergm.count-4.1.1/ergm.count/R/InitWtErgmTerm.R | 49 + ergm.count-4.1.1/ergm.count/R/data.R | 6 ergm.count-4.1.1/ergm.count/R/ergm.count-package.R | 36 + ergm.count-4.1.1/ergm.count/R/zzz.R | 13 ergm.count-4.1.1/ergm.count/build/ergm.count.pdf |only ergm.count-4.1.1/ergm.count/build/vignette.rds |binary ergm.count-4.1.1/ergm.count/inst/CITATION | 17 ergm.count-4.1.1/ergm.count/inst/NEWS.Rd | 51 + ergm.count-4.1.1/ergm.count/inst/doc/valued.R | 7 ergm.count-4.1.1/ergm.count/inst/doc/valued.Rmd | 10 ergm.count-4.1.1/ergm.count/inst/doc/valued.html | 350 ++++++------ ergm.count-4.1.1/ergm.count/man/Binomial-ergmReference.Rd |only ergm.count-4.1.1/ergm.count/man/CMB-ergmTerm.Rd |only ergm.count-4.1.1/ergm.count/man/CMP-ergmTerm.Rd |only ergm.count-4.1.1/ergm.count/man/Disc-ergmProposal.Rd |only ergm.count-4.1.1/ergm.count/man/DiscTNT-ergmProposal.Rd |only ergm.count-4.1.1/ergm.count/man/Geometric-ergmReference.Rd |only ergm.count-4.1.1/ergm.count/man/Poisson-ergmReference.Rd |only ergm.count-4.1.1/ergm.count/man/ZIPoisson-ergmProposal.Rd |only ergm.count-4.1.1/ergm.count/man/ergm.count-package.Rd | 39 + ergm.count-4.1.1/ergm.count/man/zach.Rd | 4 ergm.count-4.1.1/ergm.count/src/include_stubs.c | 2 ergm.count-4.1.1/ergm.count/src/init.c | 2 ergm.count-4.1.1/ergm.count/src/wtMHproposals.c | 366 ++++--------- ergm.count-4.1.1/ergm.count/src/wtchangestats.c | 2 ergm.count-4.1.1/ergm.count/src/wtchangestats.h | 2 ergm.count-4.1.1/ergm.count/tests/testthat |only ergm.count-4.1.1/ergm.count/tests/testthat.R |only ergm.count-4.1.1/ergm.count/vignettes/timings.csv |only ergm.count-4.1.1/ergm.count/vignettes/valued.Rmd | 10 ergm.count-4.1.1/ergm.count/vignettes/valued.bib | 183 ++---- 43 files changed, 797 insertions(+), 654 deletions(-)
Title: Tools for DYRESM-CAEDYM Model Development: Calibration Assistant
and Post-Processing
Description: Tools for DYRESM-CAEDYM model development, including assisting with calibrating selected model parameters and visualising model output through time series plot, profile plot, contour plot, and scatter plot.
Author: Songyan Yu [aut, cre] ,
Christopher McBride [ctb],
Marieke Frassl [ctb]
Maintainer: Songyan Yu <sunny.yu@griffith.edu.au>
Diff between dycdtools versions 0.4.1 dated 2022-05-08 and 0.4.2 dated 2022-05-25
dycdtools-0.4.1/dycdtools/R/dycdtools.R |only dycdtools-0.4.2/dycdtools/DESCRIPTION | 7 dycdtools-0.4.2/dycdtools/MD5 | 69 +- dycdtools-0.4.2/dycdtools/NAMESPACE | 1 dycdtools-0.4.2/dycdtools/NEWS.md | 5 dycdtools-0.4.2/dycdtools/R/Fun_Calib-assist.R | 261 ++++++---- dycdtools-0.4.2/dycdtools/R/Fun_Change-input-file.R | 8 dycdtools-0.4.2/dycdtools/R/Fun_Contour-plot_sim.R | 107 ++-- dycdtools-0.4.2/dycdtools/R/Fun_Contour-plot_sim_obs.R | 171 +++--- dycdtools-0.4.2/dycdtools/R/Fun_Extract-simulation.R | 64 +- dycdtools-0.4.2/dycdtools/R/Fun_Interpol.R | 48 + dycdtools-0.4.2/dycdtools/R/Fun_Objective-func.R | 44 + dycdtools-0.4.2/dycdtools/R/Fun_Profile-plot.R | 58 +- dycdtools-0.4.2/dycdtools/R/Fun_Run-iteration.R | 29 - dycdtools-0.4.2/dycdtools/R/Fun_Scatter-plot.R | 52 + dycdtools-0.4.2/dycdtools/R/Fun_TS-plot.R | 142 +++-- dycdtools-0.4.2/dycdtools/R/obs_temp.R | 6 dycdtools-0.4.2/dycdtools/R/output_name.R | 5 dycdtools-0.4.2/dycdtools/README.md | 154 +++++ dycdtools-0.4.2/dycdtools/man/calib_assist.Rd | 119 +++- dycdtools-0.4.2/dycdtools/man/change_input_file.Rd | 10 dycdtools-0.4.2/dycdtools/man/ext_output.Rd | 24 dycdtools-0.4.2/dycdtools/man/interpol.Rd | 30 - dycdtools-0.4.2/dycdtools/man/objective_fun.Rd | 33 - dycdtools-0.4.2/dycdtools/man/obs_temp.Rd | 6 dycdtools-0.4.2/dycdtools/man/output_name.Rd | 5 dycdtools-0.4.2/dycdtools/man/plot_cont.Rd | 49 - dycdtools-0.4.2/dycdtools/man/plot_cont_comp.Rd | 76 +- dycdtools-0.4.2/dycdtools/man/plot_prof.Rd | 40 - dycdtools-0.4.2/dycdtools/man/plot_scatter.Rd | 37 - dycdtools-0.4.2/dycdtools/man/plot_ts.Rd | 56 +- dycdtools-0.4.2/dycdtools/man/run_iteration.Rd | 9 dycdtools-0.4.2/dycdtools/tests/testthat/test-FUN-plot_cont_comp.R |only dycdtools-0.4.2/dycdtools/tests/testthat/test-FUN-plot_prof.R |only dycdtools-0.4.2/dycdtools/tests/testthat/test-FUN-plot_scatter.R |only dycdtools-0.4.2/dycdtools/tests/testthat/test-FUN-plot_ts.R |only dycdtools-0.4.2/dycdtools/tests/testthat/test-Fun_Delete-space.R | 2 dycdtools-0.4.2/dycdtools/tests/testthat/test-Fun_Height2Depth.R | 2 38 files changed, 1136 insertions(+), 593 deletions(-)
Title: Algorithmic Experimental Design
Description: Algorithmic experimental designs. Calculates exact and
approximate theory experimental designs for D,A, and I
criteria. Very large designs may be created. Experimental
designs may be blocked or blocked designs created from a
candidate list, using several criteria. The blocking can be
done when whole and within plot factors interact.
Author: Bob Wheeler <bwheelerg@gmail.com>
Maintainer: Jerome Braun <jvbraun.statistics@gmail.com>
Diff between AlgDesign versions 1.2.0 dated 2019-11-29 and 1.2.1 dated 2022-05-25
AlgDesign-1.2.0/AlgDesign/INDEX |only AlgDesign-1.2.1/AlgDesign/DESCRIPTION | 6 +++--- AlgDesign-1.2.1/AlgDesign/MD5 | 15 +++++++-------- AlgDesign-1.2.1/AlgDesign/NEWS | 5 +++++ AlgDesign-1.2.1/AlgDesign/build/vignette.rds |binary AlgDesign-1.2.1/AlgDesign/inst/doc/AlgDesign.Rnw | 4 ++-- AlgDesign-1.2.1/AlgDesign/inst/doc/AlgDesign.pdf |binary AlgDesign-1.2.1/AlgDesign/src/FederovOpt.c | 2 +- AlgDesign-1.2.1/AlgDesign/vignettes/AlgDesign.Rnw | 4 ++-- 9 files changed, 20 insertions(+), 16 deletions(-)
Title: Individual-Level, Summary-Level and Single-Step Bayesian
Regression Model
Description: A user-friendly tool to fit Bayesian regression models. It can fit 3 types of Bayesian models using individual-level, summary-level, and individual plus pedigree-level (single-step) data for both Genomic prediction/selection (GS) and Genome-Wide Association Study (GWAS), it was designed to estimate joint effects and genetic parameters for a complex trait, including:
(1) fixed effects and coefficients of covariates,
(2) environmental random effects, and its corresponding variance,
(3) genetic variance,
(4) residual variance,
(5) heritability,
(6) genomic estimated breeding values (GEBV) for both genotyped and non-genotyped individuals,
(7) SNP effect size,
(8) phenotype/genetic variance explained (PVE) for single or multiple SNPs,
(9) posterior probability of association of the genomic window (WPPA),
(10) posterior inclusive probability (PIP).
The functions are not limited, we will keep on going in enriching it with more features.
References: Meuwissen et al. (2001) <doi:10.1093/genetics/157.4.1819>; Gustavo et al. (2013) <doi:10.1534/genetics.112.143313>; Habier et al. (2011) <doi:10.1186/1471-2105-12-186>; Yi et al. (2008) <doi:10.1534/genetics.107.085589>; Zhou et al. (2013) <doi:10.1371/journal.pgen.1003264>; Moser et al. (2015) <doi:10.1371/journal.pgen.1004969>; Lloyd-Jones et al. (2019) <doi:10.1038/s41467-019-12653-0>; Henderson (1976) <doi:10.2307/2529339>; Fernando et al. (2014) <doi:10.1186/1297-9686-46-50>.
Author: Lilin Yin [aut, cre, cph],
Haohao Zhang [aut, cph],
Xiaolei Liu [aut, cph]
Maintainer: Lilin Yin <ylilin@163.com>
Diff between hibayes versions 1.0.1 dated 2022-01-13 and 1.1.0 dated 2022-05-25
DESCRIPTION | 10 - MD5 | 24 +-- R/bayes.r | 42 ++++-- R/ldm.r | 3 R/sbayes.r | 23 ++- R/ssbayes.r | 58 +++++--- man/bayes.Rd | 26 ++- man/sbayes.Rd | 19 +- man/ssbayes.Rd | 30 +++- src/Bayes.cpp | 372 ++++++++++++++++++++++++++++++-------------------------- src/SBayesD.cpp | 176 +++++++++++++++----------- src/SBayesS.cpp | 174 +++++++++++++++----------- src/solver.cpp | 2 13 files changed, 555 insertions(+), 404 deletions(-)
Title: Storage Management in 'Azure'
Description: Manage storage in Microsoft's 'Azure' cloud: <https://azure.microsoft.com/en-us/product-categories/storage/>. On the admin side, 'AzureStor' includes features to create, modify and delete storage accounts. On the client side, it includes an interface to blob storage, file storage, and 'Azure Data Lake Storage Gen2': upload and download files and blobs; list containers and files/blobs; create containers; and so on. Authenticated access to storage is supported, via either a shared access key or a shared access signature (SAS). Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureStor versions 3.6.1 dated 2022-02-03 and 3.7.0 dated 2022-05-25
DESCRIPTION | 6 +-- MD5 | 44 ++++++++++++---------- NAMESPACE | 15 +++++++ NEWS.md | 9 ++++ R/AzureStor.R | 2 - R/adls_client_funcs.R | 2 - R/az_storage.R | 4 +- R/blob_client_funcs.R | 24 +++++++++--- R/blob_snapshot.R |only R/blob_transfer_internal.R | 14 +++++-- R/blob_version.R |only R/client_generics.R | 67 ++++++++++++++++++++++++++++++++-- R/file_client_funcs.R | 2 - R/storage_metadata.R | 12 +++++- R/storage_properties.R | 13 +++++- man/adls.Rd | 5 +- man/blob.Rd | 15 ++++--- man/file.Rd | 5 +- man/generics.Rd | 39 ++++++++++++++++++- man/metadata.Rd | 4 +- man/properties.Rd | 6 ++- man/snapshot.Rd |only man/version.Rd |only tests/testthat/test02f_blobsnapshot.R |only tests/testthat/test02g_blobversion.R |only tests/testthat/test10a_service_sas.R | 15 +++++++ 26 files changed, 245 insertions(+), 58 deletions(-)
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