Title: Model-Agnostic Interpretations with Forward Marginal Effects
Description: Create local, regional, and global explanations for any machine learning model with forward marginal effects. You provide a model and data, and 'fmeffects' computes feature effects. The package is based on the theory in: C. A. Scholbeck, G. Casalicchio, C. Molnar, B. Bischl, and C. Heumann (2022) <doi:10.48550/arXiv.2201.08837>.
Author: Holger Loewe [cre, aut],
Christian Scholbeck [aut],
Christian Heumann [rev],
Bernd Bischl [rev],
Giuseppe Casalicchio [rev]
Maintainer: Holger Loewe <hbj.loewe@gmail.com>
Diff between fmeffects versions 0.1.2 dated 2024-03-07 and 0.1.3 dated 2024-06-07
fmeffects-0.1.2/fmeffects/man/figures/unnamed-chunk-4-1.png |only fmeffects-0.1.3/fmeffects/DESCRIPTION | 20 fmeffects-0.1.3/fmeffects/MD5 | 75 - fmeffects-0.1.3/fmeffects/NAMESPACE | 12 fmeffects-0.1.3/fmeffects/NEWS.md | 14 fmeffects-0.1.3/fmeffects/R/ExtrapolationDetector.R | 10 fmeffects-0.1.3/fmeffects/R/FME.R | 193 ++-- fmeffects-0.1.3/fmeffects/R/FMEPlot.R | 368 +++++--- fmeffects-0.1.3/fmeffects/R/Partitioning.R | 9 fmeffects-0.1.3/fmeffects/R/PartitioningPlot.R | 6 fmeffects-0.1.3/fmeffects/R/Predictor.R | 24 fmeffects-0.1.3/fmeffects/R/PredictorCaret.R | 12 fmeffects-0.1.3/fmeffects/R/PredictorLM.R |only fmeffects-0.1.3/fmeffects/R/PredictorMLR3.R | 12 fmeffects-0.1.3/fmeffects/R/PredictorParsnip.R | 12 fmeffects-0.1.3/fmeffects/R/S3.R | 1 fmeffects-0.1.3/fmeffects/R/ame.R | 61 - fmeffects-0.1.3/fmeffects/R/bikes.R | 6 fmeffects-0.1.3/fmeffects/R/zzz.R | 11 fmeffects-0.1.3/fmeffects/README.md | 164 ++-- fmeffects-0.1.3/fmeffects/data/bikes.rda |binary fmeffects-0.1.3/fmeffects/inst/doc/fmeffects.R | 66 + fmeffects-0.1.3/fmeffects/inst/doc/fmeffects.Rmd | 178 ++-- fmeffects-0.1.3/fmeffects/inst/doc/fmeffects.html | 492 ++++++------ fmeffects-0.1.3/fmeffects/man/AverageMarginalEffects.Rd | 42 - fmeffects-0.1.3/fmeffects/man/ForwardMarginalEffect.Rd | 31 fmeffects-0.1.3/fmeffects/man/Predictor.Rd | 2 fmeffects-0.1.3/fmeffects/man/PredictorCaret.Rd | 4 fmeffects-0.1.3/fmeffects/man/PredictorLM.Rd |only fmeffects-0.1.3/fmeffects/man/PredictorMLR3.Rd | 4 fmeffects-0.1.3/fmeffects/man/PredictorParsnip.Rd | 4 fmeffects-0.1.3/fmeffects/man/ame.Rd | 22 fmeffects-0.1.3/fmeffects/man/bikes.Rd | 9 fmeffects-0.1.3/fmeffects/man/came.Rd | 13 fmeffects-0.1.3/fmeffects/man/figures/unnamed-chunk-6-1.png |only fmeffects-0.1.3/fmeffects/man/fme.Rd | 43 - fmeffects-0.1.3/fmeffects/man/makePredictor.Rd | 6 fmeffects-0.1.3/fmeffects/man/plot.ForwardMarginalEffect.Rd | 3 fmeffects-0.1.3/fmeffects/tests/testthat/test-compute_ame.R |only fmeffects-0.1.3/fmeffects/tests/testthat/test-compute_fme.R | 8 fmeffects-0.1.3/fmeffects/vignettes/fmeffects.Rmd | 178 ++-- 41 files changed, 1234 insertions(+), 881 deletions(-)
Title: Estimating Copula Entropy and Transfer Entropy
Description: The nonparametric methods for estimating copula entropy, transfer entropy, and the statistics for multivariate normality test and two-sample test are implemented. The methods for estimating transfer entropy and the statistics for multivariate normality test and two-sample test are based on the method for estimating copula entropy. The method for change point detection with copula entropy based two-sample test is also implemented. Please refer to Ma and Sun (2011) <doi:10.1016/S1007-0214(11)70008-6>, Ma (2019) <doi:10.48550/arXiv.1910.04375>, Ma (2022) <doi:10.48550/arXiv.2206.05956>, Ma (2023) <doi:10.48550/arXiv.2307.07247>, and Ma (2024) <doi:10.48550/arXiv.2403.07892> for more information.
Author: MA Jian [aut, cre]
Maintainer: MA Jian <majian03@gmail.com>
Diff between copent versions 0.4 dated 2023-08-11 and 0.5 dated 2024-06-07
copent-0.4/copent/tests |only copent-0.5/copent/DESCRIPTION | 12 ++-- copent-0.5/copent/MD5 | 26 ++++------ copent-0.5/copent/NAMESPACE | 3 - copent-0.5/copent/R/copent.R | 52 +++++++++++++++++++- copent-0.5/copent/man/ci.Rd | 10 +-- copent-0.5/copent/man/construct_empirical_copula.Rd | 2 copent-0.5/copent/man/copent.Rd | 6 +- copent-0.5/copent/man/cpd.Rd |only copent-0.5/copent/man/entknn.Rd | 6 +- copent-0.5/copent/man/mcpd.Rd |only copent-0.5/copent/man/mvnt.Rd | 6 +- copent-0.5/copent/man/transent.Rd | 8 +-- copent-0.5/copent/man/tst.Rd | 8 +-- 14 files changed, 94 insertions(+), 45 deletions(-)
Title: Model-Based Optimization for 'mlr3' Through 'mlrMBO'
Description: The 'mlrMBO' package can ordinarily not be used for optimization within 'mlr3', because of
incompatibilities of their respective class systems. 'mlrintermbo' offers a compatibility
interface that provides 'mlrMBO' as an 'mlr3tuning' 'Tuner' object, for tuning of machine
learning algorithms within 'mlr3', as well as a 'bbotk' 'Optimizer' object for optimization
of general objective functions using the 'bbotk' black box optimization framework. The
control parameters of 'mlrMBO' are faithfully reproduced as a 'paradox' 'ParamSet'.
Author: Martin Binder [aut, cre]
Maintainer: Martin Binder <developer.mb706@doublecaret.com>
Diff between mlrintermbo versions 0.5.1 dated 2024-05-27 and 0.5.1-1 dated 2024-06-07
DESCRIPTION | 6 +- MD5 | 19 +++++--- NAMESPACE | 5 ++ NEWS.md | 3 + R/TunerInterMBO.R | 6 +- R/zzz.R | 87 ++++++++++++++++++++++++++++++++++++++-- man/OptimInstanceMultiCrit.Rd |only man/OptimInstanceSingleCrit.Rd |only man/Optimizer.Rd |only man/OptimizerInterMBO.Rd | 2 man/TuningInstanceMultiCrit.Rd |only man/TuningInstanceSingleCrit.Rd |only tests/testthat/test_fuzzing.R | 3 - 13 files changed, 112 insertions(+), 19 deletions(-)
Title: A Model Comparison Perspective
Description: Accompanies the book "Designing experiments and
analyzing data: A model comparison perspective" (3rd ed.) by
Maxwell, Delaney, & Kelley (2018; Routledge).
Contains all of the data sets in the book's chapters and
end-of-chapter exercises. Information about the book is available at
<https://designingexperiments.com/>.
Author: Scott Maxwell [aut],
Harold Delaney [aut],
Ken Kelley [aut, cre]
Maintainer: Ken Kelley <kkelley@nd.edu>
Diff between AMCP versions 1.0.1 dated 2020-07-24 and 1.0.2 dated 2024-06-07
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AMCP-1.0.2/AMCP/data/chapter_6_exercise_16.rda |binary AMCP-1.0.2/AMCP/data/chapter_6_table_1.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_12.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_13.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_14.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_15.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_18.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_19.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_22.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_23.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_24.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_25.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_6.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_exercise_9.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_table_1.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_table_11.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_table_15.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_table_23.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_table_5.rda |binary AMCP-1.0.2/AMCP/data/chapter_7_table_9.rda |binary AMCP-1.0.2/AMCP/data/chapter_8_exercise_15.rda |binary AMCP-1.0.2/AMCP/data/chapter_8_exercise_16.rda |binary AMCP-1.0.2/AMCP/data/chapter_8_exercise_17.rda |binary AMCP-1.0.2/AMCP/data/chapter_8_exercise_18.rda |binary AMCP-1.0.2/AMCP/data/chapter_8_exercise_19.rda |binary AMCP-1.0.2/AMCP/data/chapter_8_table_12.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_exercise_14.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_exercise_15.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_exercise_16.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_exercise_4.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_extension_exercise_1.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_extension_exercise_2.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_extension_exercise_3.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_extension_figures_4_and_5.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_extension_table_1.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_table_1.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_table_11.rda |binary AMCP-1.0.2/AMCP/data/chapter_9_table_7.rda |binary AMCP-1.0.2/AMCP/data/tutorial_1_table_1.rda |binary AMCP-1.0.2/AMCP/data/tutorial_2_table_1.rda |binary AMCP-1.0.2/AMCP/data/tutorial_2_table_2.rda |binary AMCP-1.0.2/AMCP/data/tutorial_3a_table_1.rda |binary AMCP-1.0.2/AMCP/data/tutorial_3a_table_2.rda |binary AMCP-1.0.2/AMCP/data/tutorial_3a_table_4.rda |binary AMCP-1.0.2/AMCP/data/tutorial_3a_table_5.rda |binary AMCP-1.0.2/AMCP/man/AMCP-package.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_10_table_5.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_10_table_9.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_11_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_11_table_19.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_11_table_20.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_11_table_4.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_11_table_5.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_12_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_12_table_11.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_12_table_15.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_12_table_21.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_12_table_7.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_12_table_9.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_13_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_13_table_12.Rd | 6 AMCP-1.0.2/AMCP/man/chapter_13_table_14.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_13_table_2.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_13_table_6.Rd |only AMCP-1.0.2/AMCP/man/chapter_14_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_14_table_10.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_14_table_3.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_14_table_4.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_14_table_5.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_14_table_8.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_15_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_16_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_16_table_4.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_1_exercise_18.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_1_exercise_19.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_1_exercise_21.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_1_exercise_22.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_1_exercise_23.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_1_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_3_exercise_10.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_3_exercise_11.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_3_exercise_9.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_3_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_3_table_3.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_3_table_7_raw.Rd | 4 AMCP-1.0.2/AMCP/man/chapter_3_table_9_raw.Rd | 4 AMCP-1.0.2/AMCP/man/chapter_4_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_4_table_7.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_5_table_4.Rd | 4 AMCP-1.0.2/AMCP/man/chapter_6_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_7_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_7_table_11.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_7_table_15.Rd | 10 AMCP-1.0.2/AMCP/man/chapter_7_table_23.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_7_table_5.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_7_table_9.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_8_table_12.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_9_extension_exercise_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_9_extension_exercise_2.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_9_extension_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_9_table_1.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_9_table_11.Rd | 2 AMCP-1.0.2/AMCP/man/chapter_9_table_7.Rd | 2 AMCP-1.0.2/AMCP/man/tutorial_2_table_1.Rd | 2 344 files changed, 487 insertions(+), 494 deletions(-)
Title: Mixed Integer Evolution Strategies
Description: Evolutionary black box optimization algorithms building on the
'bbotk' package. 'miesmuschel' offers both ready-to-use optimization
algorithms, as well as their fundamental building blocks that can be used to
manually construct specialized optimization loops. The Mixed Integer Evolution
Strategies as described by Li et al. (2013) <doi:10.1162/EVCO_a_00059> can be
implemented, as well as the multi-objective optimization algorithms NSGA-II
by Deb, Pratap, Agarwal, and Meyarivan (2002) <doi:10.1109/4235.996017>.
Author: Martin Binder [aut, cre],
Lennart Schneider [ctb] ,
Susanne Dandl [ctb] ,
Andreas Hofheinz [ctb]
Maintainer: Martin Binder <mlr.developer@mb706.com>
Diff between miesmuschel versions 0.0.4 dated 2024-05-15 and 0.0.4-1 dated 2024-06-07
DESCRIPTION | 6 +- MD5 | 51 +++++++++++---------- NAMESPACE | 5 ++ NEWS.md | 6 ++ R/OptimizerMies.R | 2 R/TunerMies.R | 2 R/mies_methods.R | 2 R/zzz.R | 89 +++++++++++++++++++++++++++++++++++-- inst/tinytest/test_TunerMies.R | 2 man/OptimInstanceMultiCrit.Rd |only man/OptimInstanceSingleCrit.Rd |only man/Optimizer.Rd |only man/OptimizerMies.Rd | 26 +++++----- man/TuningInstanceMultiCrit.Rd |only man/TuningInstanceSingleCrit.Rd |only man/mies_aggregate_generations.Rd | 4 - man/mies_evaluate_offspring.Rd | 6 +- man/mies_filter_offspring.Rd | 2 man/mies_generate_offspring.Rd | 2 man/mies_generation.Rd | 6 +- man/mies_get_fitnesses.Rd | 4 - man/mies_get_generation_results.Rd | 6 +- man/mies_init_population.Rd | 8 +-- man/mies_prime_operators.Rd | 2 man/mies_select_from_archive.Rd | 4 - man/mies_step_fidelity.Rd | 2 man/mies_survival_comma.Rd | 2 man/mies_survival_plus.Rd | 2 man/miesmuschel-package.Rd | 2 29 files changed, 170 insertions(+), 73 deletions(-)
Title: Lottery Datasets from Caixa Economica Federal
Description: A collection of functions designed to streamline the retrieval of data from Brazilian lottery games operated by Caixa Econômica Federal, accessible through the official website at <https://loterias.caixa.gov.br/Paginas/default.aspx/>. Datasets for each game are conveniently stored on the GitHub page at <https://github.com/tomasbp2/LotteryBrasilDATA/>. Each game within this repository consists of two primary datasets: the winners dataset and the numbers dataset. The winners dataset includes crucial information such as the draw date, game type, potential matches, winners for each match, and corresponding prize amounts. Meanwhile, the numbers dataset provides essential details including the draw date, game type, and the numbers drawn during the respective lottery event. By offering easy access to these datasets, the package facilitates efficient data retrieval and analysis for researchers, analysts, and enthusiasts interested in exploring the dynamics and outcomes of Brazilian [...truncated...]
Author: Tomas Bernardes [aut, cre, cph],
Salvador Netto [aut],
Fabio Demarqui [aut, cph]
Maintainer: Tomas Bernardes <tomasbp@ufmg.br>
Diff between lotterybr versions 0.1.0 dated 2024-05-07 and 0.2.0 dated 2024-06-07
DESCRIPTION | 7 - MD5 | 28 ++-- NAMESPACE | 15 +- NEWS.md | 5 R/app_eng.R |only R/app_ptbr.R |only R/get_data.R | 335 +++++++++++++++++++++++++++++++++++++++++++++++- R/open_app.R |only README.md | 11 + build/vignette.rds |binary inst/doc/lotterybr.R | 4 inst/doc/lotterybr.Rmd | 136 +++++++++++++++---- inst/doc/lotterybr.html | 121 ++++++++++++++++- man/get_data.Rd | 9 - man/open_app.Rd |only tests/testthat/tests.R | 29 ++-- vignettes/lotterybr.Rmd | 136 +++++++++++++++---- 17 files changed, 736 insertions(+), 100 deletions(-)
Title: Forest Inventory Estimation and Analysis
Description: A research estimation tool for analysts that work with sample-based
inventory data from the U.S. Department of Agriculture, Forest Service,
Forest Inventory and Analysis (FIA) Program.
Author: Tracey Frescino [aut],
Gretchen Moisen [aut],
Paul Patterson [aut],
Chris Toney [aut],
Grayson White [aut, cre] ,
Joshua Yamamoto [aut]
Maintainer: Grayson White <graysonwhite13@gmail.com>
Diff between FIESTA versions 3.6.3 dated 2024-05-20 and 3.6.4 dated 2024-06-07
DESCRIPTION | 10 - MD5 | 56 ++++----- R/DBgetPlots.R | 18 +- R/DBgetXY.R | 185 ++++++++++++++++++++---------- R/ISAinternal.R | 219 ++++++++++++++++++++---------------- R/check.popdataPLT.R | 2 R/check.unitarea.R | 3 R/modSAarea.R | 77 ++++++++---- R/modSApop.R | 143 +++++++++++++++++------ R/modSAtree.R | 183 +++++++++++++++++------------- R/spClassifyRast.R | 89 +++++++------- R/spClipPoly.R | 8 - R/spGetAuxiliary.R | 10 - R/spGetPlots.R | 13 +- R/spGetSAdoms.R | 55 ++++++--- R/spGetStates.R | 17 +- R/spGetXY.R | 20 +-- R/spUnionPoly.R | 5 inst/doc/FIESTA_manual_mod_pop.Rmd | 2 inst/doc/FIESTA_manual_mod_pop.html | 4 inst/doc/FIESTA_tutorial_MA.html | 12 - inst/doc/FIESTA_tutorial_SA.html | 14 +- man/modSApop.Rd | 8 + man/modSAtree.Rd | 2 man/spClipPoly.Rd | 5 man/spGetSAdoms.Rd | 5 man/spGetStates.Rd | 7 - man/spUnionPoly.Rd | 5 vignettes/FIESTA_manual_mod_pop.Rmd | 2 29 files changed, 728 insertions(+), 451 deletions(-)
Title: Collect And Investigate Street Views For Urban Science
Description: A collection of functions to search and download street view imagery
('Mapilary' <https://www.mapillary.com/developer/api-documentation>) and
to extract, quantify, and visualize visual features. Moreover, there are
functions provided to generate Qualtrics survey in TXT format using
the collection of street views for various research purposes.
Author: Xiaohao Yang [aut, cre, cph],
Derek Van Berkel [aut],
Mark Lindquist [aut]
Maintainer: Xiaohao Yang <xiaohaoy@umich.edu>
Diff between streetscape versions 1.0.1 dated 2024-05-07 and 1.0.2 dated 2024-06-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NAMESPACE | 1 + R/utils.R | 18 ++++++++++++++---- 4 files changed, 21 insertions(+), 10 deletions(-)
Title: Evaluate Partitioned Survival and State Transition Models
Description: Fits and evaluates three-state partitioned survival analyses
(PartSAs) and Markov models (clock forward or clock reset) to
progression and overall survival data typically collected in oncology clinical trials. These model structures are typically considered in
cost-effectiveness modeling in advanced/metastatic cancer indications.
Muston (2024). "Informing structural assumptions for three state oncology cost-effectiveness models through model efficiency and fit". Applied Health Economics and Health Policy.
Author: Dominic Muston [aut, cre] ,
Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph, fnd]
Maintainer: Dominic Muston <dominic.muston@merck.com>
Diff between psm3mkv versions 0.3.1 dated 2024-05-07 and 0.3.2 dated 2024-06-07
DESCRIPTION | 13 +- MD5 | 52 ++++---- NAMESPACE | 2 NEWS.md | 18 ++ R/basics.R | 2 R/datasets.R | 136 ++++++++++++++++++++- R/discrmd.R | 229 +++++++++++++++++++----------------- R/fitting-spl.R | 2 R/fitting.R | 2 R/lhoods.R | 2 R/likepsm.R |only R/ltablesurv.R | 2 R/ppdpps.R | 25 +-- R/probgraphs.R | 2 R/resmeans.R | 2 README.md | 89 +++++++------ build/vignette.rds |binary inst/CITATION |only inst/doc/example.Rmd | 2 inst/doc/example.html | 54 ++++---- inst/doc/mortality-adjustments.Rmd | 11 - inst/doc/mortality-adjustments.html | 128 ++++++++++---------- man/check_consistent_pfs.Rd |only man/compare_psm_likes.Rd |only man/create_dummydata.Rd | 6 man/psm3mkv-package.Rd | 4 vignettes/example.Rmd | 2 vignettes/mortality-adjustments.Rmd | 11 - vignettes/psm3mkv.bib | 113 ++++++++--------- 29 files changed, 535 insertions(+), 374 deletions(-)
Title: An User-Friendly R 'shiny' Application for Multi-Omics Data
Integration and Analysis
Description: A 'shiny' application, which allows you to perform single- and
multi-omics analyses using your own omics datasets. After the upload
of the omics datasets and a metadata file, single-omics is performed
for feature selection and dataset reduction. These datasets are used
for pairwise- and multi-omics analyses, where automatic tuning is
done to identify correlations between the datasets - the end goal
of the recommended 'Holomics' workflow.
Methods used in the package were implemented in the package 'mixomics'
by Florian Rohart,Benoît Gautier,Amrit Singh,Kim-Anh Lê Cao (2017) <doi:10.1371/journal.pcbi.1005752>
and are described there in further detail.
Author: Katharina Munk [aut, cre],
Eva M. Molin [aut, ctb],
Guenter Brader [ctb],
Lisa Ziemba [ctb],
AIT Austrian Institute of Technology GmbH [cph]
Maintainer: Katharina Munk <katharinamunk@yahoo.de>
Diff between Holomics versions 1.1.0 dated 2024-03-07 and 1.1.1 dated 2024-06-07
DESCRIPTION | 9 +++++---- MD5 | 12 ++++++------ NEWS.md | 36 +++++++++++++++++++----------------- README.md | 7 +++++-- inst/doc/Holomics.Rmd | 4 ++-- inst/doc/Holomics.html | 6 +++--- vignettes/Holomics.Rmd | 4 ++-- 7 files changed, 42 insertions(+), 36 deletions(-)
Title: Extra Recipes Steps for Dealing with Omics Data
Description: Omics data (e.g. transcriptomics, proteomics,
metagenomics...) offer a detailed and multi-dimensional perspective
on the molecular components and interactions within complex biological
(eco)systems. Analyzing these data requires adapted procedures, which
are implemented as steps according to the 'recipes' package.
Author: Antoine BICHAT [aut, cre] ,
Julie AUBERT [ctb]
Maintainer: Antoine BICHAT <antoine.bichat@proton.me>
Diff between scimo versions 0.0.1 dated 2024-04-03 and 0.0.2 dated 2024-06-07
DESCRIPTION | 6 - MD5 | 77 ++++++++++++------------ NAMESPACE | 19 +++++- NEWS.md | 7 ++ R/aggregate_hclust.R | 9 ++ R/aggregate_list.R | 19 ++++-- R/checks.R | 10 +++ R/rownormalize_tss.R | 8 ++ R/scimo-package.R | 2 R/select_background.R | 9 ++ R/select_cv.R | 13 +++- R/select_kruskal.R | 9 ++ R/select_wilcoxon.R | 9 ++ R/taxonomy.R |only R/to_keep.R | 7 +- README.md | 101 ++++++++++++++++---------------- inst/doc/pedcan.R | 4 - inst/doc/pedcan.Rmd | 4 - inst/doc/pedcan.html | 34 ++++++---- man/cv.Rd | 3 man/figures |only man/required_pkgs.scimo.Rd |only man/scimo-package.Rd | 2 man/step_aggregate_hclust.Rd | 2 man/step_aggregate_list.Rd | 10 +-- man/step_rownormalize_tss.Rd | 2 man/step_select_background.Rd | 2 man/step_select_cv.Rd | 2 man/step_select_kruskal.Rd | 2 man/step_select_wilcoxon.Rd | 2 man/step_taxonomy.Rd |only man/var_to_keep.Rd | 5 - tests/testthat/test-aggregate_hclust.R | 6 + tests/testthat/test-aggregate_list.R | 25 ++++--- tests/testthat/test-checks.R | 10 ++- tests/testthat/test-rownormalize_tss.R | 3 tests/testthat/test-select_background.R | 2 tests/testthat/test-select_cv.R | 2 tests/testthat/test-select_kruskal.R | 3 tests/testthat/test-select_wilcoxon.R | 3 tests/testthat/test-taxonomy.R |only vignettes/pedcan.Rmd | 4 - 42 files changed, 280 insertions(+), 157 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
,
Christoph Burow [aut, trl, dtc]
,
Michael Dietze [aut] ,
Margret C. Fuchs [aut] ,
Christoph Schmidt [aut] ,
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] ,
Norbert Mercier [aut] ,
Rachel K. Smedley [ct [...truncated...]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@uni-heidelberg.de>
Diff between Luminescence versions 0.9.23 dated 2023-11-03 and 0.9.24 dated 2024-06-07
DESCRIPTION | 44 +- MD5 | 369 +++++++++---------- NAMESPACE | 2 NEWS.md | 247 +++++++++--- R/Luminescence-package.R | 49 +- R/RLum.Data-class.R | 6 R/RLum.Data.Curve-class.R | 9 R/Risoe.BINfileData-class.R | 85 +++- R/Risoe.BINfileData2RLum.Analysis.R | 8 R/analyse_IRSAR.RF.R | 116 +++-- R/analyse_SAR.CWOSL.R | 83 +++- R/calc_AliquotSize.R | 2 R/calc_FadingCorr.R | 90 ++-- R/calc_Huntley2006.R | 149 ++++--- R/calc_OSLLxTxRatio.R | 16 R/convert_Activity2Concentration.R | 57 +- R/import_Data.R |only R/install_DevelopmentVersion.R | 9 R/internals_RLum.R | 99 ++++- R/internals_Thermochronometry.R |only R/merge_Risoe.BINfileData.R | 11 R/plot_DetPlot.R | 292 +++++++++------ R/plot_GrowthCurve.R | 29 - R/plot_RLum.Analysis.R | 3 R/plot_RLum.Results.R | 22 - R/plot_ROI.R | 4 R/read_BIN2R.R | 330 +++++++--------- R/read_Daybreak2R.R | 10 R/read_RF2R.R | 9 R/read_SPE2R.R | 10 R/read_TIFF2R.R | 7 R/read_XSYG2R.R | 105 +---- R/report_RLum.R | 15 R/trim_RLum.Data.R |only R/verify_SingleGrainData.R | 312 ++++++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 10 inst/doc/S4classObjects.pdf |binary inst/extdata/XSYG_file.xsyg | 48 +- man/Analyse_SAR.OSLdata.Rd | 2 man/CW2pHMi.Rd | 2 man/CW2pLM.Rd | 2 man/CW2pLMi.Rd | 2 man/CW2pPMi.Rd | 2 man/ExampleData.CW_OSL_Curve.Rd | 7 man/GitHub-API.Rd | 2 man/Luminescence-package.Rd | 64 ++- man/PSL2Risoe.BINfileData.Rd | 2 man/RLum-class.Rd | 2 man/RLum.Analysis-class.Rd | 2 man/RLum.Data-class.Rd | 2 man/RLum.Data.Curve-class.Rd | 10 man/RLum.Data.Image-class.Rd | 2 man/RLum.Data.Spectrum-class.Rd | 2 man/RLum.Results-class.Rd | 2 man/Risoe.BINfileData-class.Rd | 28 + man/Risoe.BINfileData2RLum.Analysis.Rd | 4 man/Second2Gray.Rd | 2 man/analyse_Al2O3C_CrossTalk.Rd | 2 man/analyse_Al2O3C_ITC.Rd | 2 man/analyse_Al2O3C_Measurement.Rd | 2 man/analyse_FadingMeasurement.Rd | 2 man/analyse_IRSAR.RF.Rd | 48 +- man/analyse_SAR.CWOSL.Rd | 20 - man/analyse_SAR.TL.Rd | 2 man/analyse_baSAR.Rd | 2 man/analyse_pIRIRSequence.Rd | 2 man/analyse_portableOSL.Rd | 2 man/apply_CosmicRayRemoval.Rd | 2 man/apply_EfficiencyCorrection.Rd | 2 man/bin_RLum.Data.Rd | 2 man/calc_AliquotSize.Rd | 4 man/calc_AverageDose.Rd | 2 man/calc_CentralDose.Rd | 2 man/calc_CobbleDoseRate.Rd | 2 man/calc_CommonDose.Rd | 2 man/calc_CosmicDoseRate.Rd | 2 man/calc_FadingCorr.Rd | 84 ++-- man/calc_FastRatio.Rd | 2 man/calc_FiniteMixture.Rd | 2 man/calc_FuchsLang2001.Rd | 2 man/calc_HomogeneityTest.Rd | 2 man/calc_Huntley2006.Rd | 39 +- man/calc_IEU.Rd | 2 man/calc_Kars2008.Rd | 2 man/calc_Lamothe2003.Rd | 2 man/calc_MaxDose.Rd | 2 man/calc_MinDose.Rd | 2 man/calc_OSLLxTxDecomposed.Rd | 2 man/calc_OSLLxTxRatio.Rd | 2 man/calc_SourceDoseRate.Rd | 2 man/calc_Statistics.Rd | 2 man/calc_TLLxTxRatio.Rd | 2 man/calc_ThermalLifetime.Rd | 2 man/calc_WodaFuchs2008.Rd | 2 man/calc_gSGC.Rd | 2 man/calc_gSGC_feldspar.Rd | 2 man/combine_De_Dr.Rd | 2 man/convert_Activity2Concentration.Rd | 25 - man/convert_BIN2CSV.Rd | 2 man/convert_Concentration2DoseRate.Rd | 2 man/convert_Daybreak2CSV.Rd | 2 man/convert_PSL2CSV.Rd | 2 man/convert_RLum2Risoe.BINfileData.Rd | 2 man/convert_SG2MG.Rd | 2 man/convert_Wavelength2Energy.Rd | 2 man/convert_XSYG2CSV.Rd | 2 man/extract_IrradiationTimes.Rd | 2 man/extract_ROI.Rd | 2 man/fit_CWCurve.Rd | 2 man/fit_EmissionSpectra.Rd | 2 man/fit_LMCurve.Rd | 2 man/fit_OSLLifeTimes.Rd | 2 man/fit_SurfaceExposure.Rd | 2 man/fit_ThermalQuenching.Rd | 2 man/get_Layout.Rd | 2 man/get_Quote.Rd | 2 man/get_RLum.Rd | 4 man/get_Risoe.BINfileData.Rd | 2 man/get_rightAnswer.Rd | 2 man/import_Data.Rd |only man/install_DevelopmentVersion.Rd | 4 man/length_RLum.Rd | 2 man/merge_RLum.Analysis.Rd | 2 man/merge_RLum.Data.Curve.Rd | 2 man/merge_RLum.Rd | 2 man/merge_RLum.Results.Rd | 2 man/merge_Risoe.BINfileData.Rd | 8 man/names_RLum.Rd | 2 man/plot_AbanicoPlot.Rd | 2 man/plot_DRCSummary.Rd | 2 man/plot_DRTResults.Rd | 2 man/plot_DetPlot.Rd | 30 + man/plot_FilterCombinations.Rd | 2 man/plot_GrowthCurve.Rd | 4 man/plot_Histogram.Rd | 2 man/plot_KDE.Rd | 2 man/plot_NRt.Rd | 2 man/plot_OSLAgeSummary.Rd | 2 man/plot_RLum.Analysis.Rd | 5 man/plot_RLum.Data.Curve.Rd | 2 man/plot_RLum.Data.Image.Rd | 2 man/plot_RLum.Data.Spectrum.Rd | 2 man/plot_RLum.Rd | 2 man/plot_RLum.Results.Rd | 2 man/plot_ROI.Rd | 5 man/plot_RadialPlot.Rd | 2 man/plot_Risoe.BINfileData.Rd | 2 man/plot_ViolinPlot.Rd | 2 man/read_BIN2R.Rd | 13 man/read_Daybreak2R.Rd | 6 man/read_PSL2R.Rd | 2 man/read_RF2R.Rd | 8 man/read_SPE2R.Rd | 9 man/read_TIFF2R.Rd | 8 man/read_XSYG2R.Rd | 6 man/replicate_RLum.Rd | 2 man/report_RLum.Rd | 4 man/sTeve.Rd | 2 man/scale_GammaDose.Rd | 2 man/set_RLum.Rd | 2 man/set_Risoe.BINfileData.Rd | 2 man/smooth_RLum.Rd | 2 man/structure_RLum.Rd | 2 man/subset_SingleGrainData.Rd | 2 man/template_DRAC.Rd | 2 man/trim_RLum.Data.Rd |only man/tune_Data.Rd | 2 man/use_DRAC.Rd | 2 man/verify_SingleGrainData.Rd | 12 man/write_R2BIN.Rd | 2 man/write_R2TIFF.Rd | 2 man/write_RLum2CSV.Rd | 2 tests/testthat/test_analyse_IRSARRF.R | 70 +++ tests/testthat/test_analyse_SARCWOSL.R | 114 +++++ tests/testthat/test_calc_Huntley2006.R | 93 ++++ tests/testthat/test_convert_Activity2Concentration.R | 50 ++ tests/testthat/test_extract_IrradiationTimes.R | 2 tests/testthat/test_fit_EmissionSpectra.R | 1 tests/testthat/test_import_Data.R |only tests/testthat/test_internals.R | 12 tests/testthat/test_plot_DetPlot.R | 47 ++ tests/testthat/test_plot_GrowthCurve.R | 27 + tests/testthat/test_plot_OSLAgeSummary.R | 3 tests/testthat/test_plot_RLum.R | 15 tests/testthat/test_read_BIN2R.R | 28 + tests/testthat/test_read_XSYG2R.R | 18 tests/testthat/test_trim_RLum.Data.R |only 189 files changed, 2384 insertions(+), 1424 deletions(-)
Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Interchange Standards
Consortium (CDISC) compliant Analysis Data Model (ADaM) datasets in R.
ADaM datasets are a mandatory part of any New Drug or Biologics
License Application submitted to the United States Food and Drug
Administration (FDA). Analysis derivations are implemented in
accordance with the "Analysis Data Model Implementation Guide" (CDISC
Analysis Data Model Team, 2021,
<https://www.cdisc.org/standards/foundational/adam>).
Author: Ben Straub [aut, cre],
Stefan Bundfuss [aut],
Jeffrey Dickinson [aut],
Ross Farrugia [aut],
Fanny Gautier [aut],
G Gayatri [aut],
Asha Chakma [aut],
Dinakar Kulkarni [aut],
Edoardo Mancini [aut],
Sadchla Mascary [aut],
Gordon Miller [aut],
Lina Patil [...truncated...]
Maintainer: Ben Straub <ben.x.straub@gsk.com>
Diff between admiral versions 1.0.2 dated 2024-03-05 and 1.1.0 dated 2024-06-07
admiral-1.0.2/admiral/R/derive_date_vars.R |only admiral-1.0.2/admiral/tests/testthat/test-derive_date_vars.R |only admiral-1.1.0/admiral/DESCRIPTION | 30 admiral-1.1.0/admiral/MD5 | 383 ++-- admiral-1.1.0/admiral/NAMESPACE | 15 admiral-1.1.0/admiral/NEWS.md | 97 + admiral-1.1.0/admiral/R/admiral-package.R | 49 admiral-1.1.0/admiral/R/admiral_options.R | 12 admiral-1.1.0/admiral/R/call_derivation.R | 45 admiral-1.1.0/admiral/R/call_user_fun.R | 8 admiral-1.1.0/admiral/R/compute_age_years.R | 14 admiral-1.1.0/admiral/R/compute_kidney.R | 10 admiral-1.1.0/admiral/R/compute_scale.R | 23 admiral-1.1.0/admiral/R/consolidate_metadata.R | 13 admiral-1.1.0/admiral/R/create_country_codes.R |only admiral-1.1.0/admiral/R/create_query_data.R | 218 +- admiral-1.1.0/admiral/R/create_single_dose_dataset.R | 61 admiral-1.1.0/admiral/R/derive_expected_records.R | 13 admiral-1.1.0/admiral/R/derive_extreme_event.R | 75 admiral-1.1.0/admiral/R/derive_joined.R | 11 admiral-1.1.0/admiral/R/derive_locf_records.R | 15 admiral-1.1.0/admiral/R/derive_merged.R | 141 + admiral-1.1.0/admiral/R/derive_param_computed.R | 147 - admiral-1.1.0/admiral/R/derive_param_exposure.R | 48 admiral-1.1.0/admiral/R/derive_param_extreme_record.R | 4 admiral-1.1.0/admiral/R/derive_param_tte.R | 62 admiral-1.1.0/admiral/R/derive_summary_records.R | 8 admiral-1.1.0/admiral/R/derive_var_base.R | 2 admiral-1.1.0/admiral/R/derive_var_dthcaus.R | 42 admiral-1.1.0/admiral/R/derive_var_extreme_date.R | 36 admiral-1.1.0/admiral/R/derive_var_joined_exist_flag.R | 8 admiral-1.1.0/admiral/R/derive_var_merged_ef_msrc.R | 18 admiral-1.1.0/admiral/R/derive_var_ontrtfl.R | 10 admiral-1.1.0/admiral/R/derive_var_shift.R | 12 admiral-1.1.0/admiral/R/derive_var_trtemfl.R | 259 ++ admiral-1.1.0/admiral/R/derive_vars_aage.R | 39 admiral-1.1.0/admiral/R/derive_vars_dt.R |only admiral-1.1.0/admiral/R/derive_vars_dt_dtm_utils.R |only admiral-1.1.0/admiral/R/derive_vars_dtm.R |only admiral-1.1.0/admiral/R/derive_vars_dy.R | 13 admiral-1.1.0/admiral/R/derive_vars_query.R | 188 +- admiral-1.1.0/admiral/R/derive_vars_transposed.R | 99 + admiral-1.1.0/admiral/R/duplicates.R | 28 admiral-1.1.0/admiral/R/event.R | 4 admiral-1.1.0/admiral/R/filter_joined.R | 6 admiral-1.1.0/admiral/R/get_flagged_records.R |only admiral-1.1.0/admiral/R/get_summary_records.R | 4 admiral-1.1.0/admiral/R/globals.R | 6 admiral-1.1.0/admiral/R/period_dataset.R | 100 - admiral-1.1.0/admiral/R/roxygen2.R | 2 admiral-1.1.0/admiral/R/slice_derivation.R | 24 admiral-1.1.0/admiral/R/user_helpers.R | 35 admiral-1.1.0/admiral/R/user_utils.R | 4 admiral-1.1.0/admiral/README.md | 33 admiral-1.1.0/admiral/build/vignette.rds |binary admiral-1.1.0/admiral/inst/WORDLIST | 22 admiral-1.1.0/admiral/inst/doc/adsl.Rmd | 2 admiral-1.1.0/admiral/inst/doc/bds_exposure.R | 58 admiral-1.1.0/admiral/inst/doc/bds_exposure.Rmd | 58 admiral-1.1.0/admiral/inst/doc/bds_exposure.html | 112 - admiral-1.1.0/admiral/inst/doc/bds_finding.R | 18 admiral-1.1.0/admiral/inst/doc/bds_finding.Rmd | 30 admiral-1.1.0/admiral/inst/doc/bds_finding.html | 100 - admiral-1.1.0/admiral/inst/doc/concepts_conventions.R |only admiral-1.1.0/admiral/inst/doc/concepts_conventions.Rmd |only admiral-1.1.0/admiral/inst/doc/concepts_conventions.html |only admiral-1.1.0/admiral/inst/doc/generic.html | 24 admiral-1.1.0/admiral/inst/doc/lab_grading.R | 6 admiral-1.1.0/admiral/inst/doc/lab_grading.Rmd | 22 admiral-1.1.0/admiral/inst/doc/lab_grading.html | 16 admiral-1.1.0/admiral/inst/doc/occds.html | 22 admiral-1.1.0/admiral/inst/doc/pk_adnca.R | 39 admiral-1.1.0/admiral/inst/doc/pk_adnca.Rmd | 46 admiral-1.1.0/admiral/inst/doc/pk_adnca.html | 503 ++--- admiral-1.1.0/admiral/inst/doc/questionnaires.Rmd | 2 admiral-1.1.0/admiral/inst/doc/visits_periods.R | 239 +- admiral-1.1.0/admiral/inst/doc/visits_periods.Rmd | 396 ++-- admiral-1.1.0/admiral/inst/doc/visits_periods.html | 928 +++++++--- admiral-1.1.0/admiral/inst/example_scripts/example_query_source.R | 2 admiral-1.1.0/admiral/inst/templates/ad_adeg.R | 6 admiral-1.1.0/admiral/inst/templates/ad_adex.R | 132 - admiral-1.1.0/admiral/inst/templates/ad_adlb.R | 11 admiral-1.1.0/admiral/inst/templates/ad_adpc.R | 12 admiral-1.1.0/admiral/inst/templates/ad_adpp.R | 21 admiral-1.1.0/admiral/inst/templates/ad_adppk.R | 30 admiral-1.1.0/admiral/inst/templates/ad_adsl.R | 3 admiral-1.1.0/admiral/inst/templates/ad_advs.R | 16 admiral-1.1.0/admiral/inst/visit_periods |only admiral-1.1.0/admiral/man/admiral-package.Rd | 7 admiral-1.1.0/admiral/man/atoxgr_criteria_ctcv4.Rd | 1 admiral-1.1.0/admiral/man/atoxgr_criteria_ctcv5.Rd | 1 admiral-1.1.0/admiral/man/atoxgr_criteria_daids.Rd | 1 admiral-1.1.0/admiral/man/basket_select.Rd | 6 admiral-1.1.0/admiral/man/call_user_fun.Rd | 4 admiral-1.1.0/admiral/man/compute_dtf.Rd | 2 admiral-1.1.0/admiral/man/compute_egfr.Rd | 4 admiral-1.1.0/admiral/man/compute_tmf.Rd | 2 admiral-1.1.0/admiral/man/convert_date_to_dtm.Rd | 2 admiral-1.1.0/admiral/man/convert_dtc_to_dt.Rd | 2 admiral-1.1.0/admiral/man/convert_dtc_to_dtm.Rd | 2 admiral-1.1.0/admiral/man/country_code_lookup.Rd |only admiral-1.1.0/admiral/man/create_single_dose_dataset.Rd | 2 admiral-1.1.0/admiral/man/date_source.Rd | 14 admiral-1.1.0/admiral/man/derive_expected_records.Rd | 3 admiral-1.1.0/admiral/man/derive_extreme_event.Rd | 8 admiral-1.1.0/admiral/man/derive_locf_records.Rd | 7 admiral-1.1.0/admiral/man/derive_param_computed.Rd | 74 admiral-1.1.0/admiral/man/derive_param_exposure.Rd | 32 admiral-1.1.0/admiral/man/derive_var_shift.Rd | 3 admiral-1.1.0/admiral/man/derive_var_trtemfl.Rd | 91 admiral-1.1.0/admiral/man/derive_vars_aage.Rd | 3 admiral-1.1.0/admiral/man/derive_vars_atc.Rd | 7 admiral-1.1.0/admiral/man/derive_vars_dt.Rd | 2 admiral-1.1.0/admiral/man/derive_vars_dtm.Rd | 2 admiral-1.1.0/admiral/man/derive_vars_merged.Rd | 23 admiral-1.1.0/admiral/man/derive_vars_merged_lookup.Rd | 10 admiral-1.1.0/admiral/man/derive_vars_query.Rd | 2 admiral-1.1.0/admiral/man/derive_vars_transposed.Rd | 21 admiral-1.1.0/admiral/man/dose_freq_lookup.Rd | 3 admiral-1.1.0/admiral/man/dt_level.Rd | 2 admiral-1.1.0/admiral/man/dthcaus_source.Rd | 13 admiral-1.1.0/admiral/man/dtm_level.Rd | 2 admiral-1.1.0/admiral/man/extract_unit.Rd | 4 admiral-1.1.0/admiral/man/figures/dependencies_devtools.png |only admiral-1.1.0/admiral/man/get_admiral_option.Rd | 2 admiral-1.1.0/admiral/man/get_flagged_records.Rd |only admiral-1.1.0/admiral/man/get_hori_data.Rd | 2 admiral-1.1.0/admiral/man/get_imputation_target_date.Rd | 2 admiral-1.1.0/admiral/man/get_imputation_target_time.Rd | 2 admiral-1.1.0/admiral/man/get_not_mapped.Rd | 4 admiral-1.1.0/admiral/man/get_partialdatetime.Rd | 2 admiral-1.1.0/admiral/man/get_vars_query.Rd |only admiral-1.1.0/admiral/man/impute_dtc_dt.Rd | 2 admiral-1.1.0/admiral/man/impute_dtc_dtm.Rd | 2 admiral-1.1.0/admiral/man/restrict_imputed_dtc_dt.Rd | 2 admiral-1.1.0/admiral/man/restrict_imputed_dtc_dtm.Rd | 2 admiral-1.1.0/admiral/man/signal_duplicate_records.Rd | 4 admiral-1.1.0/admiral/tests/testthat/_snaps/call_derivation.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/call_user_fun.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/compute_age_years.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/compute_scale.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/consolidate_metadata.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/create_query_data.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/create_single_dose_dataset.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_extreme_event.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_joined.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_merged.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_param_computed.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_param_tte.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_var_base.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_var_dthcaus.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_var_extreme_date.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_var_merged_ef_msrc.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_var_trtemfl.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_vars_aage.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_vars_dt.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_vars_dtm.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_vars_dy.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_vars_query.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/derive_vars_transposed.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/dt_level.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/duplicates.md | 3 admiral-1.1.0/admiral/tests/testthat/_snaps/period_dataset.md |only admiral-1.1.0/admiral/tests/testthat/_snaps/user_helpers.md |only admiral-1.1.0/admiral/tests/testthat/test-admiral_options.R | 13 admiral-1.1.0/admiral/tests/testthat/test-call_derivation.R | 35 admiral-1.1.0/admiral/tests/testthat/test-call_user_fun.R | 5 admiral-1.1.0/admiral/tests/testthat/test-compute_age_years.R | 9 admiral-1.1.0/admiral/tests/testthat/test-compute_kidney.R | 11 admiral-1.1.0/admiral/tests/testthat/test-compute_scale.R | 35 admiral-1.1.0/admiral/tests/testthat/test-consolidate_metadata.R | 26 admiral-1.1.0/admiral/tests/testthat/test-create_country_codes.R |only admiral-1.1.0/admiral/tests/testthat/test-create_query_data.R | 284 +-- admiral-1.1.0/admiral/tests/testthat/test-create_single_dose_dataset.R | 61 admiral-1.1.0/admiral/tests/testthat/test-derive_advs_params.R | 62 admiral-1.1.0/admiral/tests/testthat/test-derive_extreme_event.R | 210 +- admiral-1.1.0/admiral/tests/testthat/test-derive_joined.R | 6 admiral-1.1.0/admiral/tests/testthat/test-derive_merged.R | 175 + admiral-1.1.0/admiral/tests/testthat/test-derive_param_computed.R | 72 admiral-1.1.0/admiral/tests/testthat/test-derive_param_exist_flag.R | 5 admiral-1.1.0/admiral/tests/testthat/test-derive_param_exposure.R | 77 admiral-1.1.0/admiral/tests/testthat/test-derive_param_extreme_record.R | 2 admiral-1.1.0/admiral/tests/testthat/test-derive_param_tte.R | 39 admiral-1.1.0/admiral/tests/testthat/test-derive_summary_records.R | 13 admiral-1.1.0/admiral/tests/testthat/test-derive_var_atoxgr.R | 14 admiral-1.1.0/admiral/tests/testthat/test-derive_var_base.R | 16 admiral-1.1.0/admiral/tests/testthat/test-derive_var_dthcaus.R | 89 admiral-1.1.0/admiral/tests/testthat/test-derive_var_extreme_date.R | 34 admiral-1.1.0/admiral/tests/testthat/test-derive_var_joined_exist_flag.R | 55 admiral-1.1.0/admiral/tests/testthat/test-derive_var_merged_ef_msrc.R | 45 admiral-1.1.0/admiral/tests/testthat/test-derive_var_ontrtfl.R | 36 admiral-1.1.0/admiral/tests/testthat/test-derive_var_shift.R | 25 admiral-1.1.0/admiral/tests/testthat/test-derive_var_trtemfl.R | 137 + admiral-1.1.0/admiral/tests/testthat/test-derive_vars_aage.R | 58 admiral-1.1.0/admiral/tests/testthat/test-derive_vars_dt.R |only admiral-1.1.0/admiral/tests/testthat/test-derive_vars_dt_dtm_utils.R |only admiral-1.1.0/admiral/tests/testthat/test-derive_vars_dtm.R |only admiral-1.1.0/admiral/tests/testthat/test-derive_vars_dy.R | 4 admiral-1.1.0/admiral/tests/testthat/test-derive_vars_query.R | 49 admiral-1.1.0/admiral/tests/testthat/test-derive_vars_transposed.R | 84 admiral-1.1.0/admiral/tests/testthat/test-dt_level.R |only admiral-1.1.0/admiral/tests/testthat/test-event.R | 9 admiral-1.1.0/admiral/tests/testthat/test-filter_joined.R | 31 admiral-1.1.0/admiral/tests/testthat/test-get_flagged_records.R |only admiral-1.1.0/admiral/tests/testthat/test-get_summary_records.R |only admiral-1.1.0/admiral/tests/testthat/test-period_dataset.R | 49 admiral-1.1.0/admiral/tests/testthat/test-slice_derivation.R | 47 admiral-1.1.0/admiral/tests/testthat/test-user_helpers.R | 40 admiral-1.1.0/admiral/tests/testthat/test-user_utils.R | 68 admiral-1.1.0/admiral/vignettes/adsl.Rmd | 2 admiral-1.1.0/admiral/vignettes/bds_exposure.Rmd | 58 admiral-1.1.0/admiral/vignettes/bds_finding.Rmd | 30 admiral-1.1.0/admiral/vignettes/concepts_conventions.Rmd |only admiral-1.1.0/admiral/vignettes/lab_grading.Rmd | 22 admiral-1.1.0/admiral/vignettes/pk_adnca.Rmd | 46 admiral-1.1.0/admiral/vignettes/questionnaires.Rmd | 2 admiral-1.1.0/admiral/vignettes/visits_periods.Rmd | 396 ++-- 217 files changed, 5032 insertions(+), 3295 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-31 0.1-0
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013) <doi:10.1016/j.mbs.2012.10.005>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph]
,
Emmanuel Paradis [cph]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 1.11.0 dated 2024-06-05 and 1.11.1 dated 2024-06-07
DESCRIPTION | 6 MD5 | 16 +- NEWS.md | 5 build/partial.rdb |binary inst/doc/filesystem-navigation.html | 135 ++++++++-------- inst/doc/load-data.html | 232 ++++++++++++++--------------- inst/doc/load-trees.html | 147 +++++++++--------- man/figures/Stemwardness.png |binary tests/testthat/test-TotalCopheneticIndex.R | 3 9 files changed, 274 insertions(+), 270 deletions(-)
Title: Post-Linkage Data Analysis Based on Mixture Modelling
Description: Perform inference in the secondary analysis setting with linked data potentially containing mismatch errors. Only the linked data file may be accessible and information about the record linkage process may be limited or unavailable. Implements the 'General Framework for Regression with Mismatched Data' developed by Slawski et al. (2023) <doi:10.48550/arXiv.2306.00909>. The framework uses a mixture model for pairs of linked records whose two components reflect distributions conditional on match status, i.e., correct match or mismatch. Inference is based on composite likelihood and the Expectation-Maximization (EM) algorithm. The package currently supports Cox Proportional Hazards Regression (right-censored data only) and Generalized Linear Regression Models (Gaussian, Gamma, Poisson, and Logistic (binary models only)). Information about the underlying record linkage process can be incorporated into the method if available (e.g., assumed overall mismatch rate, safe matches, predict [...truncated...]
Author: Priyanjali Bukke [aut, cre],
Zhenbang Wang [aut],
Martin Slawski [aut] ,
Brady T. West [aut],
Emanuel Ben-David [aut],
Guoqing Diao [aut]
Maintainer: Priyanjali Bukke <pbukke@gmu.edu>
Diff between pldamixture versions 0.1.0 dated 2024-03-05 and 0.1.1 dated 2024-06-07
DESCRIPTION | 8 - MD5 | 18 +-- R/fit_mixture_cox.R | 15 +-- R/fit_mixture_gaussian.R | 2 build/partial.rdb |binary man/fit_mixture.Rd | 210 +++++++++++++++++++++++----------------------- man/lifem.Rd | 88 +++++++++---------- man/predict.fitmixture.Rd | 112 ++++++++++++------------ man/print.fitmixture.Rd | 68 +++++++------- man/summary.fitmixture.Rd | 78 ++++++++--------- 10 files changed, 301 insertions(+), 298 deletions(-)
Title: Machine Learning
Description: Machine learning, containing several algorithms for supervised and unsupervised classification, in addition to a function that plots the Receiver Operating Characteristic (ROC) and Precision-Recall (PRC) curve graphs, and also a function that returns several metrics used for model evaluation, the latter can be used in ranking results from other packs.
Author: Paulo Cesar Ossani [aut, cre]
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between Kira versions 1.0.2 dated 2024-05-31 and 1.0.3 dated 2024-06-07
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- man/Kira-package.Rd | 6 +++--- man/elbow.Rd | 1 - 4 files changed, 10 insertions(+), 11 deletions(-)
Title: Causal Modeling with Coincidence Analysis
Description: Provides comprehensive functionalities for causal modeling with Coincidence Analysis (CNA), which is a configurational comparative method of causal data analysis that was first introduced in Baumgartner (2009) <doi:10.1177/0049124109339369>, and generalized in Baumgartner & Ambuehl (2018) <doi:10.1017/psrm.2018.45>. CNA is designed to recover INUS-causation from data, which is particularly relevant for analyzing processes featuring conjunctural causation (component causation) and equifinality (alternative causation). CNA is currently the only method for INUS-discovery that allows for multiple effects (outcomes/endogenous factors), meaning it can analyze common-cause and causal chain structures.
Author: Mathias Ambuehl [aut, cre, cph],
Michael Baumgartner [aut, cph],
Ruedi Epple [ctb],
Veli-Pekka Parkkinen [ctb],
Alrik Thiem [ctb]
Maintainer: Mathias Ambuehl <mathias.ambuehl@consultag.ch>
Diff between cna versions 3.5.6 dated 2023-12-21 and 3.6.0 dated 2024-06-07
DESCRIPTION | 12 MD5 | 79 +-- NAMESPACE | 3 R/cna.r | 23 - R/cna_accel.r | 15 R/cna_aux.r | 22 R/condTbl.r | 68 ++ R/cond_manip.R | 4 R/configTable.R | 5 R/csf.R | 17 R/ctiList.R | 6 R/details.R | 19 R/is.inus.R | 25 - R/print.condList.R | 5 R/randomConds.R | 31 + inst/NEWS | 7 inst/doc/cna.R | 133 +++-- inst/doc/cna.Rnw | 511 ++++++++++------------ inst/doc/cna.pdf |binary man/cna-package.Rd | 21 man/cna.Rd | 1029 ++++++++++++++++++++++----------------------- man/condList-methods.Rd | 121 ++--- man/condTbl.Rd | 412 +++++++++--------- man/condition.Rd | 4 man/configTable.Rd | 326 +++++++------- man/figures/structures.pdf |only man/figures/structures.png |binary man/is.inus.Rd | 374 ++++++++-------- man/is.submodel.Rd | 168 +++---- man/makeFuzzy.Rd | 112 ++-- man/minimalize.Rd | 162 +++---- man/minimalizeCsf.Rd | 8 man/randomConds.Rd | 20 man/redundant.Rd | 177 ++++--- man/rreduce.Rd | 134 ++--- man/shortcuts.Rd | 106 ++-- man/some.Rd | 142 +++--- src/C_redundant.cpp | 2 vignettes/cna.Rnw | 511 ++++++++++------------ vignettes/fig1.pdf |binary vignettes/plot1.pdf |only vignettes/plot2.pdf |only 42 files changed, 2474 insertions(+), 2340 deletions(-)
Title: Classification Using Binary Procrustes Rotation
Description: Implements a classification method described by Grice (2011, ISBN:978-0-12-385194-9) using
binary procrustes rotation; a simplified version of procrustes rotation.
Author: Timothy Beechey [aut, cre]
Maintainer: Timothy Beechey <tim.beechey@proton.me>
Diff between clubpro versions 0.6.1 dated 2024-04-16 and 0.6.2 dated 2024-06-07
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/classify.R | 2 +- R/summary.R | 2 +- build/vignette.rds |binary inst/doc/clubpro.html | 10 +++++----- inst/tinytest/test_clubpro.R | 2 +- src/cpp_functions.cpp | 4 ++-- 8 files changed, 20 insertions(+), 20 deletions(-)
More information about TidyConsultant at CRAN
Permanent link
Title: Clustering for Business Analytics
Description: Implements clustering techniques such as Proximus and Rock, utility functions for efficient computation of cross distances and data manipulation.
Author: Christian Buchta and Michael Hahsler
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>
Diff between cba versions 0.2-23 dated 2022-12-07 and 0.2-24 dated 2024-06-07
CHANGELOG | 5 +++++ DESCRIPTION | 6 +++--- MD5 | 11 ++++++----- build |only man/Mushroom.Rd | 13 ++++++++----- man/Votes.Rd | 13 ++++++++----- src/sdists.c | 4 +++- 7 files changed, 33 insertions(+), 19 deletions(-)
Title: Data Exchange Between R and 'LabKey' Server
Description: The 'LabKey' client library for R makes it easy for R users to
load live data from a 'LabKey' Server, <https://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a 'LabKey' Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 3.2.1 dated 2024-04-05 and 3.2.2 dated 2024-06-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 11 +++++++---- R/labkey.defaults.R | 4 ++++ man/Rlabkey-package.Rd | 4 ++-- 5 files changed, 21 insertions(+), 14 deletions(-)
Title: Modern Database Engine for Complex Data Based on
Multi-Dimensional Arrays
Description: The modern database 'TileDB' introduces a powerful on-disk
format for storing and accessing any complex data based on multi-dimensional
arrays. It supports dense and sparse arrays, dataframes and key-values stores,
cloud storage ('S3', 'GCS', 'Azure'), chunked arrays, multiple compression,
encryption and checksum filters, uses a fully multi-threaded implementation,
supports parallel I/O, data versioning ('time travel'), metadata and groups.
It is implemented as an embeddable cross-platform C++ library with APIs from
several languages, and integrations. This package provides the R support.
Author: TileDB, Inc. [aut, cph],
Dirk Eddelbuettel [cre]
Maintainer: Dirk Eddelbuettel <dirk@tiledb.com>
Diff between tiledb versions 0.27.0 dated 2024-05-09 and 0.28.0 dated 2024-06-07
DESCRIPTION | 6 +-- MD5 | 46 +++++++++++++++------------- NAMESPACE | 1 NEWS.md | 18 ++++++++++ R/Array.R | 4 +- R/ArraySchema.R | 9 ++++- R/Init.R | 11 ++++++ R/RcppExports.R | 37 ++++++++++++++++++++++ cleanup | 4 +- inst/examples/ex_s3_connection.R |only inst/tinytest/test_timetravel.R | 17 ++++------ inst/tinytest/test_vfs_file.R |only man/describe.Rd | 3 + man/tiledb_schema_get_dim_attr_status.Rd | 3 + man/tiledb_schema_get_enumeration_status.Rd | 3 + man/vfs_file.Rd |only src/Makevars.in | 18 +++++++++- src/Makevars.win | 12 ++++++- src/RcppExports.cpp | 25 +++++++++++++++ src/connection |only src/libtiledb.cpp | 4 +- src/virtualfile.cpp |only tools/buildTileDB.sh | 3 - tools/ci/valgrind/buildTileDB.sh | 3 - tools/testLocalPrebuilt.sh | 5 +-- tools/tiledbVersion.txt | 4 +- 26 files changed, 178 insertions(+), 58 deletions(-)
Title: REDCap Castellated Data Handling
Description: Originally forked from the R part of 'REDCapRITS' by Paul Egeler.
See <https://github.com/pegeler/REDCapRITS>.
'REDCap' database casting and handling of castellated data when using
repeated instruments and longitudinal projects. Keeps a focused data export
approach, by allowing to only export required data from the database.
'REDCap' (Research Electronic Data Capture) is a secure, web-based software
platform designed to support data capture for research studies, providing
1) an intuitive interface for validated data capture; 2) audit trails for
tracking data manipulation and export procedures; 3) automated export
procedures for seamless data downloads to common statistical packages; and
4) procedures for data integration and interoperability with external
sources (Harris et al (2009) <doi:10.1016/j.jbi.2008.08.010>;
Harris et al (2019) <doi:10.1016/j.jbi.2019.103208>).
Author: Andreas Gammelgaard Damsbo [aut, cre]
,
Paul Egeler [aut]
Maintainer: Andreas Gammelgaard Damsbo <agdamsbo@clin.au.dk>
Diff between REDCapCAST versions 24.2.1 dated 2024-02-28 and 24.6.1 dated 2024-06-07
REDCapCAST-24.2.1/REDCapCAST/man/deploy_shiny.Rd |only REDCapCAST-24.6.1/REDCapCAST/DESCRIPTION | 22 REDCapCAST-24.6.1/REDCapCAST/MD5 | 62 REDCapCAST-24.6.1/REDCapCAST/NAMESPACE | 14 REDCapCAST-24.6.1/REDCapCAST/NEWS.md | 17 REDCapCAST-24.6.1/REDCapCAST/R/create_instrument_meta.R |only REDCapCAST-24.6.1/REDCapCAST/R/doc2dd.R |only REDCapCAST-24.6.1/REDCapCAST/R/ds2dd_detailed.R | 56 REDCapCAST-24.6.1/REDCapCAST/R/html_styling.R |only REDCapCAST-24.6.1/REDCapCAST/R/process_user_input.r | 36 REDCapCAST-24.6.1/REDCapCAST/R/read_redcap_tables.R | 2 REDCapCAST-24.6.1/REDCapCAST/R/shiny_cast.R | 58 REDCapCAST-24.6.1/REDCapCAST/R/utils.r | 47 REDCapCAST-24.6.1/REDCapCAST/README.md | 11 REDCapCAST-24.6.1/REDCapCAST/build/vignette.rds |binary REDCapCAST-24.6.1/REDCapCAST/inst/WORDLIST | 19 REDCapCAST-24.6.1/REDCapCAST/inst/doc/Database-creation.R | 35 REDCapCAST-24.6.1/REDCapCAST/inst/doc/Database-creation.Rmd | 54 REDCapCAST-24.6.1/REDCapCAST/inst/doc/Database-creation.html | 1438 +++++++++- REDCapCAST-24.6.1/REDCapCAST/inst/doc/Introduction.html | 216 - REDCapCAST-24.6.1/REDCapCAST/man/case_match_regex_list.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/char2choice.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/char2cond.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/create_html_table.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/create_instrument_meta.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/doc2dd.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/ds2dd_detailed.Rd | 19 REDCapCAST-24.6.1/REDCapCAST/man/file_extension.Rd | 3 REDCapCAST-24.6.1/REDCapCAST/man/format_subheader.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/html_tag_wrap.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/is_missing.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/process_user_input.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/process_user_input.character.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/process_user_input.data.frame.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/process_user_input.default.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/process_user_input.response.Rd |only REDCapCAST-24.6.1/REDCapCAST/man/read_input.Rd | 2 REDCapCAST-24.6.1/REDCapCAST/man/replace_curly_quote.Rd |only REDCapCAST-24.6.1/REDCapCAST/tests/spelling.Rout.save |only REDCapCAST-24.6.1/REDCapCAST/tests/testthat.R | 1 REDCapCAST-24.6.1/REDCapCAST/tests/testthat/helper-paths.R | 4 REDCapCAST-24.6.1/REDCapCAST/vignettes/Database-creation.Rmd | 54 42 files changed, 1884 insertions(+), 286 deletions(-)
Title: Streaming Capabilities for 'OpenAI API' Interactions
Description: Based on the 'httr2' framework, the 'OpenAI' interface supports streaming calls and model training.
For more details on the API methods implemented, see the 'OpenAI' platform documentation at <https://platform.openai.com/docs/api-reference>.
Author: Li Gen [aut, cre]
Maintainer: Li Gen <libingfei@sina.com>
Diff between openaistream versions 0.2.0 dated 2024-01-23 and 0.3.0 dated 2024-06-07
openaistream-0.2.0/openaistream/inst/exdata/assfile.csv |only openaistream-0.2.0/openaistream/tests/testthat/test_bak |only openaistream-0.3.0/openaistream/DESCRIPTION | 6 openaistream-0.3.0/openaistream/MD5 | 56 ++---- openaistream-0.3.0/openaistream/R/api_config.R | 6 openaistream-0.3.0/openaistream/R/assistants.R | 70 ------- openaistream-0.3.0/openaistream/R/audio.R | 2 openaistream-0.3.0/openaistream/R/base_api.R | 1 openaistream-0.3.0/openaistream/R/batch.R |only openaistream-0.3.0/openaistream/R/chatstream.R | 48 +++-- openaistream-0.3.0/openaistream/R/fine_tuning.R | 17 + openaistream-0.3.0/openaistream/R/messages.R | 37 +--- openaistream-0.3.0/openaistream/R/openai.R | 12 + openaistream-0.3.0/openaistream/R/runs.R | 75 +++++--- openaistream-0.3.0/openaistream/R/threads.R | 8 openaistream-0.3.0/openaistream/R/vector_stores.R |only openaistream-0.3.0/openaistream/inst/exdata/assfile.txt |only openaistream-0.3.0/openaistream/inst/exdata/batch.jsonl |only openaistream-0.3.0/openaistream/inst/exdata/brka-10k.txt |only openaistream-0.3.0/openaistream/inst/exdata/goog-10k.pdf |only openaistream-0.3.0/openaistream/tests/testthat/test_assistants.R | 72 +++---- openaistream-0.3.0/openaistream/tests/testthat/test_batch.R |only openaistream-0.3.0/openaistream/tests/testthat/test_chat.R | 10 - openaistream-0.3.0/openaistream/tests/testthat/test_fine_tuning.R | 8 openaistream-0.3.0/openaistream/tests/testthat/test_messages.R | 27 +- openaistream-0.3.0/openaistream/tests/testthat/test_models.R | 1 openaistream-0.3.0/openaistream/tests/testthat/test_run.R | 92 ++++++---- openaistream-0.3.0/openaistream/tests/testthat/test_vector_stores.R |only 28 files changed, 278 insertions(+), 270 deletions(-)
Title: Latent Variable Analysis
Description: Fit a variety of latent variable models, including confirmatory
factor analysis, structural equation modeling and latent growth curve models.
Author: Yves Rosseel [aut, cre] ,
Terrence D. Jorgensen [aut] ,
Luc De Wilde [aut],
Daniel Oberski [ctb],
Jarrett Byrnes [ctb],
Leonard Vanbrabant [ctb],
Victoria Savalei [ctb],
Ed Merkle [ctb],
Michael Hallquist [ctb],
Mijke Rhemtulla [ctb],
Myrsini Katsika [...truncated...]
Maintainer: Yves Rosseel <Yves.Rosseel@UGent.be>
Diff between lavaan versions 0.6-17 dated 2023-12-20 and 0.6-18 dated 2024-06-07
lavaan-0.6-17/lavaan/man/lavParTable.Rd |only lavaan-0.6-18/lavaan/DESCRIPTION | 14 lavaan-0.6-18/lavaan/MD5 | 411 lavaan-0.6-18/lavaan/NAMESPACE | 6 lavaan-0.6-18/lavaan/R/00class.R | 228 lavaan-0.6-18/lavaan/R/00generic.R | 125 lavaan-0.6-18/lavaan/R/ctr_estfun.R | 374 lavaan-0.6-18/lavaan/R/ctr_informative_testing.R | 476 - lavaan-0.6-18/lavaan/R/ctr_modelcov.R | 4 lavaan-0.6-18/lavaan/R/ctr_mplus2lavaan.R | 924 +- lavaan-0.6-18/lavaan/R/ctr_pairwise_fit.R | 276 lavaan-0.6-18/lavaan/R/ctr_pairwise_table.R | 253 lavaan-0.6-18/lavaan/R/ctr_pml_doubly_robust_utils.R | 627 - lavaan-0.6-18/lavaan/R/ctr_pml_plrt.R | 584 - lavaan-0.6-18/lavaan/R/ctr_pml_plrt2.R | 389 lavaan-0.6-18/lavaan/R/ctr_pml_plrt_nested.R | 944 +- lavaan-0.6-18/lavaan/R/ctr_pml_utils.R | 520 - lavaan-0.6-18/lavaan/R/lav_bootstrap.R | 1105 +- lavaan-0.6-18/lavaan/R/lav_bootstrap_lrt.R | 757 - lavaan-0.6-18/lavaan/R/lav_bvmix.R | 857 +- lavaan-0.6-18/lavaan/R/lav_bvord.R | 1355 +-- lavaan-0.6-18/lavaan/R/lav_bvreg.R | 913 +- lavaan-0.6-18/lavaan/R/lav_cfa_1fac.R | 338 lavaan-0.6-18/lavaan/R/lav_cfa_bentler1982.R | 583 - 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lavaan-0.6-18/lavaan/R/lav_partable_flat.R | 1596 +-- lavaan-0.6-18/lavaan/R/lav_partable_from_lm.R | 113 lavaan-0.6-18/lavaan/R/lav_partable_full.R | 442 - lavaan-0.6-18/lavaan/R/lav_partable_labels.R | 320 lavaan-0.6-18/lavaan/R/lav_partable_merge.R | 364 lavaan-0.6-18/lavaan/R/lav_partable_ov_from_data.R | 145 lavaan-0.6-18/lavaan/R/lav_partable_random.R |only lavaan-0.6-18/lavaan/R/lav_partable_subset.R | 1097 +- lavaan-0.6-18/lavaan/R/lav_partable_unrestricted.R | 1652 ++- lavaan-0.6-18/lavaan/R/lav_partable_utils.R | 630 - lavaan-0.6-18/lavaan/R/lav_partable_vnames.R | 1661 ++- lavaan-0.6-18/lavaan/R/lav_predict.R | 3108 +++---- lavaan-0.6-18/lavaan/R/lav_predict_y.R | 591 - lavaan-0.6-18/lavaan/R/lav_prelis.R | 148 lavaan-0.6-18/lavaan/R/lav_print.R | 2858 +++--- lavaan-0.6-18/lavaan/R/lav_representation.R | 70 lavaan-0.6-18/lavaan/R/lav_representation_lisrel.R | 4697 +++++------ lavaan-0.6-18/lavaan/R/lav_representation_ram.R | 653 - lavaan-0.6-18/lavaan/R/lav_residuals.R | 2729 +++--- lavaan-0.6-18/lavaan/R/lav_residuals_casewise.R | 81 lavaan-0.6-18/lavaan/R/lav_sam_step0.R | 141 lavaan-0.6-18/lavaan/R/lav_sam_step1.R | 1339 +-- lavaan-0.6-18/lavaan/R/lav_sam_step2.R | 347 lavaan-0.6-18/lavaan/R/lav_sam_step2_se.R | 296 lavaan-0.6-18/lavaan/R/lav_sam_utils.R | 972 +- lavaan-0.6-18/lavaan/R/lav_samplestats.R | 4038 +++++---- lavaan-0.6-18/lavaan/R/lav_samplestats_gamma.R | 1430 +-- lavaan-0.6-18/lavaan/R/lav_samplestats_icov.R | 76 lavaan-0.6-18/lavaan/R/lav_samplestats_igamma.R | 250 lavaan-0.6-18/lavaan/R/lav_samplestats_robust.R | 102 lavaan-0.6-18/lavaan/R/lav_samplestats_step1.R | 209 lavaan-0.6-18/lavaan/R/lav_samplestats_step2.R | 161 lavaan-0.6-18/lavaan/R/lav_samplestats_wls_obs.R | 164 lavaan-0.6-18/lavaan/R/lav_sem_miiv.R | 19 lavaan-0.6-18/lavaan/R/lav_simulate.R | 609 - 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lavaan-0.6-18/lavaan/R/zzz.R | 13 lavaan-0.6-18/lavaan/R/zzz_OLDNAMES.R | 2 lavaan-0.6-18/lavaan/build/partial.rdb |binary lavaan-0.6-18/lavaan/inst/understanding_lavaan_internals.R | 3 lavaan-0.6-18/lavaan/man/FacialBurns.Rd | 58 lavaan-0.6-18/lavaan/man/estfun.Rd | 32 lavaan-0.6-18/lavaan/man/fitMeasures.Rd | 90 lavaan-0.6-18/lavaan/man/lavOptions.Rd | 43 lavaan-0.6-18/lavaan/man/lavPredict.Rd | 2 lavaan-0.6-18/lavaan/man/lavPredictY.Rd | 15 lavaan-0.6-18/lavaan/man/lavPredictY_cv.Rd |only lavaan-0.6-18/lavaan/man/lavTablesFit.Rd | 220 lavaan-0.6-18/lavaan/man/lavTestLRT.Rd | 115 lavaan-0.6-18/lavaan/man/lav_export_estimation.Rd |only lavaan-0.6-18/lavaan/man/lav_partable.Rd | 2 lavaan-0.6-18/lavaan/man/lavaan-class.Rd | 13 lavaan-0.6-18/lavaan/man/lavaanList-class.Rd | 1 lavaan-0.6-18/lavaan/man/model.syntax.Rd | 4 lavaan-0.6-18/lavaan/man/parTable.Rd |only lavaan-0.6-18/lavaan/man/parameterEstimates.Rd | 8 222 files changed, 75714 insertions(+), 71461 deletions(-)
Title: Procedures for Gaussian and Non Gaussian Geostatistical (Large)
Data Analysis
Description: Functions for Gaussian and Non Gaussian (bivariate) spatial and spatio-temporal data analysis are provided for a) (fast) simulation of random fields, b) inference for random fields using standard likelihood and a likelihood approximation method called weighted composite likelihood based on pairs and b) prediction using (local) best linear unbiased prediction. Weighted composite likelihood can be very efficient for estimating massive datasets. Both regression and spatial (temporal) dependence analysis can be jointly performed. Flexible covariance models for spatial and spatial-temporal data on Euclidean domains and spheres are provided. There are also many useful functions for plotting and performing diagnostic analysis. Different non Gaussian random fields can be considered in the analysis. Among them, random fields with marginal distributions such as Skew-Gaussian, Student-t, Tukey-h, Sin-Arcsin, Two-piece, Weibull, Gamma, Log-Gaussian, Binomial, Negative Binomial and Poisson. Se [...truncated...]
Author: Moreno Bevilacqua [aut, cre] ,
Victor Morales-Onate [aut] ,
Christian Caamano-Carrillo [aut]
Maintainer: Moreno Bevilacqua <moreno.bevilacqua89@gmail.com>
Diff between GeoModels versions 2.0.2 dated 2024-05-16 and 2.0.3 dated 2024-06-07
DESCRIPTION | 6 MD5 | 80 ++++++------ NAMESPACE | 4 R/GeoCompositeLik.r | 4 R/GeoCompositeLik2.R | 18 +- R/GeoCorrFct.r | 260 +++++++++++++++++++++++++++++++++++++---- R/GeoCorrFct_Cop.R | 89 ++++++++++---- R/GeoCovariogram2.R |only R/GeoCovmatrix.r | 55 ++++++++ R/GeoDoScores.R | 14 +- R/GeoFit.r | 6 R/GeoKrig.r | 83 ++++++++----- R/GeoKrigloc.R | 159 ++++++++++++++----------- R/GeoLik.r | 11 - R/GeoNeighIndex.R | 107 ++++++++++++---- R/GeoSim.r | 14 +- R/GeoSimapprox.r | 36 +++-- R/GeoVariogram.r | 162 ++++++++++++++++--------- R/GeoWls.r | 7 - R/SimCE.R | 4 R/Utility.r | 75 ++++++++--- data/Jamaicatemp.RData |binary data/anomalies.rda |binary data/austemp.rda |binary data/datalist | 1 data/madagascarph.rda |only data/spanish_wind.rda |binary data/winds.coords.rda |binary data/winds.rda |binary man/GeoCorrFct.Rd | 86 ++++++------- man/GeoCorrFct_Cop.Rd | 8 - man/GeoCovariogram.Rd | 77 +++++++++--- man/GeoCovmatrix.Rd | 51 +++++--- man/GeoFit.Rd | 38 ----- man/GeoKrig.Rd | 67 ++++++++++ man/GeoKrigloc.Rd | 57 ++++++++ man/GeoVariogram.Rd | 7 - man/madagascarph.Rd |only man/plot.GeoCorrFct.Rd |only src/CompositeLikelihoodCond2.c | 2 src/CorrelationFunction.c | 3 src/GeoModels_init.c | 5 src/weightedleastsquare.c | 62 +++++++++ 43 files changed, 1190 insertions(+), 468 deletions(-)
Title: Phase I/II CRM Based Drug Combination Design
Description: Implements the adaptive designs for integrated phase I/II trials of drug combinations via continual reassessment method (CRM) to evaluate toxicity and efficacy simultaneously for each enrolled patient cohort based on Bayesian inference. It supports patients assignment guidance in a single trial using current enrolled data, as well as conducting extensive simulation studies to evaluate operating characteristics before the trial starts. It includes various link functions such as empiric, one-parameter logistic, two-parameter logistic, and hyperbolic tangent, as well as considering multiple prior distributions of the parameters like normal distribution, gamma distribution and exponential distribution to accommodate diverse clinical scenarios. Method using Bayesian framework with empiric link function is described in: Wages and Conaway (2014) <doi:10.1002/sim.6097>.
Author: Junying Wang [cre, aut],
Song Wu [aut],
Jie Yang [aut]
Maintainer: Junying Wang <junying.wang@stonybrook.edu>
Diff between crm12Comb versions 0.1.5 dated 2024-06-04 and 0.1.6 dated 2024-06-07
crm12Comb-0.1.5/crm12Comb/inst/extdata |only crm12Comb-0.1.6/crm12Comb/DESCRIPTION | 7 ++++--- crm12Comb-0.1.6/crm12Comb/MD5 | 16 +++++++++------- crm12Comb-0.1.6/crm12Comb/R/examples_results.R |only crm12Comb-0.1.6/crm12Comb/data |only crm12Comb-0.1.6/crm12Comb/inst/doc/crm12Comb.R | 4 +--- crm12Comb-0.1.6/crm12Comb/inst/doc/crm12Comb.Rmd | 4 +--- crm12Comb-0.1.6/crm12Comb/inst/doc/crm12Comb.html | 8 +++----- crm12Comb-0.1.6/crm12Comb/man/examples_results.Rd |only crm12Comb-0.1.6/crm12Comb/man/sample_plot.Rd | 4 +--- crm12Comb-0.1.6/crm12Comb/vignettes/crm12Comb.Rmd | 4 +--- 11 files changed, 20 insertions(+), 27 deletions(-)
Title: Multivariate Data Analysis
Description: Simple Principal Components Analysis (PCA) and (Multiple)
Correspondence Analysis (CA) based on the Singular Value Decomposition
(SVD). This package provides S4 classes and methods to compute,
extract, summarize and visualize results of multivariate data
analysis. It also includes methods for partial bootstrap validation
described in Greenacre (1984, ISBN: 978-0-12-299050-2) and Lebart et
al. (2006, ISBN: 978-2-10-049616-7).
Author: Nicolas Frerebeau [aut, cre] ,
Jean-Baptiste Fourvel [ctb] ,
Brice Lebrun [ctb] ,
Universite Bordeaux Montaigne [fnd],
CNRS [fnd]
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between dimensio versions 0.7.0 dated 2024-04-09 and 0.8.0 dated 2024-06-07
dimensio-0.7.0/dimensio/R/viz_labels.R |only dimensio-0.7.0/dimensio/inst/tinytest/test_scale.R |only dimensio-0.8.0/dimensio/DESCRIPTION | 28 dimensio-0.8.0/dimensio/MD5 | 86 +- dimensio-0.8.0/dimensio/NAMESPACE | 11 dimensio-0.8.0/dimensio/NEWS.md | 8 dimensio-0.8.0/dimensio/R/AllClasses.R | 4 dimensio-0.8.0/dimensio/R/AllGenerics.R | 38 - dimensio-0.8.0/dimensio/R/annotations.R |only dimensio-0.8.0/dimensio/R/biplot.R | 30 dimensio-0.8.0/dimensio/R/dimensio-internal.R | 169 ++--- dimensio-0.8.0/dimensio/R/dimensio-package.R | 4 dimensio-0.8.0/dimensio/R/mca.R | 2 dimensio-0.8.0/dimensio/R/mutators.R | 6 dimensio-0.8.0/dimensio/R/pca.R | 2 dimensio-0.8.0/dimensio/R/viz_coordinates.R | 115 ++- dimensio-0.8.0/dimensio/README.md | 45 - dimensio-0.8.0/dimensio/build/partial.rdb |binary dimensio-0.8.0/dimensio/build/vignette.rds |binary dimensio-0.8.0/dimensio/inst/doc/pca.R | 53 - dimensio-0.8.0/dimensio/inst/doc/pca.Rmd | 54 + dimensio-0.8.0/dimensio/inst/doc/pca.html | 72 +- dimensio-0.8.0/dimensio/inst/examples/ex-envelopes.R | 4 dimensio-0.8.0/dimensio/inst/examples/ex-plot.R | 28 dimensio-0.8.0/dimensio/inst/tinytest/_tinysnapshot/PCA_ind_highlight_cos2.svg | 306 ++++----- dimensio-0.8.0/dimensio/inst/tinytest/_tinysnapshot/PCA_var_highlight_contrib.svg | 306 ++++----- dimensio-0.8.0/dimensio/inst/tinytest/test_annotations.R |only dimensio-0.8.0/dimensio/inst/tinytest/test_plot_ca.R | 4 dimensio-0.8.0/dimensio/inst/tinytest/test_plot_pca.R | 15 dimensio-0.8.0/dimensio/man/MultivariateAnalysis.Rd | 2 dimensio-0.8.0/dimensio/man/dimensio-package.Rd | 2 dimensio-0.8.0/dimensio/man/figures/README-biplot-1.png |binary dimensio-0.8.0/dimensio/man/figures/README-plot-ind-2.png |binary dimensio-0.8.0/dimensio/man/figures/README-plot-var-1.png |binary dimensio-0.8.0/dimensio/man/label.Rd |only dimensio-0.8.0/dimensio/man/palette_color.Rd |only dimensio-0.8.0/dimensio/man/palette_color_continuous.Rd |only dimensio-0.8.0/dimensio/man/palette_color_discrete.Rd |only dimensio-0.8.0/dimensio/man/palette_shape.Rd |only dimensio-0.8.0/dimensio/man/palette_size_range.Rd |only dimensio-0.8.0/dimensio/man/prepare.Rd | 30 dimensio-0.8.0/dimensio/man/scale_midpoint.Rd |only dimensio-0.8.0/dimensio/man/scale_range.Rd |only dimensio-0.8.0/dimensio/man/viz_individuals.Rd | 70 -- dimensio-0.8.0/dimensio/man/viz_labels.Rd | 57 - dimensio-0.8.0/dimensio/man/viz_points.Rd | 31 dimensio-0.8.0/dimensio/man/viz_variables.Rd | 80 +- dimensio-0.8.0/dimensio/man/viz_wrap.Rd | 4 dimensio-0.8.0/dimensio/vignettes/bibliography.bib | 331 +--------- dimensio-0.8.0/dimensio/vignettes/pca.Rmd | 54 + 50 files changed, 917 insertions(+), 1134 deletions(-)
Title: Interacting with BibTeX Databases
Description: Reading and writing BibTeX files using data frames in R sessions.
Author: Miguel Alvarez [aut, cre]
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Diff between biblio versions 0.0.9 dated 2024-04-16 and 0.0.10 dated 2024-06-07
biblio-0.0.10/biblio/DESCRIPTION | 8 ++++---- biblio-0.0.10/biblio/MD5 | 16 ++++++++-------- biblio-0.0.10/biblio/NAMESPACE | 3 +++ biblio-0.0.10/biblio/NEWS.md | 13 +++++++++++++ biblio-0.0.10/biblio/R/doi2bib.R |only biblio-0.0.10/biblio/R/imports.R | 2 ++ biblio-0.0.10/biblio/R/read_bib.R | 2 +- biblio-0.0.10/biblio/R/sysdata.rda |binary biblio-0.0.10/biblio/man/doi2bib.Rd |only biblio-0.0.9/biblio/R/internal.R |only biblio-0.0.9/biblio/man/ris2df.Rd |only 11 files changed, 31 insertions(+), 13 deletions(-)
Title: Statistical Methods for Interval-Censored Data
Description: Functions that provide statistical methods for interval-censored (grouped) data. The package supports the estimation of linear and linear mixed regression models with interval-censored dependent variables. Parameter estimates are obtained by a stochastic expectation maximization algorithm. Furthermore, the package enables the direct (without covariates) estimation of statistical indicators from interval-censored data via an iterative kernel density algorithm. Survey and Organisation for Economic Co-operation and Development (OECD) weights can be included into the direct estimation (see, Walter, P. (2019) <doi:10.17169/refubium-1621>).
Author: Paul Walter
Maintainer: Paul Walter <paul.w@gmx.net>
Diff between smicd versions 1.1.3 dated 2023-11-19 and 1.1.4 dated 2024-06-07
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NAMESPACE | 1 - NEWS.md | 4 ++++ R/sem.lme.R | 5 +++-- R/semObject.R | 7 +------ R/summary.sem.R | 4 +--- inst/doc/vignetteSmicd.pdf |binary man/semObject.Rd | 7 +------ man/summary.sem.Rd | 4 +--- 10 files changed, 25 insertions(+), 35 deletions(-)
Title: UAV Mission Planner
Description: The Unmanned Aerial Vehicle Mission Planner provides an easy to use work flow for planning autonomous obstacle avoiding surveys of ready to fly unmanned aerial vehicles to retrieve aerial or spot related data. It creates either intermediate flight control files for the DJI-Litchi supported series or ready to upload control files for the pixhawk-based flight controller. Additionally it contains some useful tools for digitizing and data manipulation.
Author: Chris Reudenbach [cre, aut],
Marvin Ludwig [ctb],
Sebastian Richter [ctb],
Florian Detsch [ctb],
Hanna Meyer [ctb]
Maintainer: Chris Reudenbach <reudenbach@uni-marburg.de>
Diff between uavRmp versions 0.6.2 dated 2023-01-29 and 0.7 dated 2024-06-07
uavRmp-0.6.2/uavRmp/inst/extdata/qgc_survey.plan |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/CONTRIBUTING.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/FAQ.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/PLUGIN-GUIDE.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/README.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/geojson-vt-dev-README.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/leaflet-ajax-README.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/leaflet-ajax-license.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/leaflet-measure.min.js |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/leaflet-providers-CONTRIBUTING.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/leaflet-providers-README.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/leaflet-providers-license.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/map-box-README.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/mapbox-LICENSE.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/r-tree-MIT-LICENSE.md |only uavRmp-0.6.2/uavRmp/inst/htmlwidgets/lib/leaflet/r-tree-README.md |only uavRmp-0.7/uavRmp/DESCRIPTION | 17 uavRmp-0.7/uavRmp/MD5 | 104 +- uavRmp-0.7/uavRmp/NAMESPACE | 2 uavRmp-0.7/uavRmp/NEWS | 109 +- uavRmp-0.7/uavRmp/NEWS.md | 120 +- uavRmp-0.7/uavRmp/R/karim.R | 27 uavRmp-0.7/uavRmp/R/makeAP.R | 276 +++--- uavRmp-0.7/uavRmp/R/makeTP.R | 2 uavRmp-0.7/uavRmp/R/mpControl.R | 418 +++++---- uavRmp-0.7/uavRmp/R/soloTB.R | 2 uavRmp-0.7/uavRmp/R/uavRmp-package.R | 26 uavRmp-0.7/uavRmp/README.md | 34 uavRmp-0.7/uavRmp/build/vignette.rds |binary uavRmp-0.7/uavRmp/inst/doc/uavRmp_1.R | 13 uavRmp-0.7/uavRmp/inst/doc/uavRmp_1.Rmd | 208 +--- uavRmp-0.7/uavRmp/inst/doc/uavRmp_1.html | 450 ++++------ uavRmp-0.7/uavRmp/inst/doc/uavRmp_2.R |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_2.Rmd |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_2.html |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_3.R |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_3.Rmd |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_3.html |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_4.R |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_4.Rmd |only uavRmp-0.7/uavRmp/inst/doc/uavRmp_4.html |only uavRmp-0.7/uavRmp/inst/extdata/dji.jpg |binary uavRmp-0.7/uavRmp/inst/extdata/tutdata_qgc_survey.plan |only uavRmp-0.7/uavRmp/inst/extdata/tutdata_qgc_survey30m.plan |only uavRmp-0.7/uavRmp/inst/htmlwidgets/lib/leaflet-measure/leaflet-measure.min.js | 4 uavRmp-0.7/uavRmp/inst/htmlwidgets/vecDraw.js | 36 uavRmp-0.7/uavRmp/inst/shiny/plan2litchi/app.R | 74 - uavRmp-0.7/uavRmp/inst/shiny/plan2litchi/fun1.R | 2 uavRmp-0.7/uavRmp/inst/usecases/flightplan.R | 2 uavRmp-0.7/uavRmp/inst/usecases/flightplans-qgroundcontrol.R | 60 - uavRmp-0.7/uavRmp/inst/usecases/moreflights.R | 2 uavRmp-0.7/uavRmp/man/makeAP.Rd | 41 uavRmp-0.7/uavRmp/man/makeTP.Rd | 2 uavRmp-0.7/uavRmp/man/maxpos_on_line.Rd | 2 uavRmp-0.7/uavRmp/man/sp_line.Rd | 2 uavRmp-0.7/uavRmp/man/sp_point.Rd | 7 uavRmp-0.7/uavRmp/man/tutdata_dem.Rd | 2 uavRmp-0.7/uavRmp/man/tutdata_dji.Rd | 2 uavRmp-0.7/uavRmp/man/tutdata_qgc_survey.Rd | 4 uavRmp-0.7/uavRmp/man/tutdata_qgc_survey30m.Rd |only uavRmp-0.7/uavRmp/man/uavRmp.Rd | 13 uavRmp-0.7/uavRmp/vignettes/missionarea.png |binary uavRmp-0.7/uavRmp/vignettes/qcmissionb15.png |only uavRmp-0.7/uavRmp/vignettes/qcmissionb15_detail.png |only uavRmp-0.7/uavRmp/vignettes/qcmissionb16.png |only uavRmp-0.7/uavRmp/vignettes/simplemission.png |binary uavRmp-0.7/uavRmp/vignettes/uavRmp_1.Rmd | 208 +--- uavRmp-0.7/uavRmp/vignettes/uavRmp_2.Rmd |only uavRmp-0.7/uavRmp/vignettes/uavRmp_3.Rmd |only uavRmp-0.7/uavRmp/vignettes/uavRmp_4.Rmd |only 70 files changed, 1133 insertions(+), 1138 deletions(-)
Title: Quickly Explore Complex Survey Data
Description: Visualize and tabulate single-choice, multiple-choice, matrix-style questions from survey data.
Includes ability to group cross-tabulations, frequency distributions, and plots by categorical variables and
to integrate survey weights. Ideal for quickly uncovering descriptive patterns in survey data.
Author: Liam Haller [aut, cre, cph]
Maintainer: Liam Haller <liamhllr2@gmail.com>
Diff between surveyexplorer versions 0.1.0 dated 2023-12-21 and 0.2.0 dated 2024-06-07
DESCRIPTION | 8 MD5 | 42 ++-- NEWS.md | 19 ++ R/matrix.R | 121 +++++++++--- R/multiplechoice.R | 18 + R/singlechoice.R | 13 - README.md | 284 +++++++----------------------- man/figures/README-unnamed-chunk-19-1.png |binary man/figures/README-unnamed-chunk-22-1.png |binary man/figures/README-unnamed-chunk-22-2.png |binary man/figures/README-unnamed-chunk-22-3.png |only man/figures/README-unnamed-chunk-23-2.png |binary man/figures/README-unnamed-chunk-23-3.png |binary man/figures/README-unnamed-chunk-23-4.png |only man/figures/README-unnamed-chunk-24-1.png |binary man/figures/README-unnamed-chunk-24-2.png |binary man/figures/README-unnamed-chunk-24-3.png |binary man/figures/README-unnamed-chunk-24-4.png |binary man/matrix_freq.Rd | 11 + man/matrix_table.Rd | 5 man/multi_summary.Rd | 2 tests/testthat/test-matrix.R | 30 ++- tests/testthat/test-multiplechoice.R | 3 23 files changed, 263 insertions(+), 293 deletions(-)
More information about surveyexplorer at CRAN
Permanent link
Title: Interface for the 'QuickJS' Lightweight 'JavaScript' Engine
Description: An 'R' interface to the 'QuickJS' portable 'JavaScript'
engine. The engine and all 'R' to 'JavaScript' interoperability is bundled
within the package, requiring no dependencies beyond a 'C' compiler.
Author: Andrew R. Johnson [aut, cre] ,
Fabrice Bellard [cph] ,
Charlie Gordon [cph]
Maintainer: Andrew R. Johnson <andrew.johnson@arjohnsonau.com>
Diff between QuickJSR versions 1.2.0 dated 2024-05-31 and 1.2.2 dated 2024-06-07
DESCRIPTION | 19 MD5 | 58 + NEWS.md | 14 R/JSContext.R | 56 + R/qjs.R | 13 README.md | 56 + build |only inst/doc |only inst/include/quickjs_helpers.hpp |only inst/include/quickjsr.hpp | 2 inst/include/quickjsr/JSCommonType.hpp | 7 inst/include/quickjsr/JSValue_to_Cpp.hpp | 2 inst/include/quickjsr/JSValue_to_SEXP.hpp | 4 inst/include/quickjsr/JS_PropertyRecursive.hpp |only inst/include/quickjsr/JS_SEXP.hpp |only inst/include/quickjsr/SEXP_to_JSValue.hpp | 35 - inst/include/quickjsr/type_traits.hpp | 8 inst/tinytest/test_JSContext.R | 28 inst/tinytest/test_to_json_date.R | 3 man/JSContext-method-assign.Rd |only man/JSContext-method-get.Rd |only man/QuickJSR-package.Rd | 4 src/Makevars | 8 src/init.cpp | 8 src/quickjs/cutils.h | 19 src/quickjs/libbf.c | 2 src/quickjs/libbf.h | 1 src/quickjs/libregexp.c | 3 src/quickjs/quickjs-libc.c | 24 src/quickjs/quickjs.c | 804 ++++++++++++------------- src/quickjs/quickjs.h | 10 src/quickjsr.cpp | 83 +- vignettes |only 33 files changed, 758 insertions(+), 513 deletions(-)
Title: Just a Rather Bayesian Evidence Synthesis
Description: Provides a new class of Bayesian meta-analysis models that incorporates a model for internal and external validity bias. In this way, it is possible to combine studies of diverse quality and different types. For example, we can combine the results of randomized control trials (RCTs) with the results of observational studies (OS).
Author: Pablo Emilio Verde [aut, cre]
Maintainer: Pablo Emilio Verde <pabloemilio.verde@hhu.de>
Diff between jarbes versions 2.0.0 dated 2022-03-10 and 2.2.1 dated 2024-06-07
ChangeLog | 69 + DESCRIPTION | 18 MD5 | 78 - NAMESPACE | 11 R/b3lmeta.R | 6 R/bcmeta.R | 8 R/bcmixmeta.R |only R/bmeta.R | 36 R/data-documentation.R | 37 R/diagnostic.b3lmeta.R | 11 R/diagnostic.bcmeta.R | 14 R/diagnostic.bcmixmeta.R |only R/diagnostic.bmeta.R | 13 R/diagnostic.hmr.R | 63 - R/diagnostic.metarisk.R | 7 R/dummy.R |only R/effect.hmr.R |only R/hmr.R | 2628 ++++++++++++++++++++------------------------ R/jarbes-package.R | 8 R/metarisk.R | 66 - R/plot.hmr.R | 116 - R/summary.b3lmeta.R | 3 R/summary.bcmeta.R | 2 R/summary.bmeta.R | 6 R/summary.hmr.R | 20 R/summary.metarisk.R | 16 build |only data/hips.rda |only inst |only man/bcmeta.Rd | 2 man/bcmixmeta.Rd |only man/bmeta.Rd | 8 man/covid19.Rd | 2 man/diagnostic.bcmixmeta.Rd |only man/diagnostic.hmr.Rd | 19 man/effect.Rd |only man/effect.hmr.Rd |only man/hips.Rd |only man/hmr.Rd | 158 -- man/metarisk.Rd | 2 man/plot.hmr.Rd | 17 man/print.bcmixmeta.Rd |only vignettes |only 43 files changed, 1692 insertions(+), 1752 deletions(-)
Title: Simplifies Exploratory Data Analysis
Description: Interactive data exploration with one line of code, automated
reporting or use an easy to remember set of tidy functions for low
code exploratory data analysis.
Author: Roland Krasser [aut, cre]
Maintainer: Roland Krasser <roland.krasser@gmail.com>
Diff between explore versions 1.3.0 dated 2024-04-15 and 1.3.1 dated 2024-06-07
DESCRIPTION | 6 ++-- MD5 | 42 ++++++++++++++++----------------- NEWS.md | 6 ++++ R/explore.R | 45 +++++++++++++++++++++++++----------- inst/doc/abtest.html | 4 +-- inst/doc/clean-drop.html | 4 +-- inst/doc/data.html | 4 +-- inst/doc/describe.html | 4 +-- inst/doc/explain.html | 4 +-- inst/doc/explore-mtcars.html | 8 +++--- inst/doc/explore-penguins.html | 4 +-- inst/doc/explore-titanic.html | 4 +-- inst/doc/explore.R | 2 - inst/doc/explore.Rmd | 2 - inst/doc/explore.html | 12 ++++----- inst/doc/predict.html | 4 +-- inst/doc/report-target.html | 4 +-- inst/doc/report-targetpct.html | 4 +-- inst/doc/report.html | 4 +-- inst/doc/tips-tricks.html | 4 +-- man/figures/explore-beer-target.png |binary vignettes/explore.Rmd | 2 - 22 files changed, 99 insertions(+), 74 deletions(-)
Title: Construct Parsers for Structured Text Files
Description: Construct parser combinator functions, higher order functions that
parse input. Construction of such parsers is transparent and easy. Their main
application is the parsing of structured text files like those generated by
laboratory instruments. Based on a paper by Hutton (1992)
<doi:10.1017/S0956796800000411>.
Author: Douwe Molenaar [aut, cre, cph]
Maintainer: Douwe Molenaar <d.molenaar@vu.nl>
Diff between parcr versions 0.5.1 dated 2024-01-31 and 0.5.2 dated 2024-06-07
DESCRIPTION | 6 MD5 | 32 - NAMESPACE | 3 NEWS.md | 13 R/parsers_basic.R | 4 R/parsers_derived.R | 29 + R/store.R |only build/vignette.rds |binary inst/doc/Creating_parser_combinators.R | 5 inst/doc/Creating_parser_combinators.Rmd | 10 inst/doc/Creating_parser_combinators.html | 658 +++++++++++++++--------------- inst/doc/Design_details.html | 2 man/Ignore.Rd |only man/store.Rd |only tests/testthat/test-parsers_basic.R | 5 tests/testthat/test-parsers_derived.R | 18 tests/testthat/test-store.R |only vignettes/Creating_parser_combinators.Rmd | 10 vignettes/parcr.bib | 10 19 files changed, 444 insertions(+), 361 deletions(-)
Title: A Service for Tidy Transcriptomics Software Suite
Description: It provides generic methods that are used by more than one package, avoiding conflicts. This package will be imported by 'tidySingleCellExperiment' and 'tidyseurat'.
Author: Stefano Mangiola [aut, cre]
Maintainer: Stefano Mangiola <mangiolastefano@gmail.com>
Diff between ttservice versions 0.4.0 dated 2023-11-01 and 0.4.1 dated 2024-06-07
DESCRIPTION | 8 - MD5 | 15 + NAMESPACE | 37 ++-- R/methods.R | 41 ++++- man/add_class.Rd |only man/aggregate_cells.Rd | 80 +++++----- man/dplyr-methods.Rd | 134 ++++++++--------- man/join_features.Rd | 92 +++++------ man/plot_ly.Rd | 384 ++++++++++++++++++++++++------------------------- 9 files changed, 412 insertions(+), 379 deletions(-)
Title: Graphical Interaction Models
Description: Provides the following types of models: Models for contingency
tables (i.e. log-linear models) Graphical Gaussian models for multivariate
normal data (i.e. covariance selection models) Mixed interaction models.
Documentation about 'gRim' is provided by vignettes included in this
package and the book by Højsgaard, Edwards and Lauritzen (2012,
<doi:10.1007/978-1-4614-2299-0>); see 'citation("gRim")' for details.
Author: Soeren Hoejsgaard <sorenh@math.aau.dk>
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRim versions 0.3.0 dated 2023-10-01 and 0.3.1 dated 2024-06-07
gRim-0.3.0/gRim/R/cg-stats.R |only gRim-0.3.0/gRim/R/citest-array.R |only gRim-0.3.0/gRim/R/citest-generic.R |only gRim-0.3.0/gRim/R/citest-mvn.R |only gRim-0.3.0/gRim/R/citest-ordinal.R |only gRim-0.3.0/gRim/R/ggmfit.R |only gRim-0.3.0/gRim/R/grim-package.R |only gRim-0.3.0/gRim/R/grim-utilities.R |only gRim-0.3.0/gRim/R/imodel-cmod.R |only gRim-0.3.0/gRim/R/imodel-coerce.R |only gRim-0.3.0/gRim/R/imodel-dmod.R |only gRim-0.3.0/gRim/R/imodel-general.R |only gRim-0.3.0/gRim/R/imodel-mmod.R |only gRim-0.3.0/gRim/R/imodel-plot-print.R |only gRim-0.3.0/gRim/R/imodel-update.R |only gRim-0.3.0/gRim/R/internal-grim.R |only gRim-0.3.0/gRim/R/loglin-dim.R |only gRim-0.3.0/gRim/R/loglin-effloglin.R |only gRim-0.3.0/gRim/R/mi-comparemodels.R |only gRim-0.3.0/gRim/R/mi-dimension.R |only gRim-0.3.0/gRim/R/mi-fit.R |only gRim-0.3.0/gRim/R/mi-parm-conversion.R |only gRim-0.3.0/gRim/R/mi-weakdata.R |only gRim-0.3.0/gRim/R/mi-weakmodel.R |only gRim-0.3.0/gRim/R/test-all-edges.R |only gRim-0.3.0/gRim/R/test-single-edges.R |only gRim-0.3.0/gRim/R/test-stepwise.R |only gRim-0.3.1/gRim/DESCRIPTION | 15 +- gRim-0.3.1/gRim/MD5 | 159 +++++++++++++++++----------- gRim-0.3.1/gRim/NAMESPACE | 70 +++++++++++- gRim-0.3.1/gRim/NEWS | 7 + gRim-0.3.1/gRim/R/NAMESPACE.R | 28 ++-- gRim-0.3.1/gRim/R/RcppExports.R | 32 ++++- gRim-0.3.1/gRim/R/cg_stats.R |only gRim-0.3.1/gRim/R/citest_array.R |only gRim-0.3.1/gRim/R/citest_generic.R |only gRim-0.3.1/gRim/R/citest_mvn.R |only gRim-0.3.1/gRim/R/citest_ordinal.R |only gRim-0.3.1/gRim/R/fit_ggm_grips.R |only gRim-0.3.1/gRim/R/fit_ggm_old.R |only gRim-0.3.1/gRim/R/fit_ips_grips.R |only gRim-0.3.1/gRim/R/fit_ncd_grips.R |only gRim-0.3.1/gRim/R/getEdges.R | 6 - gRim-0.3.1/gRim/R/grim_package.R |only gRim-0.3.1/gRim/R/imodel_cmod.R |only gRim-0.3.1/gRim/R/imodel_coerce.R |only gRim-0.3.1/gRim/R/imodel_dmod.R |only gRim-0.3.1/gRim/R/imodel_general.R |only gRim-0.3.1/gRim/R/imodel_mmod.R |only gRim-0.3.1/gRim/R/imodel_plot_print.R |only gRim-0.3.1/gRim/R/imodel_update.R |only gRim-0.3.1/gRim/R/internal_grim.R |only gRim-0.3.1/gRim/R/loglin_dim.R |only gRim-0.3.1/gRim/R/loglin_effloglin.R |only gRim-0.3.1/gRim/R/mi_dimension.R |only gRim-0.3.1/gRim/R/mi_fit.R |only gRim-0.3.1/gRim/R/mi_parm_conversion.R |only gRim-0.3.1/gRim/R/mi_weakdata.R |only gRim-0.3.1/gRim/R/mi_weakmodel.R |only gRim-0.3.1/gRim/R/models_grips.R |only gRim-0.3.1/gRim/R/parse_gm_formula.R | 9 + gRim-0.3.1/gRim/R/test_all_edges.R |only gRim-0.3.1/gRim/R/test_single_edges.R |only gRim-0.3.1/gRim/R/test_stepwise.R |only gRim-0.3.1/gRim/R/utilities_grim.R |only gRim-0.3.1/gRim/R/utilities_grips.R |only gRim-0.3.1/gRim/inst/include |only gRim-0.3.1/gRim/inst/supplementary_material |only gRim-0.3.1/gRim/man/cg-stats.Rd | 2 gRim-0.3.1/gRim/man/citest-array.Rd | 2 gRim-0.3.1/gRim/man/citest-df.Rd | 2 gRim-0.3.1/gRim/man/citest-generic.Rd | 2 gRim-0.3.1/gRim/man/citest-mvn.Rd | 2 gRim-0.3.1/gRim/man/citest-ordinal.Rd | 2 gRim-0.3.1/gRim/man/cmod.Rd | 13 +- gRim-0.3.1/gRim/man/coerce_models.Rd |only gRim-0.3.1/gRim/man/emat_operations.Rd |only gRim-0.3.1/gRim/man/fast_cov.Rd |only gRim-0.3.1/gRim/man/fit_ggm_grips.Rd |only gRim-0.3.1/gRim/man/generate_models.Rd |only gRim-0.3.1/gRim/man/generate_n01.Rd |only gRim-0.3.1/gRim/man/ggmfit.Rd | 7 - gRim-0.3.1/gRim/man/imodel-dmod.Rd | 3 gRim-0.3.1/gRim/man/imodel-general.Rd | 2 gRim-0.3.1/gRim/man/imodel-info.Rd | 2 gRim-0.3.1/gRim/man/imodel-mmod.Rd | 2 gRim-0.3.1/gRim/man/impose_zero.Rd |only gRim-0.3.1/gRim/man/internal.Rd | 2 gRim-0.3.1/gRim/man/loglin-dim.Rd | 2 gRim-0.3.1/gRim/man/loglin-effloglin.Rd | 2 gRim-0.3.1/gRim/man/modify_glist.Rd | 2 gRim-0.3.1/gRim/man/parm-conversion.Rd | 2 gRim-0.3.1/gRim/man/parse_gm_formula.Rd | 7 - gRim-0.3.1/gRim/man/stepwise.Rd | 2 gRim-0.3.1/gRim/man/test-edges.Rd | 2 gRim-0.3.1/gRim/man/testadd.Rd | 4 gRim-0.3.1/gRim/man/testdelete.Rd | 2 gRim-0.3.1/gRim/man/utilities_grips.Rd |only gRim-0.3.1/gRim/src/RcppExports.cpp | 131 +++++++++++++++++------ gRim-0.3.1/gRim/src/grips_api.h |only gRim-0.3.1/gRim/src/grips_arma_utils.cpp |only gRim-0.3.1/gRim/src/grips_arma_utils.h |only gRim-0.3.1/gRim/src/grips_fit_ips.cpp |only gRim-0.3.1/gRim/src/grips_fit_ncd.cpp |only gRim-0.3.1/gRim/src/grips_precision.h |only gRim-0.3.1/gRim/src/grips_utils.cpp |only gRim-0.3.1/gRim/src/grips_utils.h |only gRim-0.3.1/gRim/src/init.c | 48 ++++---- gRim-0.3.1/gRim/src/parm_conversion.cpp | 10 + 109 files changed, 403 insertions(+), 180 deletions(-)