Title: Prediction Model Tools
Description: Provides additional functions for evaluating predictive models, including plotting calibration curves and model-based Receiver Operating Characteristic (mROC) based on Sadatsafavi et al (2021) <arXiv:2003.00316>.
Author: Mohsen Sadatsafavi [aut, cph] ,
Amin Adibi [cre] ,
Abdollah Safari [aut],
Tae Yoon Lee [aut]
Maintainer: Amin Adibi <adibi@alumni.ubc.ca>
Diff between predtools versions 0.0.2 dated 2021-10-05 and 0.0.3 dated 2023-06-05
DESCRIPTION | 20 +- MD5 | 53 +++-- NAMESPACE | 7 NEWS.md | 4 R/calibPlot.R | 6 R/core.R |only R/gusto.R |only R/mROC.R | 3 R/predtools.R | 2 R/voipred.R |only README.md | 9 build/vignette.rds |binary data/gusto.rda |only inst/doc/UNLI2D.R |only inst/doc/UNLI2D.Rmd |only inst/doc/UNLI2D.html |only inst/doc/calibPlot.R | 4 inst/doc/calibPlot.Rmd | 4 inst/doc/calibPlot.html | 399 ++++++++++++++++++++++++++++++++---------- inst/doc/interceptAdj.R | 2 inst/doc/interceptAdj.Rmd | 2 inst/doc/interceptAdj.html | 407 +++++++++++++++++++++++++++++++++---------- inst/doc/mROC.html | 421 ++++++++++++++++++++++++++++++++++----------- man/calc_NB_moments.Rd |only man/calc_mROC_stats.Rd | 2 man/evpi_val.Rd |only man/gusto.Rd |only man/mu_max_trunc_bvn.Rd |only man/odds_adjust.Rd | 44 ++-- man/pred_summary_stat.Rd | 34 +-- tests |only vignettes/UNLI2D.Rmd |only vignettes/calibPlot.Rmd | 4 vignettes/interceptAdj.Rmd | 2 34 files changed, 1054 insertions(+), 375 deletions(-)
Title: Generate, Visualise, and Evaluate Fast-and-Frugal Decision Trees
Description: Create, visualize, and test fast-and-frugal decision trees (FFTs) using the algorithms and methods described by Phillips, Neth, Woike & Gaissmaier (2017), <doi:10.1017/S1930297500006239>.
FFTs are simple and transparent decision trees for solving binary classification problems.
FFTs can be preferable to more complex algorithms because they require very little information, are easy to understand and communicate, and are robust against overfitting.
Author: Nathaniel Phillips [aut] ,
Hansjoerg Neth [aut, cre] ,
Jan Woike [aut] ,
Wolfgang Gaissmaier [aut]
Maintainer: Hansjoerg Neth <h.neth@uni.kn>
Diff between FFTrees versions 1.9.0 dated 2023-02-08 and 2.0.0 dated 2023-06-05
FFTrees-1.9.0/FFTrees/data/irisv.RData |only FFTrees-1.9.0/FFTrees/tests/testthat/test-basic.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-goal_cost.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-ifan_v_dfan.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-mytree.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-plotFFTrees_function.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-show_cues.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-specific_datasets.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-test-predict.R |only FFTrees-1.9.0/FFTrees/tests/testthat/test-tree_ranking_checks.R |only FFTrees-2.0.0/FFTrees/DESCRIPTION | 13 FFTrees-2.0.0/FFTrees/MD5 | 229 - FFTrees-2.0.0/FFTrees/NAMESPACE | 18 FFTrees-2.0.0/FFTrees/NEWS.md | 87 FFTrees-2.0.0/FFTrees/R/FFTrees.R | 130 FFTrees-2.0.0/FFTrees/R/FFTreesdata_doc.R | 489 ++ FFTrees-2.0.0/FFTrees/R/fftrees_apply.R | 345 + FFTrees-2.0.0/FFTrees/R/fftrees_create.R | 431 +- FFTrees-2.0.0/FFTrees/R/fftrees_cuerank.R | 158 FFTrees-2.0.0/FFTrees/R/fftrees_define.R | 51 FFTrees-2.0.0/FFTrees/R/fftrees_ffttowords.R | 61 FFTrees-2.0.0/FFTrees/R/fftrees_fitcomp.R | 35 FFTrees-2.0.0/FFTrees/R/fftrees_grow_fan.R | 259 + FFTrees-2.0.0/FFTrees/R/fftrees_ranktrees.R | 23 FFTrees-2.0.0/FFTrees/R/fftrees_threshold_factor_grid.R | 33 FFTrees-2.0.0/FFTrees/R/fftrees_threshold_numeric_grid.R | 31 FFTrees-2.0.0/FFTrees/R/fftrees_wordstofftrees.R | 98 FFTrees-2.0.0/FFTrees/R/plotFFTrees_function.R | 48 FFTrees-2.0.0/FFTrees/R/predictFFTrees_function.R | 21 FFTrees-2.0.0/FFTrees/R/printFFTrees_function.R | 91 FFTrees-2.0.0/FFTrees/R/showcues_function.R | 12 FFTrees-2.0.0/FFTrees/R/summaryFFTrees_function.R | 27 FFTrees-2.0.0/FFTrees/R/util_abc.R | 277 + FFTrees-2.0.0/FFTrees/R/util_color.R | 2 FFTrees-2.0.0/FFTrees/R/util_const.R | 192 - FFTrees-2.0.0/FFTrees/R/util_data.R |only FFTrees-2.0.0/FFTrees/R/util_gfft.R | 1851 +++++++++- FFTrees-2.0.0/FFTrees/R/util_stats.R | 451 +- FFTrees-2.0.0/FFTrees/R/util_verify.R | 223 + FFTrees-2.0.0/FFTrees/README.md | 40 FFTrees-2.0.0/FFTrees/data/blood.RData |binary FFTrees-2.0.0/FFTrees/data/breastcancer.RData |binary FFTrees-2.0.0/FFTrees/data/car.RData |binary FFTrees-2.0.0/FFTrees/data/contraceptive.RData |binary FFTrees-2.0.0/FFTrees/data/creditapproval.RData |binary FFTrees-2.0.0/FFTrees/data/fertility.RData |binary FFTrees-2.0.0/FFTrees/data/forestfires.RData |binary FFTrees-2.0.0/FFTrees/data/heartdisease.RData |binary FFTrees-2.0.0/FFTrees/data/iris.v.RData |only FFTrees-2.0.0/FFTrees/data/mushrooms.RData |binary FFTrees-2.0.0/FFTrees/data/sonar.RData |binary FFTrees-2.0.0/FFTrees/data/titanic.RData |binary FFTrees-2.0.0/FFTrees/data/voting.RData |binary FFTrees-2.0.0/FFTrees/data/wine.RData |binary FFTrees-2.0.0/FFTrees/inst/CITATION | 2 FFTrees-2.0.0/FFTrees/inst/WORDLIST | 14 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_accuracy_statistics.R | 8 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_accuracy_statistics.Rmd | 8 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_accuracy_statistics.html | 10 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_examples.R | 4 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_examples.Rmd | 5 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_examples.html | 30 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_function.R | 8 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_function.Rmd | 16 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_function.html | 111 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_heart.R | 17 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_heart.Rmd | 62 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_heart.html | 135 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_mytree.R | 237 + FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_mytree.Rmd | 480 ++ FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_mytree.html | 654 ++- FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_plot.R | 4 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_plot.Rmd | 6 FFTrees-2.0.0/FFTrees/inst/doc/FFTrees_plot.html | 12 FFTrees-2.0.0/FFTrees/inst/doc/guide.R | 54 FFTrees-2.0.0/FFTrees/inst/doc/guide.Rmd | 77 FFTrees-2.0.0/FFTrees/inst/doc/guide.html | 389 ++ FFTrees-2.0.0/FFTrees/inst/gFFTs.png |only FFTrees-2.0.0/FFTrees/man/FFTrees.Rd | 76 FFTrees-2.0.0/FFTrees/man/add_fft_df.Rd |only FFTrees-2.0.0/FFTrees/man/add_nodes.Rd |only FFTrees-2.0.0/FFTrees/man/add_stats.Rd | 6 FFTrees-2.0.0/FFTrees/man/blood.Rd | 20 FFTrees-2.0.0/FFTrees/man/breastcancer.Rd | 25 FFTrees-2.0.0/FFTrees/man/car.Rd | 28 FFTrees-2.0.0/FFTrees/man/classtable.Rd | 7 FFTrees-2.0.0/FFTrees/man/comp_pred.Rd | 63 FFTrees-2.0.0/FFTrees/man/contraceptive.Rd | 43 FFTrees-2.0.0/FFTrees/man/creditapproval.Rd | 40 FFTrees-2.0.0/FFTrees/man/describe_data.Rd |only FFTrees-2.0.0/FFTrees/man/drop_nodes.Rd |only FFTrees-2.0.0/FFTrees/man/edit_nodes.Rd |only FFTrees-2.0.0/FFTrees/man/fertility.Rd | 36 FFTrees-2.0.0/FFTrees/man/fftrees_apply.Rd | 14 FFTrees-2.0.0/FFTrees/man/fftrees_create.Rd | 2 FFTrees-2.0.0/FFTrees/man/flip_exits.Rd |only FFTrees-2.0.0/FFTrees/man/forestfires.Rd | 19 FFTrees-2.0.0/FFTrees/man/get_best_tree.Rd | 14 FFTrees-2.0.0/FFTrees/man/get_exit_type.Rd |only FFTrees-2.0.0/FFTrees/man/get_fft_df.Rd |only FFTrees-2.0.0/FFTrees/man/heart.cost.Rd | 10 FFTrees-2.0.0/FFTrees/man/heartdisease.Rd | 2 FFTrees-2.0.0/FFTrees/man/iris.v.Rd | 24 FFTrees-2.0.0/FFTrees/man/mushrooms.Rd | 66 FFTrees-2.0.0/FFTrees/man/plot.FFTrees.Rd | 2 FFTrees-2.0.0/FFTrees/man/predict.FFTrees.Rd | 2 FFTrees-2.0.0/FFTrees/man/read_fft_df.Rd |only FFTrees-2.0.0/FFTrees/man/reorder_nodes.Rd |only FFTrees-2.0.0/FFTrees/man/select_nodes.Rd |only FFTrees-2.0.0/FFTrees/man/showcues.Rd | 6 FFTrees-2.0.0/FFTrees/man/sonar.Rd | 82 FFTrees-2.0.0/FFTrees/man/titanic.Rd | 3 FFTrees-2.0.0/FFTrees/man/voting.Rd | 35 FFTrees-2.0.0/FFTrees/man/wine.Rd | 21 FFTrees-2.0.0/FFTrees/man/write_fft_df.Rd |only FFTrees-2.0.0/FFTrees/tests/testthat/test_01_basic.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_02_ifan_v_dfan.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_03_level_stats.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_04_plot_all.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_05_plot_cues.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_06_replicate_fft.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_07_mytree.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_08_predict.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_09_cost.R |only FFTrees-2.0.0/FFTrees/tests/testthat/test_10_NA_data.R |only FFTrees-2.0.0/FFTrees/vignettes/FFTrees_accuracy_statistics.Rmd | 8 FFTrees-2.0.0/FFTrees/vignettes/FFTrees_examples.Rmd | 5 FFTrees-2.0.0/FFTrees/vignettes/FFTrees_function.Rmd | 16 FFTrees-2.0.0/FFTrees/vignettes/FFTrees_heart.Rmd | 62 FFTrees-2.0.0/FFTrees/vignettes/FFTrees_mytree.Rmd | 480 ++ FFTrees-2.0.0/FFTrees/vignettes/FFTrees_plot.Rmd | 6 FFTrees-2.0.0/FFTrees/vignettes/fft.bib | 4 FFTrees-2.0.0/FFTrees/vignettes/guide.Rmd | 77 133 files changed, 7507 insertions(+), 1866 deletions(-)
Title: Utility Functions for Production R Code
Description: A suite of utility functions providing functionality commonly
needed for production level projects such as logging, error handling,
cache management and date-time parsing. Functions for date-time parsing and
formatting require that time zones be specified explicitly, avoiding a common
source of error when working with environmental time series.
Author: Jonathan Callahan [aut, cre],
Eli Grosman [ctb],
Spencer Pease [ctb],
Thomas Bergamaschi [ctb]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between MazamaCoreUtils versions 0.4.13 dated 2022-08-24 and 0.4.14 dated 2023-06-05
DESCRIPTION | 13 - MD5 | 21 +- NEWS.md | 9 + R/utils-location.R | 102 +++++++++---- README.md | 3 build/vignette.rds |binary inst/doc/cache-management.html | 194 +++++++++++++------------- inst/doc/date-parsing.html | 14 - inst/doc/error-handling.html | 238 ++++++++++++++++---------------- inst/doc/logging.html | 244 ++++++++++++++++----------------- man/createLocationID.Rd | 32 +++- tests/testthat/test-createLocationID.R |only 12 files changed, 481 insertions(+), 389 deletions(-)
More information about MazamaCoreUtils at CRAN
Permanent link
Title: Subtests Using Algorithmic Rummaging Techniques
Description: Construct subtests from a pool of items by using ant-colony-optimization, genetic algorithms, brute force, or random sampling.
Schultze (2017) <doi:10.17169/refubium-622>.
Author: Martin Schultze [aut, cre],
Johanna Schueller [ctb]
Maintainer: Martin Schultze <schultze@psych.uni-frankfurt.de>
Diff between stuart versions 0.10.1 dated 2022-08-22 and 0.10.2 dated 2023-06-05
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/empiricalobjective.R | 3 +-- R/fixedobjective.R | 3 +-- R/sanitycheck.R | 2 +- 5 files changed, 12 insertions(+), 14 deletions(-)
Title: Collecting and Analyzing Mastodon Data
Description: An implementation of calls designed to collect and organize Mastodon data via its Application Program Interfaces (API), which can be found at the following URL: <https://docs.joinmastodon.org/>.
Author: David Schoch [aut, cre] ,
Chung-hong Chan [aut] ,
Johannes Gruber [ctb]
Maintainer: David Schoch <david@schochastics.net>
Diff between rtoot versions 0.3.0 dated 2023-01-09 and 0.3.1 dated 2023-06-05
DESCRIPTION | 6 +- MD5 | 16 +++--- NEWS.md | 5 + R/instances.R | 6 +- README.md | 10 +++ inst/CITATION | 13 ++--- man/get_instance.Rd | 2 tests/fixtures/get_instance_rules_default.yml | 66 +++++++++++++++----------- tests/testthat/test-instances.R | 2 9 files changed, 77 insertions(+), 49 deletions(-)
Title: Import Surface Meteorological Data from NOAA Integrated Surface
Database (ISD)
Description: Functions to import data from more than 30,000 surface
meteorological sites around the world managed by the National Oceanic and Atmospheric Administration (NOAA) Integrated Surface
Database (ISD).
Author: David Carslaw [aut, cre]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between worldmet versions 0.9.7 dated 2023-02-06 and 0.9.8 dated 2023-06-05
DESCRIPTION | 10 +++---- MD5 | 20 +++++++------- R/getMeta.R | 14 +++++++++ R/metNOAA.R | 4 -- R/worldmet-package.R | 2 - README.md | 60 +++++++++++++++++++----------------------- build/vignette.rds |binary data/weatherCodes.rda |binary inst/doc/find-sites.html | 67 +++++++++++++++++++++++------------------------ man/importNOAA.Rd | 3 -- man/worldmet-package.Rd | 4 +- 11 files changed, 95 insertions(+), 89 deletions(-)
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: Tomasz Kalinowski [ctb, cre],
Kevin Ushey [aut],
JJ Allaire [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] ,
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Sigrid Keydana [ctb],
Ryan Hafen [ctb, cph],
Marcus Geelnard [ctb, cph]
Maintainer: Tomasz Kalinowski <tomasz@posit.co>
Diff between reticulate versions 1.28 dated 2023-01-27 and 1.29 dated 2023-06-05
DESCRIPTION | 22 MD5 | 102 +-- NAMESPACE | 20 NEWS.md | 120 +++ R/RcppExports.R | 12 R/conda.R | 42 + R/config.R | 3 R/conversion.R | 2 R/knitr-engine.R | 47 + R/miniconda.R | 8 R/package.R | 11 R/pickle.R | 11 R/python-tools.R | 7 R/python.R | 456 ++++++++++++-- R/repl.R | 11 R/utils.R | 252 +++++++ build/vignette.rds |binary inst/config/config.py | 8 inst/doc/arrays.html | 688 ++++++++++----------- inst/doc/calling_python.html | 186 ++--- inst/doc/package.html | 182 ++--- inst/doc/python_dependencies.html | 16 inst/doc/python_packages.html | 82 +- inst/doc/python_primer.R | 4 inst/doc/python_primer.Rmd | 4 inst/doc/python_primer.html | 878 +++++++++++++-------------- inst/doc/versions.html | 22 inst/python/rpytools/call.py | 11 inst/python/rpytools/help.py | 13 man/Ops-python-methods.Rd |only man/nameOfClass.python.builtin.type.Rd |only man/py_bool.Rd | 2 man/py_run.Rd | 6 man/py_save_object.Rd | 5 src/RcppExports.cpp | 32 src/libpython.cpp | 8 src/libpython.h | 51 + src/python.cpp | 722 +++++++++++++++------- src/reticulate_types.h | 66 ++ tests/testthat/_snaps |only tests/testthat/resources/knitr-warn.Rmd |only tests/testthat/resources/knitr-warn.md |only tests/testthat/resources/test-chunking.Rmd |only tests/testthat/resources/test-chunking.md |only tests/testthat/test-callable-dynamic-dots.R |only tests/testthat/test-python-base-r-generics.R |only tests/testthat/test-python-classes.R | 19 tests/testthat/test-python-comparisons.R | 19 tests/testthat/test-python-dict.R | 9 tests/testthat/test-python-exceptions.R | 117 +++ tests/testthat/test-python-formals.R | 17 tests/testthat/test-python-knitr-engine.R | 38 + tests/testthat/test-python-objects.R | 50 + tests/testthat/test-python-pickle.R | 6 tests/testthat/test-python-strings.R | 15 vignettes/python_primer.Rmd | 4 56 files changed, 2966 insertions(+), 1440 deletions(-)
Title: Query the 'UniProtKB' REST API
Description: Retrieve protein information from
the 'UniProtKB' REST API (see <https://www.uniprot.org/help/api_queries>).
Author: Guillaume Voisinne [aut, cre]
Maintainer: Guillaume Voisinne <voisinne@gmail.com>
Diff between queryup versions 1.0.4 dated 2023-04-04 and 1.0.5 dated 2023-06-05
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/get_uniprot_data.R | 30 +++++++++++++++++++++++++++--- inst/doc/queryup.html | 23 +++++++++++++++-------- 5 files changed, 53 insertions(+), 18 deletions(-)
Title: Visualizing and Analyzing Animal Track Data
Description: Contains functions to access movement data stored in 'movebank.org'
as well as tools to visualize and statistically analyze animal movement data,
among others functions to calculate dynamic Brownian Bridge Movement Models.
Move helps addressing movement ecology questions.
Author: Bart Kranstauber [aut, cre],
Marco Smolla [aut],
Anne K Scharf [aut]
Maintainer: Bart Kranstauber <b.kranstauber@uva.nl>
Diff between move versions 4.1.12 dated 2023-01-20 and 4.2.0 dated 2023-06-05
ChangeLog | 15 DESCRIPTION | 17 MD5 | 37 - NAMESPACE | 1 R/aaa.R |only R/corridor.R | 79 ++ R/getDataRepositoryData.R | 1 R/move2ade.R | 2 R/plotBursts.R | 4 R/spTransform.R | 8 build/vignette.rds |binary inst/doc/browseMovebank.html | 393 ++++++------ inst/doc/move.R | 14 inst/doc/move.Rmd | 14 inst/doc/move.html | 863 ++++++++++++++-------------- man/corridor.Rd | 8 tests/testthat/test.corridor.R | 8 tests/testthat/test.getDataRepositoryData.R | 2 tests/testthat/test.interpolateTime.R | 5 vignettes/move.Rmd | 14 20 files changed, 821 insertions(+), 664 deletions(-)
Title: Initialization of Numerical Optimization
Description: Analysis of the initialization for numerical optimization of
real-valued functions, including likelihood functions of statistical models.
See <https://loelschlaeger.de/ino/> for more details.
Author: Lennart Oelschlaeger [aut, cre]
,
Marius Oetting [aut] ,
Dietmar Bauer [ctb]
Maintainer: Lennart Oelschlaeger <oelschlaeger.lennart@gmail.com>
Diff between ino versions 1.0.0 dated 2023-05-31 and 1.0.1 dated 2023-06-05
DESCRIPTION | 17 MD5 | 44 R/data.R | 83 R/nop.R | 3192 +++++++++++++------------- README.md | 17 data/mixture_ino.rda |only inst/doc/example_hmm.R | 1 inst/doc/example_hmm.Rmd | 459 +-- inst/doc/example_hmm.html | 2 inst/doc/example_probit.R | 17 inst/doc/example_probit.Rmd | 385 +-- inst/doc/example_probit.html | 11 inst/doc/ino.R | 215 - inst/doc/ino.Rmd | 192 - inst/doc/ino.html | 575 ++-- man/hmm_ino.Rd | 2 man/ino.Rd | 7 man/mixture_ino.Rd |only man/probit_ino.Rd | 2 vignettes/example_hmm.Rmd | 459 +-- vignettes/example_probit.Rmd | 385 +-- vignettes/figures/ino-plot-by-label-1.png |binary vignettes/figures/ino-plot-by-optimizer-1.png |binary vignettes/ino.Rmd | 192 - 24 files changed, 3139 insertions(+), 3118 deletions(-)
Title: Quality Control and Semantic Enrichment of Datasets
Description: A tool for the preparation and enrichment of health datasets for analysis (Toner et al. (2023) <doi:10.1093/gigascience/giad030>). Provides functionality for assessing data quality and for improving the reliability and machine interpretability of a dataset.
'eHDPrep' also enables semantic enrichment of a dataset where metavariables are discovered from the relationships between input variables determined from user-provided ontologies.
Author: Tom Toner [aut] ,
Ian Overton [aut, cre]
Maintainer: Ian Overton <I.Overton@qub.ac.uk>
Diff between eHDPrep versions 1.3.2 dated 2023-02-01 and 1.3.3 dated 2023-06-05
DESCRIPTION | 8 ++++---- MD5 | 22 ++++++++++++---------- NEWS.md | 7 +++++++ R/eHDPrep-package.R | 30 ++++++++++++++++++------------ build/partial.rdb |only build/vignette.rds |binary inst/CITATION |only inst/doc/Introduction_to_eHDPrep.R | 2 +- inst/doc/Introduction_to_eHDPrep.Rmd | 4 ++-- inst/doc/Introduction_to_eHDPrep.pdf |binary man/eHDPrep-package.Rd | 28 ++++++++++++++++++---------- vignettes/Introduction_to_eHDPrep.Rmd | 4 ++-- vignettes/references.bib | 14 ++++++++++++++ 13 files changed, 78 insertions(+), 41 deletions(-)
Title: Model Visualisation Toolbox for 'easystats' and 'ggplot2'
Description: Provides plotting utilities supporting packages in the 'easystats'
ecosystem (<https://github.com/easystats/easystats>) and some extra themes,
geoms, and scales for 'ggplot2'. Color scales are based on
<https://materialui.co/colors>.
References: Lüdecke et al. (2021) <doi:10.21105/joss.03393>.
Author: Daniel Luedecke [aut, ctb] ,
Dominique Makowski [aut, inv] ,
Indrajeet Patil [aut, cre] ,
Mattan S. Ben-Shachar [aut, ctb]
,
Brenton M. Wiernik [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Jeffrey R. Stevens [ctb] ,
Matthew Smith [rev] ,
Jakob Bossek [re [...truncated...]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between see versions 0.7.5 dated 2023-03-23 and 0.8.0 dated 2023-06-05
see-0.7.5/see/R/plot.performance_pp_check.R |only see-0.7.5/see/tests/testthat/helper-models.R |only see-0.7.5/see/tests/testthat/test-plot.parameters_sem.R |only see-0.8.0/see/DESCRIPTION | 15 see-0.8.0/see/MD5 | 129 +- see-0.8.0/see/NEWS.md | 46 see-0.8.0/see/R/data_plot.R | 44 see-0.8.0/see/R/plot.binned_residuals.R | 6 see-0.8.0/see/R/plot.check_collinearity.R | 129 ++ see-0.8.0/see/R/plot.check_heteroscedasticity.R | 5 see-0.8.0/see/R/plot.check_homogeneity.R | 45 see-0.8.0/see/R/plot.check_model.R | 490 ---------- see-0.8.0/see/R/plot.check_normality.R | 282 +++++ see-0.8.0/see/R/plot.check_outliers.R | 4 see-0.8.0/see/R/plot.check_outliers_new.R | 2 see-0.8.0/see/R/plot.check_overdisp.R | 48 see-0.8.0/see/R/plot.check_predictions.R |only see-0.8.0/see/R/plot.compare_parameters.R | 6 see-0.8.0/see/R/plot.compare_performance.R | 3 see-0.8.0/see/R/plot.describe_distribution.R | 4 see-0.8.0/see/R/plot.effectsize_table.R | 8 see-0.8.0/see/R/plot.equivalence_test.R | 10 see-0.8.0/see/R/plot.estimate_contrasts.R | 4 see-0.8.0/see/R/plot.hdi.R | 4 see-0.8.0/see/R/plots.R | 19 see-0.8.0/see/R/print.check_model.R | 11 see-0.8.0/see/build/partial.rdb |binary see-0.8.0/see/inst/WORDLIST | 1 see-0.8.0/see/man/data_plot.Rd | 11 see-0.8.0/see/man/plot.see_check_heteroscedasticity.Rd | 6 see-0.8.0/see/man/plot.see_check_homogeneity.Rd | 3 see-0.8.0/see/man/plot.see_check_model.Rd |only see-0.8.0/see/man/plot.see_check_normality.Rd | 6 see-0.8.0/see/man/plot.see_estimate_contrasts.Rd | 4 see-0.8.0/see/man/plot.see_hdi.Rd | 2 see-0.8.0/see/man/print.see_performance_pp_check.Rd | 25 see-0.8.0/see/tests/testthat.R | 2 see-0.8.0/see/tests/testthat/helper.R | 24 see-0.8.0/see/tests/testthat/test-check_model.R | 2 see-0.8.0/see/tests/testthat/test-plot.check_distribution.R | 4 see-0.8.0/see/tests/testthat/test-plot.check_heteroscedasticity.R | 4 see-0.8.0/see/tests/testthat/test-plot.check_homogeneity.R | 2 see-0.8.0/see/tests/testthat/test-plot.check_normality.R | 18 see-0.8.0/see/tests/testthat/test-plot.check_outliers.R | 16 see-0.8.0/see/tests/testthat/test-plot.compare_performance.R | 8 see-0.8.0/see/tests/testthat/test-plot.describe_distribution.R | 8 see-0.8.0/see/tests/testthat/test-plot.easycormatrix.R | 5 see-0.8.0/see/tests/testthat/test-plot.equivalence_test.R | 8 see-0.8.0/see/tests/testthat/test-plot.estimate_contrasts.R | 10 see-0.8.0/see/tests/testthat/test-plot.estimate_density.R | 6 see-0.8.0/see/tests/testthat/test-plot.hdi.R | 4 see-0.8.0/see/tests/testthat/test-plot.n_factors.R | 8 see-0.8.0/see/tests/testthat/test-plot.p_direction.R | 4 see-0.8.0/see/tests/testthat/test-plot.p_significance.R | 4 see-0.8.0/see/tests/testthat/test-plot.parameters_model.R | 2 see-0.8.0/see/tests/testthat/test-plot.parameters_pca.R | 6 see-0.8.0/see/tests/testthat/test-plot.parameters_simulate.R | 12 see-0.8.0/see/tests/testthat/test-plot.performance_pp_check.R | 12 see-0.8.0/see/tests/testthat/test-plot.performance_roc.R | 5 see-0.8.0/see/tests/testthat/test-plot.point_estimates.R | 2 see-0.8.0/see/tests/testthat/test-plot.rope.R | 4 see-0.8.0/see/tests/testthat/test-plot.si.R | 4 see-0.8.0/see/tests/testthat/test-plots.R | 4 see-0.8.0/see/tests/testthat/test-scale_color_colorhex_c.R | 3 see-0.8.0/see/tests/testthat/test-vdiffr_bayestestr_plots.R | 14 see-0.8.0/see/tests/testthat/test-vdiffr_geoms_coords.R | 19 see-0.8.0/see/tests/testthat/test-vdiffr_scale_color.R | 4 see-0.8.0/see/tests/testthat/test-vdiffr_themes.R | 21 68 files changed, 885 insertions(+), 736 deletions(-)
Title: Non-Invasive Pretty Printing of R Code
Description: Pretty-prints R code without changing the user's formatting
intent.
Author: Kirill Mueller [aut] ,
Lorenz Walthert [cre, aut],
Indrajeet Patil [ctb]
Maintainer: Lorenz Walthert <lorenz.walthert@icloud.com>
Diff between styler versions 1.10.0 dated 2023-05-24 and 1.10.1 dated 2023-06-05
DESCRIPTION | 6 MD5 | 93 ++++---- NAMESPACE | 1 NEWS.md | 10 R/communicate.R | 7 R/nested-to-tree.R | 2 R/parse.R | 5 R/set-assert-args.R | 12 - R/styler-package.R | 6 R/stylerignore.R | 4 R/testing.R | 2 R/transform-code.R | 2 R/transform-files.R | 11 - R/vertical.R | 6 R/zzz.R | 10 build/vignette.rds |binary inst/doc/caching.R | 2 inst/doc/caching.Rmd | 2 inst/doc/customizing_styler.R | 8 inst/doc/customizing_styler.Rmd | 9 inst/doc/customizing_styler.html | 285 +++++++++++++-------------- inst/doc/detect-alignment.R | 7 inst/doc/detect-alignment.Rmd | 7 inst/doc/distribute_custom_style_guides.R | 2 inst/doc/distribute_custom_style_guides.Rmd | 2 inst/doc/remove_rules.R | 1 inst/doc/remove_rules.Rmd | 10 inst/doc/remove_rules.html | 13 - inst/doc/strict.R | 2 inst/doc/strict.Rmd | 2 inst/doc/styler.R | 3 inst/doc/styler.Rmd | 9 inst/doc/styler.html | 114 +++++----- tests/testthat/_snaps/roundtrip.md | 4 tests/testthat/test-cache-clean-up.R |only tests/testthat/test-create_tree.R | 2 tests/testthat/test-exception_handling.R | 2 tests/testthat/test-helpers.R | 1 tests/testthat/test-public_api-3.R | 3 tests/testthat/test-relocate_eq_assign.R | 1 tests/testthat/test-zzz.R | 18 - vignettes/caching.Rmd | 2 vignettes/customizing_styler.Rmd | 9 vignettes/detect-alignment.Rmd | 7 vignettes/distribute_custom_style_guides.Rmd | 2 vignettes/remove_rules.Rmd | 10 vignettes/strict.Rmd | 2 vignettes/styler.Rmd | 9 48 files changed, 400 insertions(+), 327 deletions(-)
Title: Methods of Moments
Description: Several classes for moment-based models are defined. The classes are defined for moment conditions derived from a single equation or a system of equations. The conditions can also be expressed as functions or formulas. Several methods are also offered to facilitate the development of different estimation techniques. The methods that are currently provided are the Generalized method of moments (Hansen 1982; <doi:10.2307/1912775>), for single equations and systems of equation, and the Generalized Empirical Likelihood (Smith 1997; <doi:10.1111/j.0013-0133.1997.174.x>, Kitamura 1997; <doi:10.1214/aos/1069362388>, Newey and Smith 2004; <doi:10.1111/j.1468-0262.2004.00482.x>, and Anatolyev 2005 <doi:10.1111/j.1468-0262.2005.00601.x>).
Author: Pierre Chausse <pchausse@uwaterloo.ca>
Maintainer: Pierre Chausse <pchausse@uwaterloo.ca>
Diff between momentfit versions 0.3 dated 2022-08-12 and 0.5 dated 2023-06-05
DESCRIPTION | 11 ++---- MD5 | 42 ++++++++++++------------ R/gmmfit-methods.R | 6 ++- R/momentData.R | 14 ++++---- R/momentModel-methods.R | 77 ++++++++++++++++++++++++++------------------- R/sgmmfit-methods.R | 6 +-- R/sysMomentModel-methods.R | 14 ++++---- build/partial.rdb |binary build/vignette.rds |binary data/CigarettesSW.rda |binary data/ConsumptionG.rda |binary data/Griliches.rda |binary data/HealthRWM.rda |binary data/Klein.rda |binary data/LabourCR.rda |binary data/ManufactCost.rda |binary data/Mroz.rda |binary data/simData.rda |binary inst/doc/gelS4.pdf |binary inst/doc/gmmS4.pdf |binary man/summary-methods.Rd | 5 +- src/Makevars | 2 - 22 files changed, 95 insertions(+), 82 deletions(-)
Title: Weighted Metrics and Performance Measures for Machine Learning
Description: Provides weighted versions of several metrics and performance
measures used in machine learning, including average unit deviances of
the Bernoulli, Tweedie, Poisson, and Gamma distributions, see
Jorgensen B. (1997, ISBN: 978-0412997112). The package also contains
a weighted version of generalized R-squared, see e.g. Cohen, J. et al.
(2002, ISBN: 978-0805822236). Furthermore, 'dplyr' chains are
supported.
Author: Michael Mayer [aut, cre],
Christian Lorentzen [ctb]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between MetricsWeighted versions 1.0.1 dated 2023-05-11 and 1.0.2 dated 2023-06-05
DESCRIPTION | 6 MD5 | 24 +- NEWS.md | 7 R/classification.R | 20 +- R/regression.R | 26 +- R/statistics.R | 4 inst/doc/MetricsWeighted.R | 63 +----- inst/doc/MetricsWeighted.Rmd | 173 +++-------------- inst/doc/MetricsWeighted.html | 418 +++++++++++++----------------------------- man/classification.Rd | 20 +- man/regression.Rd | 26 +- man/weighted_cor.Rd | 4 vignettes/MetricsWeighted.Rmd | 173 +++-------------- 13 files changed, 290 insertions(+), 674 deletions(-)
More information about MetricsWeighted at CRAN
Permanent link
Title: A Framework for Robust Shiny Applications
Description: An opinionated framework for building a production-ready
'Shiny' application. This package contains a series of tools for
building a robust 'Shiny' application from start to finish.
Author: Colin Fay [cre, aut] ,
Vincent Guyader [aut] ,
Sebastien Rochette [aut] ,
Cervan Girard [aut] ,
Novica Nakov [ctb],
David Granjon [ctb],
Arthur Breant [ctb],
Antoine Languillaume [ctb],
ThinkR [cph]
Maintainer: Colin Fay <contact@colinfay.me>
Diff between golem versions 0.4.0 dated 2023-03-12 and 0.4.1 dated 2023-06-05
DESCRIPTION | 6 +++--- MD5 | 24 ++++++++++++------------ NEWS.md | 8 ++++++-- README.md | 22 +++++++++++----------- build/vignette.rds |binary inst/doc/a_start.html | 4 ++-- inst/doc/b_dev.html | 4 ++-- inst/doc/c_deploy.html | 4 ++-- inst/doc/d_js.html | 4 ++-- inst/doc/e_config.html | 2 +- tests/testthat/test-add_deploy_helpers.R | 3 +++ tests/testthat/test-extra_sysreqs.R | 1 + tests/testthat/test-renv_stuff.R | 3 +++ 13 files changed, 48 insertions(+), 37 deletions(-)
Title: Multivariate Imputation by Chained Equations
Description: Multiple imputation using Fully Conditional Specification (FCS)
implemented by the MICE algorithm as described in Van Buuren and
Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>. Each variable has
its own imputation model. Built-in imputation models are provided for
continuous data (predictive mean matching, normal), binary data (logistic
regression), unordered categorical data (polytomous logistic regression)
and ordered categorical data (proportional odds). MICE can also impute
continuous two-level data (normal model, pan, second-level variables).
Passive imputation can be used to maintain consistency between variables.
Various diagnostic plots are available to inspect the quality of the
imputations.
Author: Stef van Buuren [aut, cre],
Karin Groothuis-Oudshoorn [aut],
Gerko Vink [ctb],
Rianne Schouten [ctb],
Alexander Robitzsch [ctb],
Patrick Rockenschaub [ctb],
Lisa Doove [ctb],
Shahab Jolani [ctb],
Margarita Moreno-Betancur [ctb],
Ian White [ctb],
Phil [...truncated...]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>
Diff between mice versions 3.15.0 dated 2022-11-19 and 3.16.0 dated 2023-06-05
mice-3.15.0/mice/man/cbind.mids.Rd |only mice-3.15.0/mice/man/rbind.mids.Rd |only mice-3.15.0/mice/tests/testthat/test-update.design.R |only mice-3.16.0/mice/DESCRIPTION | 22 -- mice-3.16.0/mice/MD5 | 100 ++++----- mice-3.16.0/mice/NAMESPACE | 8 mice-3.16.0/mice/NEWS.md | 25 ++ mice-3.16.0/mice/R/D2.R | 2 mice-3.16.0/mice/R/D3.R | 2 mice-3.16.0/mice/R/ampute.R | 17 - mice-3.16.0/mice/R/blocks.R | 8 mice-3.16.0/mice/R/cbind.R | 86 -------- mice-3.16.0/mice/R/convergence.R | 3 mice-3.16.0/mice/R/design.R | 19 - mice-3.16.0/mice/R/fix.coef.R | 4 mice-3.16.0/mice/R/futuremice.R | 69 ++++-- mice-3.16.0/mice/R/generics.R | 146 +++++++++++++ mice-3.16.0/mice/R/ibind.R | 2 mice-3.16.0/mice/R/imports.R | 4 mice-3.16.0/mice/R/mice.R | 1 mice-3.16.0/mice/R/mice.impute.2lonly.pmm.R | 14 + mice-3.16.0/mice/R/mice.impute.cart.R | 2 mice-3.16.0/mice/R/mice.impute.jomoImpute.R | 2 mice-3.16.0/mice/R/mice.impute.mpmm.R | 49 +--- mice-3.16.0/mice/R/mice.impute.quadratic.R | 2 mice-3.16.0/mice/R/mice.impute.rf.R | 6 mice-3.16.0/mice/R/mipo.R | 4 mice-3.16.0/mice/R/pattern1.R | 7 mice-3.16.0/mice/R/predictorMatrix.R | 28 +- mice-3.16.0/mice/R/rbind.R | 69 ------ mice-3.16.0/mice/R/sampler.R | 2 mice-3.16.0/mice/README.md | 6 mice-3.16.0/mice/build/partial.rdb |binary mice-3.16.0/mice/inst/CITATION | 6 mice-3.16.0/mice/man/D2.Rd | 2 mice-3.16.0/mice/man/D3.Rd | 2 mice-3.16.0/mice/man/ampute.Rd | 13 - mice-3.16.0/mice/man/cbind.Rd | 168 +++++++++++++++- mice-3.16.0/mice/man/convergence.Rd | 3 mice-3.16.0/mice/man/futuremice.Rd | 11 - mice-3.16.0/mice/man/ibind.Rd | 2 mice-3.16.0/mice/man/make.predictorMatrix.Rd | 5 mice-3.16.0/mice/man/mice.impute.cart.Rd | 2 mice-3.16.0/mice/man/mice.impute.jomoImpute.Rd | 2 mice-3.16.0/mice/man/mice.impute.mpmm.Rd | 46 +--- mice-3.16.0/mice/man/mice.impute.quadratic.Rd | 2 mice-3.16.0/mice/man/mice.impute.rf.Rd | 6 mice-3.16.0/mice/man/pattern.Rd | 7 mice-3.16.0/mice/tests/testthat/test-D3.R | 21 +- mice-3.16.0/mice/tests/testthat/test-mice-initialize.R | 1 mice-3.16.0/mice/tests/testthat/test-mice.impute.mpmm.R |only mice-3.16.0/mice/tests/testthat/test-mice.impute.rf.R | 56 ++--- mice-3.16.0/mice/tests/testthat/test-with.R | 32 +-- 53 files changed, 644 insertions(+), 452 deletions(-)
Title: Multiple Imputation for Informative Censoring
Description: Multiple Imputation for Informative Censoring.
This package implements two methods. Gamma Imputation
described in <DOI:10.1002/sim.6274> and Risk Score Imputation
described in <DOI:10.1002/sim.3480>.
Author: David Ruau [aut],
Nikolas Burkoff [aut],
Jonathan Bartlett [aut, cre],
Dan Jackson [aut],
Edmund Jones [aut],
Martin Law [aut],
Paul Metcalfe [aut]
Maintainer: Jonathan Bartlett <jonathan.bartlett1@lshtm.ac.uk>
Diff between InformativeCensoring versions 0.3.5 dated 2020-07-24 and 0.3.6 dated 2023-06-05
DESCRIPTION | 12 LICENSE | 678 +++++++++++++------------- MD5 | 145 ++--- NAMESPACE | 108 ++-- NEWS.md |only R/InformativeCensoring-package.R | 12 R/dataDescription.R | 126 ++-- R/gammaImputeData.R | 334 ++++++------ R/gammaStat.R | 240 ++++----- R/generics.R | 322 ++++++------ R/internalGamma.R | 294 +++++------ R/internalScore.R | 578 +++++++++++----------- R/options.R | 212 ++++---- R/parallel.R | 158 +++--- R/scoreImputedData.R | 218 ++++---- R/scoreImputedSet.R | 110 ++-- R/scoreStat.R | 118 ++-- R/scoreStatSet.R | 404 +++++++-------- R/tests.R | 138 ++--- R/timedependent.R | 212 ++++---- R/validation.R | 438 ++++++++--------- R/validationGamma.R | 190 +++---- README.md | 89 +-- build/vignette.rds |binary inst/doc/gamma_imputation_Jackson_2014.R | 314 ++++++------ inst/doc/gamma_imputation_Jackson_2014.Rnw | 694 +++++++++++++-------------- inst/doc/gamma_imputation_Jackson_2014.pdf |binary inst/doc/risk_score_imputation_Hsu_2009.R | 212 ++++---- inst/doc/risk_score_imputation_Hsu_2009.Rnw | 610 +++++++++++------------ inst/doc/risk_score_imputation_Hsu_2009.pdf |binary inst/validation/jackson_simulation.Rmd | 192 +++---- inst/validation/score.R | 188 +++---- man/ExtractSingle.Rd | 64 +- man/GammaImputedData.object.Rd | 38 - man/GammaImputedSet.object.Rd | 68 +- man/GammaStat.object.Rd | 54 +- man/GammaStatList.object.Rd | 54 +- man/ImputeStat.Rd | 174 +++--- man/InformativeCensoring-package.Rd | 48 - man/MakeTimeDepScore.Rd | 50 - man/NN.options.Rd | 58 +- man/ScoreImpute.Rd | 176 +++--- man/ScoreImputedData.object.Rd | 44 - man/ScoreImputedSet.object.Rd | 68 +- man/ScoreInd.Rd | 82 +-- man/ScoreStat.object.Rd | 68 +- man/ScoreStatList.object.Rd | 56 +- man/ScoreStatSet.Rd | 40 - man/ScoreStatSet.object.Rd | 42 - man/ScoreTD.object.Rd | 44 - man/ScoreTimeDep.Rd | 58 +- man/col.headings.Rd | 70 +- man/cox.zph.Rd | 70 +- man/gammaImpute.Rd | 206 ++++---- man/summary.ScoreStatSet.Rd | 60 +- tests/system_description.Rnw | 570 +++++++++++----------- tests/testthat.R | 6 tests/testthat/generate_test_data_gamma.R | 70 +- tests/testthat/parallel.R | 226 ++++---- tests/testthat/test-gammaImputedata.R | 490 +++++++++---------- tests/testthat/test-gammaStat.R | 412 ++++++++-------- tests/testthat/test-internalGamma.R | 368 +++++++------- tests/testthat/test-internalScore.R | 368 +++++++------- tests/testthat/test-options.R | 148 ++--- tests/testthat/test-scoreExtract.R | 150 ++--- tests/testthat/test-scoreStat.R | 350 ++++++------- tests/testthat/test-scoreStatSet.R | 326 ++++++------ tests/testthat/test-scoreSystem.R | 536 ++++++++++---------- tests/testthat/test-timedependent.R | 384 +++++++------- tests/testthat/test-validation.R | 626 ++++++++++++------------ tests/testthat/test-validationGamma.R | 504 +++++++++---------- vignettes/bibliography.bib | 114 ++-- vignettes/gamma_imputation_Jackson_2014.Rnw | 694 +++++++++++++-------------- vignettes/risk_score_imputation_Hsu_2009.Rnw | 610 +++++++++++------------ 74 files changed, 7995 insertions(+), 7995 deletions(-)
More information about InformativeCensoring at CRAN
Permanent link
Title: Bayesian Cost Effectiveness Analysis
Description: Produces an economic evaluation of a sample of suitable variables of
cost and effectiveness / utility for two or more interventions,
e.g. from a Bayesian model in the form of MCMC simulations.
This package computes the most cost-effective alternative and
produces graphical summaries and probabilistic sensitivity analysis,
see Baio et al (2017) <doi:10.1007/978-3-319-55718-2>.
Author: Gianluca Baio [aut, cre, cph] ,
Andrea Berardi [aut] ,
Anna Heath [aut] ,
Nathan Green [aut]
Maintainer: Gianluca Baio <g.baio@ucl.ac.uk>
Diff between BCEA versions 2.4.3 dated 2023-05-02 and 2.4.4 dated 2023-06-05
DESCRIPTION | 14 +- MD5 | 77 +++++++-------- NAMESPACE | 1 NEWS.md | 5 + R/bcea.default.R | 3 R/ce_table.R | 3 R/ceac_plot_graph.R | 3 R/ceaf.plot.R | 6 - R/eib_plot_graph.R | 3 R/evi.plot.mixedAn.R | 4 R/evppi.R | 13 +- R/evppi.default.R | 16 +-- R/evppi2stage.R | 5 - R/evppi_helpers.R | 13 +- R/helpers.R |only R/ib_plot_base.R | 11 +- R/ib_plot_ggplot.R | 10 -- R/inforank_params.R | 1 R/mixedAn.default.R | 4 R/multiplot.R | 9 - R/orthonorm.R | 1 R/plot.evppi.R | 26 ++--- R/struct.psa.R | 6 - README.md | 10 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/CEriskav.html | 161 ++++++++++++++++----------------- inst/doc/bcea.html | 111 +++++++++++----------- inst/doc/ceac.html | 111 +++++++++++----------- inst/doc/ceef.html | 111 +++++++++++----------- inst/doc/ceplane.html | 111 +++++++++++----------- inst/doc/contour.html | 123 ++++++++++++------------- inst/doc/eib.html | 111 +++++++++++----------- inst/doc/paired_vs_multiple_comps.html | 111 +++++++++++----------- man/compute_evppi.Rd | 48 ++++----- man/evppi.Rd | 13 +- man/fit.inla.Rd | 4 man/plot.evppi.Rd | 26 ++--- man/plot_mesh.Rd | 48 ++++----- man/setComparisons.Rd | 48 ++++----- 40 files changed, 691 insertions(+), 690 deletions(-)
Title: A Way to Perform Code Review or QA on Other Packages
Description: Reviews other packages during code review by looking at their
dependencies, code style, code complexity, and how internally defined
functions interact with one another.
Author: Maarten van Kessel [aut, cre]
Maintainer: Maarten van Kessel <m.l.vankessel@erasmusmc.nl>
Diff between PaRe versions 0.1.6 dated 2023-06-02 and 0.1.7 dated 2023-06-05
DESCRIPTION | 15 +++++++----- MD5 | 18 +++++++------- NEWS.md | 7 +++++ R/R6-Repository.R | 20 +++++++--------- R/getDefaultPermittedPackages.R | 14 ++++++----- inst/doc/Documentation.R | 4 +-- inst/doc/Documentation.Rmd | 2 - inst/doc/Documentation.html | 46 ++++++++++++------------------------- man/getDefaultPermittedPackages.Rd | 14 ++++++----- vignettes/Documentation.Rmd | 2 - 10 files changed, 70 insertions(+), 72 deletions(-)
Title: A Simple and Robust JSON Parser and Generator for R
Description: A reasonably fast JSON parser and generator, optimized for statistical
data and the web. Offers simple, flexible tools for working with JSON in R, and
is particularly powerful for building pipelines and interacting with a web API.
The implementation is based on the mapping described in the vignette (Ooms, 2014).
In addition to converting JSON data from/to R objects, 'jsonlite' contains
functions to stream, validate, and prettify JSON data. The unit tests included
with the package verify that all edge cases are encoded and decoded consistently
for use with dynamic data in systems and applications.
Author: Jeroen Ooms [aut, cre] ,
Duncan Temple Lang [ctb],
Lloyd Hilaiel [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between jsonlite versions 1.8.4 dated 2022-12-06 and 1.8.5 dated 2023-06-05
DESCRIPTION | 8 ++++---- MD5 | 21 +++++++++++---------- NEWS | 4 ++++ R/asJSON.vctrs.R |only R/simplify.R | 8 ++++---- R/stream.R | 8 ++++---- build/vignette.rds |binary inst/CITATION | 12 +++--------- inst/doc/json-aaquickstart.html | 2 +- inst/doc/json-mapping.pdf |binary man/stream_in.Rd | 8 ++++---- src/num_to_char.c | 7 +++---- 12 files changed, 38 insertions(+), 40 deletions(-)
Title: Bootstrap Methods for Various Network Estimation Routines
Description: Bootstrap methods to assess accuracy and stability of estimated network structures
and centrality indices <doi:10.3758/s13428-017-0862-1>. Allows for flexible
specification of any undirected network estimation procedure in R, and offers
default sets for various estimation routines.
Author: Sacha Epskamp [aut, cre],
Eiko I. Fried [ctb]
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between bootnet versions 1.5.1 dated 2023-05-16 and 1.5.3 dated 2023-06-05
DESCRIPTION | 6 MD5 | 12 NEWS | 6 R/bootTable.R | 119 ++-- R/bootnet.R | 1666 ++++++++++++++++++++++++++++----------------------------- R/plotMethod.R | 542 +++++++++--------- README.md | 2 7 files changed, 1193 insertions(+), 1160 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-23 1.6.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-04 0.5.1
2015-07-02 0.5
2014-06-16 0.4.2
2014-06-13 0.4.1
2014-03-20 0.4
2014-01-04 0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-26 1.0.19
2020-05-26 1.0.15
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-19 1.0
2018-06-24 0.9
2017-04-23 0.8.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-01-28 1.8.21
2022-04-06 1.8.19
2021-09-06 1.8.18
2021-09-03 1.8.17
2020-09-22 1.8.16
2020-02-07 1.8.14
2019-08-22 1.8.13
2017-11-12 1.8.11
2017-05-08 1.8.9
2016-11-10 1.8.7
2016-07-18 1.8.4
2015-12-30 1.8.1
2015-07-01 1.7.0
2015-05-27 1.6.6
2015-02-09 1.6.4
2014-08-21 1.5.12
2014-04-30 1.4.10
2014-03-30 1.4.6
2014-03-28 1.4.5
2014-02-07 1.0.1
2014-02-04 1.0
Title: Structural Equation Modeling and Confirmatory Network Analysis
Description: Multi-group (dynamical) structural equation models in combination with confirmatory network models from cross-sectional, time-series and panel data <doi:10.31234/osf.io/8ha93>. Allows for confirmatory testing and fit as well as exploratory model search.
Author: Sacha Epskamp
Maintainer: Sacha Epskamp <mail@sachaepskamp.com>
Diff between psychonetrics versions 0.10 dated 2021-10-25 and 0.11 dated 2023-06-05
DESCRIPTION | 6 MD5 | 93 ++- NEWS | 71 ++- R/00_codeOrganization.R | 1 R/02_algebrahelpers_modelMatrix.R | 2 R/02_algebrahelpers_vectorizeMatrices.R | 12 R/03_modelformation_adjust_p_values.R |only R/03_modelformation_formModelMatrices.R | 2 R/03_modelformation_matrixSetup_lambda.R | 196 ++++---- R/03_modelformation_matrixSetup_omega.R | 1 R/03_modelformation_missingpatterns.R | 14 R/03_modelformation_missingpatterns_covs.R | 4 R/03_modelformation_samplestats_norawts.R | 5 R/03_modelformation_sparseordense.R | 43 + R/04_generalFit_gradient.R | 1 R/08_outputHelpers_NAtoFALSE.R |only R/08_outputHelpers_NAtoTRUE.R |only R/09_modelmodifivation_emergencystart.R | 5 R/RcppExports.R | 12 R/a_models_Ising.R | 2 R/a_models_dlvm1.R | 37 + R/a_models_lvm.R | 12 R/a_models_meta_varcov.R | 10 R/a_models_ml_lvm.R | 12 R/a_models_panelgvar.R | 26 - R/a_models_tsdlvm1.R | 18 R/a_models_var1.R | 18 R/a_models_varcov.R | 10 R/b_modelexpansions_addfit.R | 1 R/c_runmodel.R | 27 - R/e_modelmodifications_prune.R | 611 +++++++++++++------------- R/f_convenience_CIplot.R | 3 R/f_convenience_getmatrix.R | 80 +++ R/h_modelsearch.R | 3 build/partial.rdb |binary data/Jonas.RData |binary man/dlvm1_family.Rd | 6 man/esa.Rd | 4 man/getmatrix.Rd | 16 man/meta_varcov.Rd | 4 man/prune.Rd | 5 man/var1_family.Rd | 20 man/varcov_family.Rd | 3 src/03_modelinformation_sparseordense_cpp.cpp |only src/03_modelinformation_sparseordense_cpp.h |only src/04_generalFit_gradient_cpp.cpp | 8 src/04_generalFit_gradient_cpp.h | 8 src/Makevars | 2 src/Makevars.win | 2 src/RcppExports.cpp | 37 + 50 files changed, 873 insertions(+), 580 deletions(-)
Title: Interface to 'dgpsi' for Deep and Linked Gaussian Process
Emulations
Description: Interface to the 'python' package 'dgpsi' for Gaussian process, deep Gaussian process,
and linked Gaussian process emulations of computer models and systems of computer
models. The implementations follow Ming & Guillas (2021) <doi:10.1137/20M1323771> and
Ming, Williamson, & Guillas (2023) <doi:10.1080/00401706.2022.2124311> and
Ming & Williamson (2023) <arXiv:2306.01212>. To get started with the package,
see <https://mingdeyu.github.io/dgpsi-R/>.
Author: Deyu Ming [aut, cre, cph],
Daniel Williamson [aut]
Maintainer: Deyu Ming <deyu.ming.16@ucl.ac.uk>
Diff between dgpsi versions 2.1.6 dated 2023-02-08 and 2.2.0 dated 2023-06-05
DESCRIPTION | 9 + MD5 | 113 ++++++++++++------------ NAMESPACE | 1 NEWS.md | 13 ++ R/alm.R | 12 ++ R/design.R | 48 +++++++--- R/dgp.R | 54 +++++++++-- R/initi_py.R | 8 + R/mice.R | 12 ++ R/pei.R | 10 +- R/plot.R | 43 +++++---- R/update.R | 29 ++++-- R/utils.R | 48 +++++++++- README.md | 9 + inst/CITATION | 25 ++++- inst/WORDLIST | 2 inst/doc/dgpsi.R | 5 - inst/doc/dgpsi.Rmd | 20 ++-- inst/doc/dgpsi.html | 75 ++++++++-------- inst/doc/linked_DGP.R | 3 inst/doc/linked_DGP.Rmd | 12 +- inst/doc/linked_DGP.html | 145 ++++++++++++++++---------------- inst/doc/motorcycle.R | 3 inst/doc/motorcycle.Rmd | 18 ++- inst/doc/motorcycle.html | 56 ++++++------ inst/doc/seq_design.R | 11 +- inst/doc/seq_design.Rmd | 53 +++++------ inst/doc/seq_design.html | 89 +++++++++---------- inst/doc/seq_design_2.R | 9 - inst/doc/seq_design_2.Rmd | 75 +++++++++------- inst/doc/seq_design_2.html | 141 ++++++++++++++++--------------- man/continue.Rd | 15 +++ man/design.Rd | 7 + man/dgp.Rd | 13 ++ man/plot.Rd | 17 +++ man/set_seed.Rd |only man/update.Rd | 6 + vignettes/dgpsi.Rmd | 20 ++-- vignettes/images/gp_oos.png |binary vignettes/images/linked_oos.png |binary vignettes/images/linked_result.png |binary vignettes/images/model_1_loo.png |binary vignettes/images/model_2_loo.png |binary vignettes/images/model_3_loo.png |binary vignettes/images/motorcycle_dgp_oos.png |binary vignettes/images/motorcycle_gp_oos.png |binary vignettes/images/seq2_design.png |binary vignettes/images/seq2_rmse.png |binary vignettes/images/seq_comparison.png |binary vignettes/images/seq_design.png |binary vignettes/images/seq_rmse.png |binary vignettes/images/step_fct_loo.png |binary vignettes/images/step_fct_oos.png |binary vignettes/images/step_fct_result.png |binary vignettes/linked_DGP.Rmd | 12 +- vignettes/motorcycle.Rmd | 18 ++- vignettes/seq_design.Rmd | 53 +++++------ vignettes/seq_design_2.Rmd | 75 +++++++++------- 58 files changed, 838 insertions(+), 549 deletions(-)
Title: QTL Mapping and Hotspots Detection
Description: For QTL mapping, it consists of several functions to perform various tasks, including
simulating or analyzing data, computing the significance thresholds and visualizing the
QTL mapping results. The single-QTL or multiple-QTL method that allows a host of
statistical models to be fitted and compared is applied to analyze the data for the
estimation of QTL parameters. The models include the linear regression, permutation test,
normal mixture model and truncated normal mixture model. The Gaussian stochastic process
is implemented to compute the significance thresholds for QTL detection onto a genetic
linkage map in the experimental populations. Two types of data, the complete genotyping
or selective genotyping data, from various experimental populations, including backcross,
F2, recombinant inbred (RI) populations, advanced intercrossed (AI) populations, are
considered in the QTL mapping analysis. For QTL hotpot detection, the statistical methods
can be developed based on either using the [...truncated...]
Author: Ping-Yuan Chung [cre],
Chen-Hung Kao [aut]
Maintainer: Ping-Yuan Chung <pychung@webmail.stat.sinica.edu.tw>
Diff between QTLEMM versions 1.1.3 dated 2022-10-07 and 1.2.0 dated 2023-06-05
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- R/D.make.R | 9 +++++---- R/EM.MIM.R | 25 ++++++++++++++----------- R/EM.MIM2.R | 45 ++++++++++++++++++++++++--------------------- R/EQF.plot.R | 2 +- R/MIM.points.R | 4 ++-- R/MIM.points2.R | 4 ++-- R/Qhot.R | 10 +++++----- R/progeny.R | 14 ++++++++++---- man/D.make.Rd | 16 ++++++++++++---- man/EM.MIM.Rd | 7 ++++++- man/EM.MIM2.Rd | 7 ++++++- man/progeny.Rd | 9 ++++++--- 14 files changed, 109 insertions(+), 75 deletions(-)
Title: Portfolio Management with R
Description: Functions and examples for 'Portfolio
Management with R': backtesting investment and
trading strategies, computing profit/loss and
returns, analysing trades, handling lists of
transactions, reporting, and more.
Author: Enrico Schumann [aut, cre]
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between PMwR versions 0.18-0 dated 2022-10-19 and 0.19-1 dated 2023-06-05
DESCRIPTION | 10 - MD5 | 72 ++++---- NAMESPACE | 21 +- NEWS | 66 ++++++- R/NAVseries.R | 18 +- R/btest.R | 60 ++++-- R/internal.R | 4 R/journal.R | 6 R/pl.R | 64 +++++-- R/rc.R | 11 - R/returns.R | 249 ++++++++++++++++++++-------- R/scale1.R | 1 R/unit_prices.R | 2 README.md | 2 build/partial.rdb |only build/vignette.rds |binary inst/CITATION | 6 inst/doc/An_overview_of_PMwR.pdf |binary inst/doc/Computing_returns.pdf |binary inst/doc/Drawdowns_streaks.pdf |binary inst/doc/FinTeX.pdf |binary inst/doc/pl_open_positions.pdf |binary inst/doc/q32.pdf |binary inst/tinytest/test_btest.R | 2 inst/tinytest/test_btest_do-rebalance.R |only inst/tinytest/test_btest_initial.position.R | 17 + inst/tinytest/test_pl_empty.R |only inst/tinytest/test_rc.R | 26 ++ inst/tinytest/test_returns.R | 38 ++++ inst/tinytest/test_returns_period.R | 9 + inst/tinytest/test_returns_ym_yq.R |only man/PMwR-internal.Rd | 4 man/PMwR-package.Rd | 13 - man/btest.Rd | 109 +++++------- man/drawdowns.Rd | 10 - man/pl.Rd | 27 ++- man/rc.Rd | 39 ++-- man/returns.Rd | 18 +- man/unit_prices.Rd | 19 -- 39 files changed, 634 insertions(+), 289 deletions(-)
Title: Flexible Bayesian Optimization
Description: A modern and flexible approach to Bayesian Optimization / Model
Based Optimization building on the 'bbotk' package. 'mlr3mbo' is a toolbox
providing both ready-to-use optimization algorithms as well as their fundamental
building blocks allowing for straightforward implementation of custom
algorithms. Single- and multi-objective optimization is supported as well as
mixed continuous, categorical and conditional search spaces. Moreover, using
'mlr3mbo' for hyperparameter optimization of machine learning models within the
'mlr3' ecosystem is straightforward via 'mlr3tuning'. Examples of ready-to-use
optimization algorithms include Efficient Global Optimization by Jones et al.
(1998) <doi:10.1023/A:1008306431147>, ParEGO by Knowles (2006)
<doi:10.1109/TEVC.2005.851274> and SMS-EGO by Ponweiser et al. (2008)
<doi:10.1007/978-3-540-87700-4_78>.
Author: Lennart Schneider [cre, aut] ,
Jakob Richter [aut] ,
Marc Becker [aut] ,
Michel Lang [aut] ,
Bernd Bischl [aut] ,
Florian Pfisterer [aut] ,
Martin Binder [aut],
Sebastian Fischer [aut] ,
Michael H. Buselli [cph],
Wessel Dankers [cph],
Carlos Fonseca [...truncated...]
Maintainer: Lennart Schneider <lennart.sch@web.de>
Diff between mlr3mbo versions 0.1.2 dated 2023-03-02 and 0.2.1 dated 2023-06-05
mlr3mbo-0.1.2/mlr3mbo/R/result_by_default.R |only mlr3mbo-0.1.2/mlr3mbo/R/result_by_surrogate_design.R |only mlr3mbo-0.1.2/mlr3mbo/man/default_acqfun.Rd |only mlr3mbo-0.1.2/mlr3mbo/man/default_acqopt.Rd |only mlr3mbo-0.1.2/mlr3mbo/man/default_loopfun.Rd |only mlr3mbo-0.1.2/mlr3mbo/man/result_by_default.Rd |only mlr3mbo-0.1.2/mlr3mbo/man/result_by_surrogate_design.Rd |only mlr3mbo-0.1.2/mlr3mbo/man/srlrnc.Rd |only mlr3mbo-0.1.2/mlr3mbo/tests/testthat/test_result_by_surrogate_design.R |only mlr3mbo-0.2.1/mlr3mbo/DESCRIPTION | 35 mlr3mbo-0.2.1/mlr3mbo/MD5 | 186 +- mlr3mbo-0.2.1/mlr3mbo/NAMESPACE | 22 mlr3mbo-0.2.1/mlr3mbo/NEWS.md | 21 mlr3mbo-0.2.1/mlr3mbo/R/AcqFunction.R | 34 mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionAEI.R | 4 mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionEHVI.R |only mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionEHVIGH.R |only mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionEI.R | 2 mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionEIPS.R | 36 mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionPI.R | 2 mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionSD.R |only mlr3mbo-0.2.1/mlr3mbo/R/AcqFunctionSmsEgo.R | 20 mlr3mbo-0.2.1/mlr3mbo/R/OptimizerMbo.R | 51 mlr3mbo-0.2.1/mlr3mbo/R/ResultAssigner.R |only mlr3mbo-0.2.1/mlr3mbo/R/ResultAssignerArchive.R |only mlr3mbo-0.2.1/mlr3mbo/R/ResultAssignerSurrogate.R |only mlr3mbo-0.2.1/mlr3mbo/R/Surrogate.R | 54 mlr3mbo-0.2.1/mlr3mbo/R/SurrogateLearner.R | 68 mlr3mbo-0.2.1/mlr3mbo/R/SurrogateLearnerCollection.R | 118 - mlr3mbo-0.2.1/mlr3mbo/R/TunerMbo.R | 16 mlr3mbo-0.2.1/mlr3mbo/R/bayesopt_ego.R | 38 mlr3mbo-0.2.1/mlr3mbo/R/bayesopt_emo.R |only mlr3mbo-0.2.1/mlr3mbo/R/bayesopt_mpcl.R | 44 mlr3mbo-0.2.1/mlr3mbo/R/bayesopt_parego.R | 53 mlr3mbo-0.2.1/mlr3mbo/R/bayesopt_smsego.R | 39 mlr3mbo-0.2.1/mlr3mbo/R/bibentries.R | 20 mlr3mbo-0.2.1/mlr3mbo/R/helper.R | 39 mlr3mbo-0.2.1/mlr3mbo/R/mbo_defaults.R | 37 mlr3mbo-0.2.1/mlr3mbo/R/mlr_acqfunctions.R | 1 mlr3mbo-0.2.1/mlr3mbo/R/mlr_loop_functions.R | 1 mlr3mbo-0.2.1/mlr3mbo/R/mlr_result_assigners.R |only mlr3mbo-0.2.1/mlr3mbo/R/sugar.R | 104 - mlr3mbo-0.2.1/mlr3mbo/R/zzz.R | 3 mlr3mbo-0.2.1/mlr3mbo/README.md | 4 mlr3mbo-0.2.1/mlr3mbo/build/partial.rdb |binary mlr3mbo-0.2.1/mlr3mbo/build/vignette.rds |binary mlr3mbo-0.2.1/mlr3mbo/inst/doc/mlr3mbo.R | 30 mlr3mbo-0.2.1/mlr3mbo/inst/doc/mlr3mbo.Rmd | 68 mlr3mbo-0.2.1/mlr3mbo/inst/doc/mlr3mbo.html | 877 +++++----- mlr3mbo-0.2.1/mlr3mbo/man/AcqFunction.Rd | 13 mlr3mbo-0.2.1/mlr3mbo/man/ResultAssigner.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/Surrogate.Rd | 28 mlr3mbo-0.2.1/mlr3mbo/man/SurrogateLearner.Rd | 12 mlr3mbo-0.2.1/mlr3mbo/man/SurrogateLearnerCollection.Rd | 22 mlr3mbo-0.2.1/mlr3mbo/man/default_acqfunction.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/default_acqoptimizer.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/default_loop_function.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/default_result_assigner.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/default_surrogate.Rd | 7 mlr3mbo-0.2.1/mlr3mbo/man/loop_function.Rd | 1 mlr3mbo-0.2.1/mlr3mbo/man/mbo_defaults.Rd | 14 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions.Rd | 7 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_aei.Rd | 3 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_cb.Rd | 3 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_ehvi.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_ehvigh.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_ei.Rd | 3 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_eips.Rd | 13 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_mean.Rd | 3 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_pi.Rd | 3 mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_sd.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_acqfunctions_smsego.Rd | 11 mlr3mbo-0.2.1/mlr3mbo/man/mlr_loop_functions.Rd | 5 mlr3mbo-0.2.1/mlr3mbo/man/mlr_loop_functions_ego.Rd | 17 mlr3mbo-0.2.1/mlr3mbo/man/mlr_loop_functions_emo.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_loop_functions_mpcl.Rd | 15 mlr3mbo-0.2.1/mlr3mbo/man/mlr_loop_functions_parego.Rd | 15 mlr3mbo-0.2.1/mlr3mbo/man/mlr_loop_functions_smsego.Rd | 15 mlr3mbo-0.2.1/mlr3mbo/man/mlr_optimizers_mbo.Rd | 30 mlr3mbo-0.2.1/mlr3mbo/man/mlr_result_assigners.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_result_assigners_archive.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_result_assigners_surrogate.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/mlr_tuners_mbo.Rd | 24 mlr3mbo-0.2.1/mlr3mbo/man/ras.Rd |only mlr3mbo-0.2.1/mlr3mbo/man/srlrn.Rd | 33 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunction.R | 22 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionAEI.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionCB.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionEHVI.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionEHVIGH.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionEI.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionEIPS.R | 4 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionMean.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionPI.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionSD.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_AcqFunctionSmsEgo.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_OptimizerMbo.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_ResultAssigner.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_ResultAssignerArchive.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_ResultAssignerSurrogate.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_SurrogateLearner.R | 18 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_SurrogateLearnerCollection.R | 26 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_TunerMbo.R | 4 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_bayesopt_ego.R | 42 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_bayesopt_emo.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_bayesopt_mpcl.R | 5 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_bayesopt_parego.R | 2 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_bayesopt_smsego.R | 1 mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_mbo_defaults.R | 119 - mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_mlr_result_assigners.R |only mlr3mbo-0.2.1/mlr3mbo/tests/testthat/test_sugar.R | 7 mlr3mbo-0.2.1/mlr3mbo/vignettes/mlr3mbo.Rmd | 68 mlr3mbo-0.2.1/mlr3mbo/vignettes/references.bib | 20 113 files changed, 1510 insertions(+), 1166 deletions(-)
Title: 'SAS' Linear Model
Description: This is a core implementation of 'SAS' procedures for linear models - GLM, REG, ANOVA, TTEST, FREQ, and UNIVARIATE. Some R packages provide type II and type III SS. However, the results of nested and complex designs are often different from those of 'SAS.' Different results does not necessarily mean incorrectness. However, many wants the same results to SAS. This package aims to achieve that.
Reference: Littell RC, Stroup WW, Freund RJ (2002, ISBN:0-471-22174-0).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between sasLM versions 0.9.8 dated 2023-05-06 and 0.9.9 dated 2023-06-05
sasLM-0.9.8/sasLM/inst/doc/Report-Different-Simplest2304080744.pdf |only sasLM-0.9.8/sasLM/inst/doc/Report-NOT-OKs2304080745.pdf |only sasLM-0.9.8/sasLM/inst/doc/Validation-Report-GLM-2304080746.pdf |only sasLM-0.9.9/sasLM/DESCRIPTION | 8 - sasLM-0.9.9/sasLM/MD5 | 66 +++++----- sasLM-0.9.9/sasLM/R/TTEST.R |only sasLM-0.9.9/sasLM/R/UNIV.R | 9 - sasLM-0.9.9/sasLM/R/est.R | 19 ++ sasLM-0.9.9/sasLM/R/mtest.R |only sasLM-0.9.9/sasLM/R/tmtest.R |only sasLM-0.9.9/sasLM/R/vtest.R |only sasLM-0.9.9/sasLM/R/ztest.R |only sasLM-0.9.9/sasLM/inst/NEWS.Rd | 7 + sasLM-0.9.9/sasLM/inst/doc/Report-Different-Simplest2305111808.pdf |only sasLM-0.9.9/sasLM/inst/doc/Report-NOT-OKs2305111809.pdf |only sasLM-0.9.9/sasLM/inst/doc/Validation-Report-GLM-2305111840.pdf |only sasLM-0.9.9/sasLM/inst/doc/sasLM-manual.pdf |binary sasLM-0.9.9/sasLM/man/ORcmh.Rd | 1 sasLM-0.9.9/sasLM/man/ORinv.Rd | 1 sasLM-0.9.9/sasLM/man/ORmn.Rd | 4 sasLM-0.9.9/sasLM/man/ORmn1.Rd | 4 sasLM-0.9.9/sasLM/man/RD.Rd | 1 sasLM-0.9.9/sasLM/man/RDinv.Rd | 1 sasLM-0.9.9/sasLM/man/RDmn.Rd | 1 sasLM-0.9.9/sasLM/man/RDmn1.Rd | 3 sasLM-0.9.9/sasLM/man/RR.Rd | 1 sasLM-0.9.9/sasLM/man/RRinv.Rd | 1 sasLM-0.9.9/sasLM/man/RRmn.Rd | 3 sasLM-0.9.9/sasLM/man/RRmn1.Rd | 1 sasLM-0.9.9/sasLM/man/TTEST.Rd |only sasLM-0.9.9/sasLM/man/UNIV.Rd | 8 - sasLM-0.9.9/sasLM/man/mtest.Rd |only sasLM-0.9.9/sasLM/man/pB.Rd | 9 - sasLM-0.9.9/sasLM/man/pD.Rd | 3 sasLM-0.9.9/sasLM/man/pResD.Rd | 3 sasLM-0.9.9/sasLM/man/tmtest.Rd |only sasLM-0.9.9/sasLM/man/tsum0.Rd | 6 sasLM-0.9.9/sasLM/man/tsum1.Rd | 6 sasLM-0.9.9/sasLM/man/tsum2.Rd | 6 sasLM-0.9.9/sasLM/man/tsum3.Rd | 6 sasLM-0.9.9/sasLM/man/vtest.Rd |only sasLM-0.9.9/sasLM/man/ztest.Rd |only 42 files changed, 114 insertions(+), 64 deletions(-)
Title: Import, Process, Analyse, and Calculate Rates from Respirometry
Data
Description: Provides a structural, reproducible workflow for the
processing and analysis of respirometry data. It contains analytical
functions and utilities for working with oxygen time-series to determine
respiration or oxygen production rates, and to make it easier to report and
share analyses. See Harianto et al. 2019 <doi:10.1111/2041-210X.13162>.
Author: Nicholas Carey [aut, cre],
Januar Harianto [aut]
Maintainer: Nicholas Carey <nicholascarey@gmail.com>
Diff between respR versions 2.2.0 dated 2023-01-06 and 2.3.0 dated 2023-06-05
respR-2.2.0/respR/man/kde_fit.Rd |only respR-2.2.0/respR/man/rolling_reg.Rd |only respR-2.2.0/respR/man/val_meth.Rd |only respR-2.2.0/respR/man/verify_units.Rd |only respR-2.3.0/respR/DESCRIPTION | 11 respR-2.3.0/respR/MD5 | 142 - respR-2.3.0/respR/NAMESPACE | 3 respR-2.3.0/respR/NEWS.md | 73 respR-2.3.0/respR/R/adjust_rate.R | 98 - respR-2.3.0/respR/R/auto_rate.R | 28 respR-2.3.0/respR/R/auto_rate.int.R | 87 respR-2.3.0/respR/R/auto_rate_funs.R | 131 - respR-2.3.0/respR/R/calc_rate.R | 38 respR-2.3.0/respR/R/calc_rate.bg.R | 31 respR-2.3.0/respR/R/calc_rate.ft.R | 48 respR-2.3.0/respR/R/calc_rate.int.R | 10 respR-2.3.0/respR/R/convert_DO.R | 564 ------ respR-2.3.0/respR/R/convert_MR.R |only respR-2.3.0/respR/R/convert_rate.R | 248 +- respR-2.3.0/respR/R/convert_rate.ft.R | 74 respR-2.3.0/respR/R/convert_val.R | 168 - respR-2.3.0/respR/R/import_file.R | 57 respR-2.3.0/respR/R/inspect.R | 123 - respR-2.3.0/respR/R/inspect.ft.R | 103 - respR-2.3.0/respR/R/oxy_crit.R | 47 respR-2.3.0/respR/R/select_rate.R | 53 respR-2.3.0/respR/R/subsample.R | 4 respR-2.3.0/respR/R/subset_data.R | 14 respR-2.3.0/respR/R/unit_args.R | 81 respR-2.3.0/respR/R/util_funs.R | 254 ++ respR-2.3.0/respR/R/util_plots.R | 42 respR-2.3.0/respR/R/util_val.R | 333 +++ respR-2.3.0/respR/README.md | 13 respR-2.3.0/respR/inst/CITATION | 4 respR-2.3.0/respR/man/StP.check.Rd |only respR-2.3.0/respR/man/StP.val.Rd |only respR-2.3.0/respR/man/adjust_scale.Rd | 5 respR-2.3.0/respR/man/adjust_scale_area.Rd | 2 respR-2.3.0/respR/man/auto_rate.int.Rd | 14 respR-2.3.0/respR/man/auto_rate.rep.Rd | 2 respR-2.3.0/respR/man/calc_rate.int.Rd | 4 respR-2.3.0/respR/man/convert_DO.Rd | 12 respR-2.3.0/respR/man/convert_MR.Rd |only respR-2.3.0/respR/man/convert_MR_print.Rd |only respR-2.3.0/respR/man/convert_rate.Rd | 8 respR-2.3.0/respR/man/convert_rate.ft.Rd | 10 respR-2.3.0/respR/man/flow_unit_parse.Rd | 4 respR-2.3.0/respR/man/import_file.Rd | 45 respR-2.3.0/respR/man/inspect.Rd | 78 respR-2.3.0/respR/man/inspect.ft.Rd | 67 respR-2.3.0/respR/man/method.val.Rd |only respR-2.3.0/respR/man/oxy_crit.Rd | 35 respR-2.3.0/respR/man/print.convert_rate.ft.Rd | 2 respR-2.3.0/respR/man/select_rate.Rd | 30 respR-2.3.0/respR/man/subset_data.Rd | 2 respR-2.3.0/respR/man/unit_args.Rd | 70 respR-2.3.0/respR/man/unit_type_o1.Rd |only respR-2.3.0/respR/man/units.clean.Rd |only respR-2.3.0/respR/man/units.val.Rd |only respR-2.3.0/respR/tests/testthat/test-adjust_rate.R | 455 ---- respR-2.3.0/respR/tests/testthat/test-adjust_rate.ft.R | 2 respR-2.3.0/respR/tests/testthat/test-auto_rate.R | 20 respR-2.3.0/respR/tests/testthat/test-auto_rate.int.R | 80 respR-2.3.0/respR/tests/testthat/test-calc_rate.R | 11 respR-2.3.0/respR/tests/testthat/test-calc_rate.bg.R | 2 respR-2.3.0/respR/tests/testthat/test-calc_rate.ft.R | 78 respR-2.3.0/respR/tests/testthat/test-calc_rate.int.R | 24 respR-2.3.0/respR/tests/testthat/test-convert_DO.R | 255 +- respR-2.3.0/respR/tests/testthat/test-convert_MR.R |only respR-2.3.0/respR/tests/testthat/test-convert_rate.R | 315 ++- respR-2.3.0/respR/tests/testthat/test-convert_rate.ft.R | 1408 ++++++--------- respR-2.3.0/respR/tests/testthat/test-convert_val.R | 8 respR-2.3.0/respR/tests/testthat/test-inspect.R | 581 +++--- respR-2.3.0/respR/tests/testthat/test-inspect.ft.R | 1480 ++++++++-------- respR-2.3.0/respR/tests/testthat/test-oxy_crit.R | 123 - respR-2.3.0/respR/tests/testthat/test-select_rate.R | 66 respR-2.3.0/respR/tests/testthat/test-select_rate.ft.R | 2 respR-2.3.0/respR/tests/testthat/test-subset_data.R | 2 respR-2.3.0/respR/tests/testthat/test-utils.R |only respR-2.3.0/respR/tests/testthat/test-various.R |only 80 files changed, 4025 insertions(+), 4159 deletions(-)
Title: Variational Bayesian Inference for Genome-Wide Regression
Description: Conducts linear regression using variational Bayesian inference, particularly optimized for genome-wide association mapping and whole-genome prediction which use a number of DNA markers as the explanatory variables. Provides seven regression models which select the important variables (i.e., the variables related to response variables) among the given explanatory variables in different ways (i.e., model structures).
Author: Akio Onogi [aut, cre, cph],
R Core Team [ctb] ,
Hiroyoshi Iwata [cph],
Takuji Nishimura [ctb] ,
Makoto Matsumoto [ctb] ,
STRUCTURE software contributors [ctb] ,
Alan Miller [ctb] ,
Peter Beerli [ctb]
Maintainer: Akio Onogi <onogiakio@gmail.com>
Diff between VIGoR versions 1.1.1 dated 2022-10-18 and 1.1.2 dated 2023-06-05
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/predict_vigor.R | 28 ++++++++++++++-------------- man/predict_vigor.Rd | 4 ++-- 4 files changed, 23 insertions(+), 23 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-11 0.2.0
2023-03-31 0.1.10
2022-06-10 0.1.9
2021-11-10 0.1.8
2021-07-26 0.1.7
2021-07-06 0.1.6
2021-06-10 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-07 0.5.4
2018-04-12 0.5.3
2017-10-17 0.5.0
2017-06-25 0.4.2