Title: Floristic Quality Assessment Tools for R
Description: Tools for downloading and analyzing floristic quality assessment data.
See Freyman et al. (2015) <doi:10.1111/2041-210X.12491> for more information
about floristic quality assessment and the associated database.
Author: Andrew Gard [aut, cre] ,
Alexia Myers [aut],
Irene Luwabelwa [aut]
Maintainer: Andrew Gard <agard@lakeforest.edu>
Diff between fqar versions 0.5.4 dated 2024-10-06 and 0.5.5 dated 2025-06-21
DESCRIPTION | 8 MD5 | 88 ++--- NEWS.md | 4 R/assessment_glance.R | 22 + R/assessment_list_glance.R | 6 R/download_assessment.R | 11 R/download_assessment_internal.R | 178 +++++----- R/download_database.R | 7 R/download_database_internal.R | 191 +++++----- R/download_transect.R | 12 R/download_transect_internal.R | 183 +++++----- R/index_fqa_assessments.R | 7 R/index_fqa_assessments_internal.R | 173 +++++---- R/index_fqa_databases.R | 6 R/index_fqa_databases_internal.R | 112 +++--- R/index_fqa_transects.R | 7 R/index_fqa_transects_internal.R | 173 +++++---- R/sysdata.rda |binary R/transect_glance.R | 16 R/transect_list_glance.R | 4 build/vignette.rds |binary inst/doc/fqar.R | 334 +++++++++---------- man/assessment_glance.Rd | 3 man/assessment_list_glance.Rd | 3 man/download_assessment.Rd | 8 man/download_database.Rd | 4 man/download_transect.Rd | 9 man/index_fqa_assessments.Rd | 4 man/index_fqa_databases.Rd | 5 man/index_fqa_transects.Rd | 4 man/transect_glance.Rd | 3 man/transect_list_glance.Rd | 3 tests/testthat/test-assessment_glance.R | 14 tests/testthat/test-assessment_list_glance.R | 6 tests/testthat/test-download_assessment.R | 4 tests/testthat/test-download_assessment_internal.R | 15 tests/testthat/test-download_database_internal.R | 10 tests/testthat/test-download_transect_internal.R | 11 tests/testthat/test-index_fqa_assessments_internal.R | 5 tests/testthat/test-index_fqa_databases.R | 3 tests/testthat/test-index_fqa_databases_internal.R | 5 tests/testthat/test-index_fqa_transects_internal.R | 5 tests/testthat/test-species_profile_plot.R | 2 tests/testthat/test-transect_glance.R | 28 - tests/testthat/test-transect_list_glance.R | 4 45 files changed, 919 insertions(+), 781 deletions(-)
Title: Leveraging Experiment Lines to Data Analytics
Description: The natural increase in the complexity of current research experiments and data demands better tools to enhance productivity in Data Analytics. The package is a framework designed to address the modern challenges in data analytics workflows. The package is inspired by Experiment Line concepts. It aims to provide seamless support for users in developing their data mining workflows by offering a uniform data model and method API. It enables the integration of various data mining activities, including data preprocessing, classification, regression, clustering, and time series prediction. It also offers options for hyper-parameter tuning and supports integration with existing libraries and languages. Overall, the package provides researchers with a comprehensive set of functionalities for data science, promoting ease of use, extensibility, and integration with various tools and libraries. Information on Experiment Line is based on Ogasawara et al. (2009) <doi:10.1007/978-3-642-02279-1_2 [...truncated...]
Author: Eduardo Ogasawara [aut, ths, cre] ,
Antonio Castro [aut],
Diego Salles [aut],
Janio Lima [aut],
Lucas Tavares [aut],
Diego Carvalho [ctb],
Eduardo Bezerra [ctb],
Rafaelli Coutinho [ctb],
CEFET/RJ [cph]
Maintainer: Eduardo Ogasawara <eogasawara@ieee.org>
Diff between daltoolbox versions 1.2.707 dated 2025-05-13 and 1.2.717 dated 2025-06-21
DESCRIPTION | 10 MD5 | 62 ++--- NAMESPACE | 39 ++- R/cla_classification.R | 4 R/cla_dtree.R | 2 R/cla_knn.R | 3 R/cla_nb.R | 2 R/clu_dbscan.R | 4 R/clu_pam.R | 2 R/graphics.R | 533 +++++++++++++++++++++++++++++----------------- R/reg_dtree.R | 2 R/ts_reg.R | 2 R/ts_regsw.R | 2 man/classification.Rd | 2 man/plot_bar.Rd | 4 man/plot_boxplot.Rd | 2 man/plot_boxplot_class.Rd | 4 man/plot_density.Rd | 2 man/plot_density_class.Rd | 4 man/plot_groupedbar.Rd | 4 man/plot_hist.Rd | 2 man/plot_lollipop.Rd | 4 man/plot_pieplot.Rd | 4 man/plot_points.Rd | 2 man/plot_radar.Rd | 2 man/plot_scatter.Rd | 10 man/plot_series.Rd | 2 man/plot_stackedbar.Rd | 4 man/plot_ts.Rd | 2 man/plot_ts_pred.Rd | 2 man/ts_reg.Rd | 2 man/ts_regsw.Rd | 2 32 files changed, 454 insertions(+), 273 deletions(-)
Title: Wavelet Analysis of Genomic Data from Admixed Populations
Description: Implements wavelet-based approaches for describing population admixture. Principal Components Analysis (PCA) is used to define the population structure and produce a localized admixture signal for each individual. Wavelet summaries of the PCA output describe variation present in the data and can be related to population-level demographic processes. For more details, see J Sanderson, H Sudoyo, TM Karafet, MF Hammer and MP Cox. 2015. Reconstructing past admixture processes from local genomic ancestry using wavelet transformation. Genetics 200:469-481 <doi:10.1534/genetics.115.176842>.
Author: Jean Sanderson [aut],
Murray Cox [aut, cre]
Maintainer: Murray Cox <murray.p.cox@gmail.com>
Diff between adwave versions 1.3 dated 2018-05-17 and 1.4 dated 2025-06-21
DESCRIPTION | 22 ++++++++++++++++------ MD5 | 11 ++++++----- build |only man/admix.Rd | 4 ++-- man/plotsignal.Rd | 2 +- man/signal.Rd | 2 +- man/wavesum.Rd | 2 +- 7 files changed, 27 insertions(+), 16 deletions(-)
Title: Machine Learning Performance Evaluation on Steroids
Description: Performance evaluation metrics for supervised and unsupervised machine learning, statistical learning and artificial intelligence applications. Core computations are implemented in 'C++' for scalability and efficiency.
Author: Serkan Korkmaz [cre, aut, cph]
Maintainer: Serkan Korkmaz <serkor1@duck.com>
Diff between SLmetrics versions 0.3-3 dated 2025-03-18 and 0.3-4 dated 2025-06-21
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SLmetrics-0.3-4/SLmetrics/src/classification_CrossEntropy.cpp |only SLmetrics-0.3-4/SLmetrics/src/classification_CrossEntropy.h | 228 - SLmetrics-0.3-4/SLmetrics/src/classification_DiagnosticOddsRatio.cpp | 55 SLmetrics-0.3-4/SLmetrics/src/classification_DiagnosticOddsRatio.h | 57 SLmetrics-0.3-4/SLmetrics/src/classification_FBetaScore.cpp | 68 SLmetrics-0.3-4/SLmetrics/src/classification_FBetaScore.h | 115 SLmetrics-0.3-4/SLmetrics/src/classification_FalseDiscoveryRate.cpp | 59 SLmetrics-0.3-4/SLmetrics/src/classification_FalseDiscoveryRate.h | 89 SLmetrics-0.3-4/SLmetrics/src/classification_FalseOmissionRate.cpp | 59 SLmetrics-0.3-4/SLmetrics/src/classification_FalseOmissionRate.h | 103 SLmetrics-0.3-4/SLmetrics/src/classification_FalsePositiveRate.cpp | 98 SLmetrics-0.3-4/SLmetrics/src/classification_FalsePositiveRate.h | 84 SLmetrics-0.3-4/SLmetrics/src/classification_FowlkesMallowsIndex.cpp | 51 SLmetrics-0.3-4/SLmetrics/src/classification_FowlkesMallowsIndex.h | 79 SLmetrics-0.3-4/SLmetrics/src/classification_HammingLoss.cpp |only SLmetrics-0.3-4/SLmetrics/src/classification_HammingLoss.h |only SLmetrics-0.3-4/SLmetrics/src/classification_JaccardIndex.cpp | 141 SLmetrics-0.3-4/SLmetrics/src/classification_JaccardIndex.h | 91 SLmetrics-0.3-4/SLmetrics/src/classification_LogLoss.cpp | 58 SLmetrics-0.3-4/SLmetrics/src/classification_LogLoss.h | 112 SLmetrics-0.3-4/SLmetrics/src/classification_MatthewsCorrelationCoefficient.cpp | 85 SLmetrics-0.3-4/SLmetrics/src/classification_MatthewsCorrelationCoefficient.h | 82 SLmetrics-0.3-4/SLmetrics/src/classification_NegativeLikelihoodRatio.cpp | 55 SLmetrics-0.3-4/SLmetrics/src/classification_NegativeLikelihoodRatio.h | 59 SLmetrics-0.3-4/SLmetrics/src/classification_NegativePredictiveValue.cpp | 59 SLmetrics-0.3-4/SLmetrics/src/classification_NegativePredictiveValue.h | 103 SLmetrics-0.3-4/SLmetrics/src/classification_PositiveLikelihoodRatio.cpp | 55 SLmetrics-0.3-4/SLmetrics/src/classification_PositiveLikelihoodRatio.h | 59 SLmetrics-0.3-4/SLmetrics/src/classification_Precision.cpp | 101 SLmetrics-0.3-4/SLmetrics/src/classification_Precision.h | 100 SLmetrics-0.3-4/SLmetrics/src/classification_PrecisionRecallCurve.cpp | 190 - SLmetrics-0.3-4/SLmetrics/src/classification_PrecisionRecallCurve.h | 894 +----- SLmetrics-0.3-4/SLmetrics/src/classification_Recall.cpp | 146 - SLmetrics-0.3-4/SLmetrics/src/classification_Recall.h | 98 SLmetrics-0.3-4/SLmetrics/src/classification_ReceiverOperatorCurve.cpp | 203 - SLmetrics-0.3-4/SLmetrics/src/classification_ReceiverOperatorCurve.h | 658 +--- SLmetrics-0.3-4/SLmetrics/src/classification_RelativeEntropy.cpp |only SLmetrics-0.3-4/SLmetrics/src/classification_RelativeEntropy.h | 244 - SLmetrics-0.3-4/SLmetrics/src/classification_ShannonEntropy.cpp |only SLmetrics-0.3-4/SLmetrics/src/classification_ShannonEntropy.h |only SLmetrics-0.3-4/SLmetrics/src/classification_Specificity.cpp | 139 SLmetrics-0.3-4/SLmetrics/src/classification_Specificity.h | 95 SLmetrics-0.3-4/SLmetrics/src/classification_ZeroOneLoss.cpp | 53 SLmetrics-0.3-4/SLmetrics/src/classification_ZeroOneLoss.h | 56 SLmetrics-0.3-4/SLmetrics/src/count_PoissonLogLoss.cpp | 59 SLmetrics-0.3-4/SLmetrics/src/count_PoissonLogLoss.h | 94 SLmetrics-0.3-4/SLmetrics/src/regression_CoefficientOfDetermination.cpp | 47 SLmetrics-0.3-4/SLmetrics/src/regression_CoefficientOfDetermination.h | 214 - SLmetrics-0.3-4/SLmetrics/src/regression_ConcordanceCorrelationCoefficient.cpp | 43 SLmetrics-0.3-4/SLmetrics/src/regression_ConcordanceCorrelationCoefficient.h | 203 - SLmetrics-0.3-4/SLmetrics/src/regression_GammaDeviance.cpp |only SLmetrics-0.3-4/SLmetrics/src/regression_GammaDeviance.h |only SLmetrics-0.3-4/SLmetrics/src/regression_GeometricMeanSquaredError.cpp |only SLmetrics-0.3-4/SLmetrics/src/regression_GeometricMeanSquaredError.h |only SLmetrics-0.3-4/SLmetrics/src/regression_HuberLoss.cpp | 43 SLmetrics-0.3-4/SLmetrics/src/regression_HuberLoss.h | 145 - SLmetrics-0.3-4/SLmetrics/src/regression_MeanAbsoluteError.cpp | 45 SLmetrics-0.3-4/SLmetrics/src/regression_MeanAbsoluteError.h | 84 SLmetrics-0.3-4/SLmetrics/src/regression_MeanAbsolutePercentageError.cpp | 46 SLmetrics-0.3-4/SLmetrics/src/regression_MeanAbsolutePercentageError.h | 90 SLmetrics-0.3-4/SLmetrics/src/regression_MeanArctangentAbsolutePercentageError.cpp |only SLmetrics-0.3-4/SLmetrics/src/regression_MeanArctangentAbsolutePercentageError.h |only SLmetrics-0.3-4/SLmetrics/src/regression_MeanPercentageError.cpp | 44 SLmetrics-0.3-4/SLmetrics/src/regression_MeanPercentageError.h | 90 SLmetrics-0.3-4/SLmetrics/src/regression_MeanSquaredError.cpp | 59 SLmetrics-0.3-4/SLmetrics/src/regression_MeanSquaredError.h | 84 SLmetrics-0.3-4/SLmetrics/src/regression_PinballLoss.cpp | 74 SLmetrics-0.3-4/SLmetrics/src/regression_PinballLoss.h | 389 +- SLmetrics-0.3-4/SLmetrics/src/regression_PoissonDeviance.cpp |only SLmetrics-0.3-4/SLmetrics/src/regression_PoissonDeviance.h |only SLmetrics-0.3-4/SLmetrics/src/regression_RelativeAbsoluteError.cpp | 42 SLmetrics-0.3-4/SLmetrics/src/regression_RelativeAbsoluteError.h | 136 SLmetrics-0.3-4/SLmetrics/src/regression_RelativeRootMeanSquaredError.cpp | 47 SLmetrics-0.3-4/SLmetrics/src/regression_RelativeRootMeanSquaredError.h | 407 -- SLmetrics-0.3-4/SLmetrics/src/regression_RootMeanSquaredError.cpp | 64 SLmetrics-0.3-4/SLmetrics/src/regression_RootMeanSquaredError.h | 92 SLmetrics-0.3-4/SLmetrics/src/regression_RootMeanSquaredLogarithmicError.cpp | 44 SLmetrics-0.3-4/SLmetrics/src/regression_RootMeanSquaredLogarithmicError.h | 96 SLmetrics-0.3-4/SLmetrics/src/regression_RootRelativeSquaredError.cpp | 42 SLmetrics-0.3-4/SLmetrics/src/regression_RootRelativeSquaredError.h | 140 SLmetrics-0.3-4/SLmetrics/src/regression_SymmetricMeanAbsolutePercentageError.cpp | 46 SLmetrics-0.3-4/SLmetrics/src/regression_SymmetricMeanAbsolutePercentageError.h | 93 SLmetrics-0.3-4/SLmetrics/src/regression_TweedieDeviance.cpp |only SLmetrics-0.3-4/SLmetrics/src/regression_TweedieDeviance.h |only SLmetrics-0.3-4/SLmetrics/src/tools_AreaUnderTheCurve.cpp | 17 SLmetrics-0.3-4/SLmetrics/src/tools_AreaUnderTheCurve.h | 17 SLmetrics-0.3-4/SLmetrics/src/utiliites_OpenMP.cpp | 126 SLmetrics-0.3-4/SLmetrics/src/utiliites_Package.cpp | 15 SLmetrics-0.3-4/SLmetrics/tests/testthat/ref-classification-utils.R | 53 SLmetrics-0.3-4/SLmetrics/tests/testthat/ref-classification.R | 663 ++-- SLmetrics-0.3-4/SLmetrics/tests/testthat/ref-regression.R | 33 SLmetrics-0.3-4/SLmetrics/tests/testthat/ref-scipy.py | 89 SLmetrics-0.3-4/SLmetrics/tests/testthat/scikit-learn.py | 36 SLmetrics-0.3-4/SLmetrics/tests/testthat/setup.R | 504 +-- SLmetrics-0.3-4/SLmetrics/tests/testthat/test-BrierScore.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-CrossEntropy.R | 98 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-FBetaScore.R | 16 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-FalseDiscoveryRate.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-FalseOmissionRate.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-FalsePositiveRate.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-FowlkesMallowsIndex.R | 48 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-GammaDeviance.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-GeometricMeanSquaredError.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-HammingLoss.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-JaccardIndex.R | 16 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-LikelihoodRatio.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-MeanArctangentAbsolutePercentageError.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-NegativePredictiveValue.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-PoissonDeviance.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-PoissonLogLoss.R | 81 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-Precision.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-PrecisionRecallCurve.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-Recall.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-ReceiverOperatingCharacteristics.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-RelativeEntropy.R | 98 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-RelativeRootMeanSquaredError.R | 2 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-ShannonEntropy.R |only SLmetrics-0.3-4/SLmetrics/tests/testthat/test-Specificity.R | 14 SLmetrics-0.3-4/SLmetrics/tests/testthat/test-TweedieDeviance.R |only SLmetrics-0.3-4/SLmetrics/tools |only SLmetrics-0.3-4/SLmetrics/vignettes/vignette_classification.Rmd | 8 SLmetrics-0.3-4/SLmetrics/vignettes/vignette_regression.Rmd | 2 487 files changed, 8565 insertions(+), 9907 deletions(-)
Title: Estimates OIPP and OIZTNB Regression Models
Description: Estimates one-inflated positive Poisson (OIPP) and
one-inflated zero-truncated negative binomial (OIZTNB) regression
models. A suite of ancillary statistical tools are also provided,
including: estimation of positive Poisson (PP) and zero-truncated
negative binomial (ZTNB) models; marginal effects and their standard
errors; diagnostic likelihood ratio and Wald tests; plotting;
predicted counts and expected responses; and random variate
generation. The models and tools, as well as four applications, are
shown in Godwin, R. T. (2024). "One-inflated zero-truncated count
regression models" arXiv preprint <doi:10.48550/arXiv.2402.02272>.
Author: Ryan T. Godwin [aut, cre]
Maintainer: Ryan T. Godwin <ryan.godwin@umanitoba.ca>
Diff between oneinfl versions 1.0.1 dated 2025-02-15 and 1.0.2 dated 2025-06-21
DESCRIPTION | 6 ++-- MD5 | 56 ++++++++++++++++++++++---------------------- NAMESPACE | 1 NEWS.md | 4 +++ R/makeXZy.R | 2 - man/E_negbin.Rd | 6 ++-- man/E_negbin_noinfl.Rd | 4 +-- man/E_pois.Rd | 6 ++-- man/E_pois_noinfl.Rd | 2 - man/dEdq_nb.Rd | 22 +++++++---------- man/dEdq_nb_noinfl.Rd | 22 +++++++---------- man/dEdq_pois.Rd | 24 ++++++++---------- man/dEdq_pois_noinfl.Rd | 22 +++++++---------- man/makeXZy.Rd | 35 +++++++++++---------------- man/margins.Rd | 32 ++++++++++++------------- man/oneLRT.Rd | 32 +++++++++++-------------- man/oneWald.Rd | 26 ++++++++++---------- man/oneinfl.Rd | 40 ++++++++++++++----------------- man/oneplot.Rd | 20 +++++++-------- man/pred.Rd | 30 +++++++++++------------ man/predict.oneinflmodel.Rd | 8 +++--- man/predict.truncmodel.Rd | 8 +++--- man/roipp.Rd | 24 +++++++++--------- man/roiztnb.Rd | 26 ++++++++++---------- man/rpp.Rd | 12 ++++----- man/signifWald.Rd | 16 ++++++------ man/summary.oneinflmodel.Rd | 20 +++++++-------- man/summary.truncmodel.Rd | 16 +++++------- man/truncreg.Rd | 30 +++++++++++------------ 29 files changed, 267 insertions(+), 285 deletions(-)
Title: Space-Filling Designs
Description: Construct various types of space-filling designs, including Latin hypercube designs, clustering-based designs, maximin designs, maximum projection designs, and uniform designs (Joseph 2016 <doi:10.1080/08982112.2015.1100447>). It also offers the option to optimize designs based on user-defined criteria. This work is supported by U.S. National Science Foundation grant DMS-2310637.
Author: Shangkun Wang [aut, cre],
Roshan Joseph [aut]
Maintainer: Shangkun Wang <shangkunwang01@gmail.com>
Diff between SFDesign versions 0.1.1 dated 2025-06-01 and 0.1.2 dated 2025-06-21
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/custom.R | 2 +- R/maximin.R | 2 +- R/maxpro.R | 2 +- R/utils.R | 2 +- man/SFDesign-package.Rd | 2 +- man/customLHD.Rd | 2 +- man/full.factorial.Rd | 2 +- man/maximin.optim.Rd | 2 +- 10 files changed, 21 insertions(+), 21 deletions(-)
Title: 'Fitbit' Visualizations
Description: Connection to the 'Fitbit' Web API <https://dev.fitbit.com/build/reference/web-api/> by including 'ggplot2' Visualizations, 'Leaflet' and 3-dimensional 'Rayshader' Maps. The 3-dimensional 'Rayshader' Map requires the installation of the 'CopernicusDEM' R package which includes the 30- and 90-meter elevation data.
Author: Lampros Mouselimis [aut, cre]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between fitbitViz versions 1.0.6 dated 2024-02-08 and 1.0.7 dated 2025-06-21
DESCRIPTION | 13 MD5 | 14 NEWS.md | 5 R/fitbit_utils.R | 8 README.md | 2 build/vignette.rds |binary inst/doc/fitbit_viz.R | 386 ++++++++++---------- inst/doc/fitbit_viz.html | 904 +++++++++++++++++++---------------------------- 8 files changed, 597 insertions(+), 735 deletions(-)
Title: Value Added Receiver Operating Characteristics Curve
Description: A continuous version of the receiver operating characteristics (ROC) curve to assess both classification and continuity performances of biomarkers, diagnostic tests, or risk prediction models.
Author: Yunro Chung [aut, cre]
Maintainer: Yunro Chung <yunro.chung@asu.edu>
Diff between varoc versions 0.2.0 dated 2024-01-16 and 0.4.0 dated 2025-06-21
varoc-0.2.0/varoc/R/01.amd.cal.R |only varoc-0.2.0/varoc/R/01.iamd.cal.R |only varoc-0.2.0/varoc/R/amd.R |only varoc-0.2.0/varoc/R/jdp.R |only varoc-0.2.0/varoc/man/amd.Rd |only varoc-0.2.0/varoc/man/jdp.Rd |only varoc-0.4.0/varoc/DESCRIPTION | 12 +-- varoc-0.4.0/varoc/MD5 | 19 ++--- varoc-0.4.0/varoc/NAMESPACE | 18 ++--- varoc-0.4.0/varoc/R/01.itmd.cal.R |only varoc-0.4.0/varoc/R/01.stsp.cal.R | 2 varoc-0.4.0/varoc/R/01.tmd.cal.R |only varoc-0.4.0/varoc/R/tmd.R |only varoc-0.4.0/varoc/R/varoc.R | 113 +++++++++++++++----------------- varoc-0.4.0/varoc/man/varoc.Rd | 134 ++++++++++++++++---------------------- 15 files changed, 136 insertions(+), 162 deletions(-)
Title: Compares Random Distributions using Stochastic Dominance
Description: The Stochastic Dominance (SD) is the classical way of comparing two
random prospects, using their distribution functions. Almost Stochastic
Dominance (ASD) has also been developed to cover the SD failures due to
the extreme utility functions. This package focuses on classical and heuristic methods
for testing the first and second SD and ASD methods given the probability mass
function (PMF) of the random prospects. The goal is to apply these methods
easily, efficiently, and effectively on real-world datasets. For more
details see Hanoch and Levy (1969) <doi:10.2307/2296431>, Leshno and Levy
(2002) <doi:10.1287/mnsc.48.8.1074.169>, and Tzeng et al. (2012)
<doi:10.1287/mnsc.1120.1616>.
Author: Shayan Tohidi [aut, cre],
Sigurdur Olafsson [aut]
Maintainer: Shayan Tohidi <shayant@iastate.edu>
Diff between RSD versions 0.1.0 dated 2025-06-17 and 0.2.0 dated 2025-06-21
DESCRIPTION | 10 ++++++---- MD5 | 31 ++++++++++++++++++------------- NEWS.md |only R/AFSD.R | 10 ++++++++++ R/ASSD.R | 6 ++++++ R/ASSD_LL.R | 4 ++++ R/ASSD_THS.R | 4 ++++ R/FSD.R | 4 +++- R/SSD.R | 4 +++- R/data.R |only README.md |only data |only man/afsd.test.Rd | 10 ++++++++++ man/assd.ll.test.Rd | 4 ++++ man/assd.test.Rd | 6 ++++++ man/assd.ths.test.Rd | 4 ++++ man/data_ex.Rd |only man/fsd.test.Rd | 5 +++-- man/ssd.test.Rd | 7 ++++--- 19 files changed, 85 insertions(+), 24 deletions(-)
Title: Preparer of Main Scientific References for Automatic Insertion
in Academic Papers
Description: Generates a file, containing the main scientific references, prepared to be automatically inserted into an academic paper.
The articles present in the list are chosen from the main references generated, by function principal_lister(), of the package 'bibliorefer'.
The generated file contains the list of metadata of the principal references in 'BibTex' format.
Massimo Aria, Corrado Cuccurullo. (2017) <doi:10.1016/j.joi.2017.08.007>.
Caibo Zhou, Wenyan Song. (2021) <doi:10.1016/j.jclepro.2021.126943>.
Hamid Derviş. (2019) <doi:10.5530/jscires.8.3.32>.
Author: Marcio Eustaquio [cre],
Marcio Eustaquio [aut]
Maintainer: Marcio Eustaquio <marcioeustaquio@id.uff.br>
Diff between gerefer versions 0.1.1 dated 2024-11-18 and 0.1.2 dated 2025-06-21
gerefer-0.1.1/gerefer/R/redu_leter.R |only gerefer-0.1.1/gerefer/man/redu_leter.Rd |only gerefer-0.1.2/gerefer/DESCRIPTION | 8 gerefer-0.1.2/gerefer/MD5 | 55 gerefer-0.1.2/gerefer/NAMESPACE | 14 gerefer-0.1.2/gerefer/R/article_bib.R | 709 ++++++++--- gerefer-0.1.2/gerefer/R/basede_linkdate.R |only gerefer-0.1.2/gerefer/R/book_bib.R |only gerefer-0.1.2/gerefer/R/bookcap_bib.R |only gerefer-0.1.2/gerefer/R/bookinst_bib.R |only gerefer-0.1.2/gerefer/R/bookinstsub_bib.R |only gerefer-0.1.2/gerefer/R/bookorg_bib.R |only gerefer-0.1.2/gerefer/R/congresso_bib.R |only gerefer-0.1.2/gerefer/R/dissert_bib.R |only gerefer-0.1.2/gerefer/R/example_database.R | 4 gerefer-0.1.2/gerefer/R/exampledatabaseart.R |only gerefer-0.1.2/gerefer/R/jur_bib.R |only gerefer-0.1.2/gerefer/R/jurdou_bib.R |only gerefer-0.1.2/gerefer/R/monograf_bib.R |only gerefer-0.1.2/gerefer/inst/extdata/bookcap.csv |only gerefer-0.1.2/gerefer/inst/extdata/bookorg.csv |only gerefer-0.1.2/gerefer/inst/extdata/compinst.csv |only gerefer-0.1.2/gerefer/inst/extdata/compinst2.csv |only gerefer-0.1.2/gerefer/inst/extdata/congresso.csv |only gerefer-0.1.2/gerefer/inst/extdata/dissertacao.csv |only gerefer-0.1.2/gerefer/inst/extdata/example_database.csv | 802 ++++++++----- gerefer-0.1.2/gerefer/inst/extdata/example_databaseart.csv |only gerefer-0.1.2/gerefer/inst/extdata/leicomdou.csv |only gerefer-0.1.2/gerefer/inst/extdata/leisemdou.csv |only gerefer-0.1.2/gerefer/inst/extdata/livro.csv |only gerefer-0.1.2/gerefer/inst/extdata/monograf.csv |only gerefer-0.1.2/gerefer/inst/extdata/tabarticle_example1.csv |only gerefer-0.1.2/gerefer/inst/extdata/tabarticle_example2.csv |only gerefer-0.1.2/gerefer/inst/extdata/tabarticle_example3.csv |only gerefer-0.1.2/gerefer/inst/extdata/tabela_acessototal.csv |only gerefer-0.1.2/gerefer/man/article_bib.Rd | 84 - gerefer-0.1.2/gerefer/man/basede_linkdate.Rd |only gerefer-0.1.2/gerefer/man/book_bib.Rd |only gerefer-0.1.2/gerefer/man/bookcap_bib.Rd |only gerefer-0.1.2/gerefer/man/bookinst_bib.Rd |only gerefer-0.1.2/gerefer/man/bookinstsub_bib.Rd |only gerefer-0.1.2/gerefer/man/bookorg_bib.Rd |only gerefer-0.1.2/gerefer/man/congresso_bib.Rd |only gerefer-0.1.2/gerefer/man/dissert_bib.Rd |only gerefer-0.1.2/gerefer/man/example_database.Rd | 3 gerefer-0.1.2/gerefer/man/example_databaseart.Rd |only gerefer-0.1.2/gerefer/man/jur_bib.Rd |only gerefer-0.1.2/gerefer/man/jurdou_bib.Rd |only gerefer-0.1.2/gerefer/man/monograf_bib.Rd |only 49 files changed, 1178 insertions(+), 501 deletions(-)
Title: Estimate Recentered Influence Function Regression
Description: Provides functions to compute recentered influence functions
(RIF) of a distributional variable at the mean, quantiles, variance,
gini or any custom functional of interest. The package allows to
regress the RIF on any number of covariates. Generic print, plot and
summary functions are also provided. Reference: Firpo, Sergio, Nicole M. Fortin, and Thomas Lemieux. (2009) <doi:10.3982/ECTA6822>. "Unconditional Quantile Regressions.".
Author: David Gallusser [aut],
Samuel Meier [aut, cre]
Maintainer: Samuel Meier <samuel.meier+cran@immerda.ch>
Diff between rifreg versions 0.1.0 dated 2024-05-01 and 1.1.0 dated 2025-06-21
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- tests/testthat/test-plot.R | 20 ++++++++++---------- 3 files changed, 16 insertions(+), 16 deletions(-)
Title: Visualize the Climate Scenario Alignment of a Financial
Portfolio
Description: Create plots to visualize the alignment of a corporate
lending financial portfolio to climate change scenarios based on
climate indicators (production and emission intensities) across key
climate relevant sectors of the 'PACTA' methodology (Paris Agreement Capital
Transition Assessment; <https://www.transitionmonitor.com/>).
Financial institutions use 'PACTA' to study how their capital
allocation decisions align with climate change mitigation goals.
Author: Monika Furdyna [aut, ctr, cre] ,
Mauro Lepore [aut, ctr] ,
Alex Axthelm [aut, ctr] ,
RMI [cph, fnd]
Maintainer: Monika Furdyna <monika.furdyna@gmail.com>
Diff between r2dii.plot versions 0.5.1 dated 2025-02-18 and 0.5.2 dated 2025-06-21
r2dii.plot-0.5.1/r2dii.plot/R/market_share.R |only r2dii.plot-0.5.1/r2dii.plot/R/sda.R |only r2dii.plot-0.5.1/r2dii.plot/R/utils-pipe.R |only r2dii.plot-0.5.1/r2dii.plot/data/market_share.rda |only r2dii.plot-0.5.1/r2dii.plot/data/sda.rda |only r2dii.plot-0.5.1/r2dii.plot/man/market_share.Rd |only r2dii.plot-0.5.1/r2dii.plot/man/pipe.Rd |only r2dii.plot-0.5.1/r2dii.plot/man/sda.Rd |only r2dii.plot-0.5.1/r2dii.plot/tests/testthat/_snaps/market_share.md |only r2dii.plot-0.5.1/r2dii.plot/tests/testthat/_snaps/sda.md |only r2dii.plot-0.5.1/r2dii.plot/tests/testthat/test-market_share.R |only r2dii.plot-0.5.1/r2dii.plot/tests/testthat/test-sda.R |only r2dii.plot-0.5.2/r2dii.plot/DESCRIPTION | 20 - r2dii.plot-0.5.2/r2dii.plot/MD5 | 125 +++---- r2dii.plot-0.5.2/r2dii.plot/NAMESPACE | 3 r2dii.plot-0.5.2/r2dii.plot/NEWS.md | 4 r2dii.plot-0.5.2/r2dii.plot/R/data_dictionary.R | 1 r2dii.plot-0.5.2/r2dii.plot/R/imports.R | 2 r2dii.plot-0.5.2/r2dii.plot/R/market_share_demo.R |only r2dii.plot-0.5.2/r2dii.plot/R/plot_emission_intensity.R | 8 r2dii.plot-0.5.2/r2dii.plot/R/plot_techmix.R | 19 - r2dii.plot-0.5.2/r2dii.plot/R/plot_trajectory.R | 26 - r2dii.plot-0.5.2/r2dii.plot/R/prep_emission_intensity.R | 12 r2dii.plot-0.5.2/r2dii.plot/R/prep_techmix.R | 12 r2dii.plot-0.5.2/r2dii.plot/R/prep_trajectory.R | 12 r2dii.plot-0.5.2/r2dii.plot/R/qplot_emission_intensity.R | 4 r2dii.plot-0.5.2/r2dii.plot/R/qplot_techmix.R | 2 r2dii.plot-0.5.2/r2dii.plot/R/qplot_trajectory.R | 4 r2dii.plot-0.5.2/r2dii.plot/R/r2dii.plot-package.R | 1 r2dii.plot-0.5.2/r2dii.plot/R/scale_colour_r2dii.R | 4 r2dii.plot-0.5.2/r2dii.plot/R/scale_colour_r2dii_sector.R | 4 r2dii.plot-0.5.2/r2dii.plot/R/scale_colour_r2dii_tech.R | 4 r2dii.plot-0.5.2/r2dii.plot/R/sda_demo.R |only r2dii.plot-0.5.2/r2dii.plot/R/theme_2dii.R | 2 r2dii.plot-0.5.2/r2dii.plot/R/utils-docs.R |only r2dii.plot-0.5.2/r2dii.plot/R/utils.R | 13 r2dii.plot-0.5.2/r2dii.plot/README.md | 6 r2dii.plot-0.5.2/r2dii.plot/data/market_share_demo.rda |only r2dii.plot-0.5.2/r2dii.plot/data/sda_demo.rda |only r2dii.plot-0.5.2/r2dii.plot/man/figures/README-unnamed-chunk-2-1.png |binary r2dii.plot-0.5.2/r2dii.plot/man/figures/README-unnamed-chunk-3-1.png |binary r2dii.plot-0.5.2/r2dii.plot/man/market_share_demo.Rd |only r2dii.plot-0.5.2/r2dii.plot/man/plot_emission_intensity.Rd | 6 r2dii.plot-0.5.2/r2dii.plot/man/plot_techmix.Rd | 17 - r2dii.plot-0.5.2/r2dii.plot/man/plot_trajectory.Rd | 8 r2dii.plot-0.5.2/r2dii.plot/man/prep_emission_intensity.Rd | 12 r2dii.plot-0.5.2/r2dii.plot/man/prep_techmix.Rd | 12 r2dii.plot-0.5.2/r2dii.plot/man/prep_trajectory.Rd | 12 r2dii.plot-0.5.2/r2dii.plot/man/qplot_emission_intensity.Rd | 2 r2dii.plot-0.5.2/r2dii.plot/man/qplot_techmix.Rd | 2 r2dii.plot-0.5.2/r2dii.plot/man/qplot_trajectory.Rd | 2 r2dii.plot-0.5.2/r2dii.plot/man/r2dii_colours.Rd | 4 r2dii.plot-0.5.2/r2dii.plot/man/scale_colour_r2dii.Rd | 4 r2dii.plot-0.5.2/r2dii.plot/man/scale_colour_r2dii_sector.Rd | 4 r2dii.plot-0.5.2/r2dii.plot/man/scale_colour_r2dii_tech.Rd | 4 r2dii.plot-0.5.2/r2dii.plot/man/sda_demo.Rd |only r2dii.plot-0.5.2/r2dii.plot/man/theme_2dii.Rd | 2 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/_snaps/market_share_demo.md |only r2dii.plot-0.5.2/r2dii.plot/tests/testthat/_snaps/plot_emission_intensity.md | 6 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/_snaps/prep_techmix.md | 2 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/_snaps/qplot_emission_intensity.md | 2 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/_snaps/qplot_trajectory.md | 4 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/_snaps/sda_demo.md |only r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-market_share_demo.R |only r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-plot_emission_intensity.R | 170 ++++------ r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-plot_techmix.R | 20 - r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-plot_trajectory.R | 6 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-prep_emission_intensity.R | 4 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-prep_techmix.R | 64 +-- r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-prep_trajectory.R | 4 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-qplot_emission_intensity.R | 10 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-qplot_techmix.R | 10 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-qplot_trajectory.R | 22 - r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-scale_colour_r2dii.R | 8 r2dii.plot-0.5.2/r2dii.plot/tests/testthat/test-sda_demo.R |only 75 files changed, 349 insertions(+), 362 deletions(-)
Title: The Composer of Plots
Description: The 'ggplot2' package provides a strong API for sequentially
building up a plot, but does not concern itself with composition of multiple
plots. 'patchwork' is a package that expands the API to allow for
arbitrarily complex composition of plots by, among others, providing
mathematical operators for combining multiple plots. Other packages that try
to address this need (but with a different approach) are 'gridExtra' and
'cowplot'.
Author: Thomas Lin Pedersen [cre, aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between patchwork versions 1.3.0 dated 2024-09-16 and 1.3.1 dated 2025-06-21
DESCRIPTION | 14 +++++++------- MD5 | 16 ++++++++-------- NAMESPACE | 4 ++++ NEWS.md | 4 ++++ R/arithmetic.R | 6 ++++++ R/guides.R | 4 ++-- R/plot_patchwork.R | 5 +++++ build/vignette.rds |binary inst/doc/patchwork.html | 5 +++-- 9 files changed, 39 insertions(+), 19 deletions(-)
Title: A Grammar of Animated Graphics
Description: The grammar of graphics as implemented in the 'ggplot2'
package has been successful in providing a powerful API for creating
static visualisation. In order to extend the API for animated graphics
this package provides a completely new set of grammar, fully
compatible with 'ggplot2' for specifying transitions and animations in
a flexible and extensible way.
Author: Thomas Lin Pedersen [aut, cre] ,
David Robinson [aut],
Posit, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between gganimate versions 1.0.9 dated 2024-02-27 and 1.0.10 dated 2025-06-21
DESCRIPTION | 14 +++--- MD5 | 40 ++++++++--------- NAMESPACE | 2 NEWS.md | 30 +++++++------ R/animate.R | 12 ++++- R/ease-aes.R | 2 R/gganim.R | 4 - R/plot-build.R | 37 ++++++++++++---- R/scene.R | 7 +-- R/shadow-.R | 2 R/transition-.R | 2 R/transmute-.R | 4 - R/view-.R | 2 build/vignette.rds |binary inst/doc/gganimate.R | 48 ++++++++++---------- inst/doc/gganimate.Rmd | 46 ++++++++++---------- inst/doc/gganimate.html | 71 +++++++++++++++---------------- man/figures/README-unnamed-chunk-2-1.gif |binary man/figures/README-unnamed-chunk-4-1.gif |binary tests/testthat/test-transition-states.R | 2 vignettes/gganimate.Rmd | 46 ++++++++++---------- 21 files changed, 203 insertions(+), 168 deletions(-)
Title: A 'ggplot2' Implement of Venn Diagram
Description: Easy-to-use functions to generate 2-7 sets Venn or upset plot in publication quality.
'ggVennDiagram' plot Venn or upset using well-defined geometry dataset and 'ggplot2'. The shapes of 2-4 sets
Venn use circles and ellipses, while the shapes of 4-7 sets Venn use irregular polygons (4 has both forms), which
are developed and imported from another package 'venn', authored by Adrian Dusa. We provided internal functions to
integrate shape data with user provided sets data, and calculated the geometry of every regions/intersections
of them, then separately plot Venn in four components, set edges/labels, and region edges/labels.
From version 1.0, it is possible to customize these components as you demand in ordinary 'ggplot2' grammar.
From version 1.4.4, it supports unlimited number of sets, as it can draw a plain upset plot automatically when
number of sets is more than 7.
Author: Chun-Hui Gao [aut, cre] ,
Guangchuang Yu [ctb] ,
Adrian Dusa [aut, cph] ,
Turgut Yigit Akyol [ctb]
Maintainer: Chun-Hui Gao <gaospecial@gmail.com>
Diff between ggVennDiagram versions 1.5.2 dated 2024-02-20 and 1.5.4 dated 2025-06-21
DESCRIPTION | 20 ++++++----- MD5 | 40 +++++++++++------------ NEWS.md | 4 ++ R/ggVennDiagram.R | 24 ++++++++++++- README.md | 33 ++++++++++++------- build/vignette.rds |binary inst/doc/VennCalculator.html | 2 - inst/doc/fully-customed.html | 30 ++++++++++++++--- inst/doc/using-ggVennDiagram.R | 8 ++-- inst/doc/using-ggVennDiagram.html | 52 ++++++++++++++++++++---------- inst/doc/using-new-shapes.html | 10 ++--- man/figures/README-unnamed-chunk-12-1.png |binary man/figures/README-unnamed-chunk-13-1.png |binary man/figures/README-unnamed-chunk-14-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-4-2.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-5-2.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/ggVennDiagram.Rd | 12 ++++++ man/plot_venn.Rd | 9 +++++ 21 files changed, 169 insertions(+), 75 deletions(-)
Title: Measure Memory and CPU Usage for Parallel R Code
Description: Measures memory and CPU usage of R code by regularly taking
snapshots of calls to the system command 'ps'. The package provides an entry
point (albeit coarse) to profile usage of system resources by R code run
in parallel.
Author: Simon Couch [aut, cre] ,
Posit Software, PBC [cph, fnd]
Maintainer: Simon Couch <simon.couch@posit.co>
Diff between syrup versions 0.1.3 dated 2025-03-20 and 0.1.4 dated 2025-06-21
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/utils.R | 2 +- tests/testthat/test-syrup.R | 1 + 5 files changed, 14 insertions(+), 9 deletions(-)
Title: Tidy Multiverse Analysis Made Simple
Description: Extends 'multiverse' package
(Sarma A., Kale A., Moon M., Taback N., Chevalier F., Hullman J., Kay M., 2021)
<doi:10.31219/osf.io/yfbwm>, which allows users perform to create explorable
multiverse analysis in R. This extension provides an additional level of
abstraction to the 'multiverse' package with the aim of creating
user friendly syntax to researchers, educators, and students in statistics.
The 'mverse' syntax is designed to allow piping and takes hints from
the 'tidyverse' grammar. The package allows users to define and inspect
multiverse analysis using familiar syntax in R.
Author: Michael Jongho Moon [aut, cre],
Haoda Li [aut],
Mingwei Xu [aut],
Nathan Taback [aut],
Fanny Chevalier [aut],
Alison Gibbs [ctb]
Maintainer: Michael Jongho Moon <michael.moon@utoronto.ca>
Diff between mverse versions 0.2.1 dated 2025-06-12 and 0.2.2 dated 2025-06-21
DESCRIPTION | 6 +- MD5 | 10 +-- NEWS.md | 7 ++ build/partial.rdb |binary inst/CITATION | 2 tests/testthat/test-inspect.R | 110 +++++++++++++++++++++--------------------- 6 files changed, 71 insertions(+), 64 deletions(-)
Title: Use Open Data from the Czech Statistical Office in R
Description: Get programmatic access to the open data provided by the
Czech Statistical Office (CZSO, <https://czso.cz>).
Author: Petr Bouchal [aut, cre] ,
Jindra Lacko [ctb]
Maintainer: Petr Bouchal <pbouchal@gmail.com>
Diff between czso versions 0.4.1 dated 2024-07-20 and 0.4.2 dated 2025-06-21
DESCRIPTION | 11 - MD5 | 26 +-- NEWS.md | 5 R/catalogue.R |only R/core.R | 258 ++++++------------------------- R/czso-package.R | 2 R/workflow-utilities.R |only man/czso_filter_catalogue.Rd | 9 - man/czso_get_catalogue.Rd | 3 man/czso_get_codelist.Rd | 3 man/czso_get_dataset_doc.Rd | 2 man/czso_get_table.Rd | 1 man/czso_get_table_schema.Rd | 2 tests/testthat/test-catalogue.R |only tests/testthat/test-core.R | 33 +++ tests/testthat/test-workflow-utilities.R |only 16 files changed, 125 insertions(+), 230 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous (and discrete) time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE) or difference equation, measurement models are typically multivariate normal factor models.
Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default.
Nonlinearities, (state dependent parameters) and random effects on all parameters
are possible, using either max likelihood / max a posteriori optimization
(with optional importance sampling) or Stan's Hamiltonian Monte Carlo sampling.
See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf>
for details. Priors may be used. For the conceptual overview of the hierarchical Bayesian
linear SDE approach,
see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Mod [...truncated...]
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <charles.driver2@uzh.ch>
Diff between ctsem versions 3.10.2 dated 2025-01-13 and 3.10.3 dated 2025-06-21
ctsem-3.10.2/ctsem/R/isdiag.R |only ctsem-3.10.2/ctsem/R/zzz.R |only ctsem-3.10.2/ctsem/man/isdiag.Rd |only ctsem-3.10.3/ctsem/DESCRIPTION | 14 ctsem-3.10.3/ctsem/MD5 | 141 ctsem-3.10.3/ctsem/NAMESPACE | 7 ctsem-3.10.3/ctsem/NEWS.md | 9 ctsem-3.10.3/ctsem/R/JKalman.R | 2 ctsem-3.10.3/ctsem/R/covml.R | 4 ctsem-3.10.3/ctsem/R/ctCheckFit.R | 366 + ctsem-3.10.3/ctsem/R/ctCompare.R | 4 ctsem-3.10.3/ctsem/R/ctDiscretePars.R | 39 ctsem-3.10.3/ctsem/R/ctFitAuto.R |only ctsem-3.10.3/ctsem/R/ctFitMultiModel.R | 4 ctsem-3.10.3/ctsem/R/ctJacobian.R | 4 ctsem-3.10.3/ctsem/R/ctKalman.R | 8 ctsem-3.10.3/ctsem/R/ctModel.R | 245 - ctsem-3.10.3/ctsem/R/ctModelLatex.R | 2 ctsem-3.10.3/ctsem/R/ctStanData.R | 2 ctsem-3.10.3/ctsem/R/ctStanFit.R | 109 ctsem-3.10.3/ctsem/R/ctStanGenerate.R | 6 ctsem-3.10.3/ctsem/R/ctStanKalman.R | 13 ctsem-3.10.3/ctsem/R/ctStanModel.R | 23 ctsem-3.10.3/ctsem/R/ctStanModelWriter.R | 15 ctsem-3.10.3/ctsem/R/ctStanPlotPost.R | 2 ctsem-3.10.3/ctsem/R/ctTIpredAuto.R | 8 ctsem-3.10.3/ctsem/R/ctdataupdate.R | 2 ctsem-3.10.3/ctsem/R/ctsem-package.R | 2 ctsem-3.10.3/ctsem/R/ctsemUtils.R | 2 ctsem-3.10.3/ctsem/R/ctsmupdate.R | 2 ctsem-3.10.3/ctsem/R/importanceSamplingBackup.R |only ctsem-3.10.3/ctsem/R/plot.ctStanModel.R | 4 ctsem-3.10.3/ctsem/R/sgd.R | 83 ctsem-3.10.3/ctsem/R/stan_checkdivergences.R | 2 ctsem-3.10.3/ctsem/R/stan_unconstrainsamples.R | 2 ctsem-3.10.3/ctsem/R/stanoptimis.R | 2358 ++++------ ctsem-3.10.3/ctsem/R/summary.ctStanFit.R | 3 ctsem-3.10.3/ctsem/README.md | 2 ctsem-3.10.3/ctsem/data/ctstantestdat.rda |binary ctsem-3.10.3/ctsem/data/ctstantestfit.rda |binary ctsem-3.10.3/ctsem/inst/doc/hierarchicalmanual.pdf |binary ctsem-3.10.3/ctsem/inst/doc/hierarchicalmanual.rnw | 632 +- ctsem-3.10.3/ctsem/man/ctChisqTest.Rd | 4 ctsem-3.10.3/ctsem/man/ctFitAuto.Rd |only ctsem-3.10.3/ctsem/man/ctFitAutoGroupModel.Rd |only ctsem-3.10.3/ctsem/man/ctFitCovCheck.Rd | 28 ctsem-3.10.3/ctsem/man/ctFitMultiModel.Rd | 4 ctsem-3.10.3/ctsem/man/ctKalman.Rd | 3 ctsem-3.10.3/ctsem/man/ctModel.Rd | 16 ctsem-3.10.3/ctsem/man/ctModelLatex.Rd | 2 ctsem-3.10.3/ctsem/man/ctStanDiscreteParsPlot.Rd | 9 ctsem-3.10.3/ctsem/man/ctStanFit.Rd | 27 ctsem-3.10.3/ctsem/man/ctStanKalman.Rd | 5 ctsem-3.10.3/ctsem/man/ctStanModel.Rd | 4 ctsem-3.10.3/ctsem/man/ctStanParnames.Rd | 2 ctsem-3.10.3/ctsem/man/plot.ctFitCovCheck.Rd |only ctsem-3.10.3/ctsem/man/plot.ctStanModel.Rd | 4 ctsem-3.10.3/ctsem/man/stan_checkdivergences.Rd | 2 ctsem-3.10.3/ctsem/man/stan_unconstrainsamples.Rd | 2 ctsem-3.10.3/ctsem/man/stanoptimis.Rd | 40 ctsem-3.10.3/ctsem/tests/testthat/ctBinaryBinaryMix.R |only ctsem-3.10.3/ctsem/tests/testthat/test-bivariatetrait_hmc.R | 13 ctsem-3.10.3/ctsem/tests/testthat/test-bootHessian.R | 2 ctsem-3.10.3/ctsem/tests/testthat/test-bootstrapScoreHessian.R | 2 ctsem-3.10.3/ctsem/tests/testthat/test-corrcheck.R | 4 ctsem-3.10.3/ctsem/tests/testthat/test-ctRaschExampleTest.R | 4 ctsem-3.10.3/ctsem/tests/testthat/test-dtVct.R | 8 ctsem-3.10.3/ctsem/tests/testthat/test-nonlinearVlinear.R | 2 ctsem-3.10.3/ctsem/tests/testthat/test-stantipred.R | 14 ctsem-3.10.3/ctsem/tests/testthat/test-sunspots.R | 2 ctsem-3.10.3/ctsem/tests/testthat/test-tdeffectvariation_covtest.R | 20 ctsem-3.10.3/ctsem/tests/testthat/test-timevarying.R | 6 ctsem-3.10.3/ctsem/tests/testthat/test-ukfpoptest.R | 4 ctsem-3.10.3/ctsem/tests/testthat/test_behavGenNLcor.R | 2 ctsem-3.10.3/ctsem/vignettes/hierarchicalmanual.rnw | 632 +- ctsem-3.10.3/ctsem/vignettes/hierarchicalrefs.bib | 550 -- 76 files changed, 2682 insertions(+), 2856 deletions(-)
Title: Scatter Pie Plot
Description: Creates scatterpie plots, especially useful for plotting pies on a map.
Author: Guangchuang Yu [aut, cre] ,
Shuangbin Xu [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between scatterpie versions 0.2.4 dated 2024-08-28 and 0.2.5 dated 2025-06-21
DESCRIPTION | 11 +++++---- MD5 | 10 ++++----- NEWS.md | 4 +++ R/geom_scatterpie.R | 6 ++--- build/vignette.rds |binary inst/doc/scatterpie.html | 52 +++++++++++++++++++++-------------------------- 6 files changed, 42 insertions(+), 41 deletions(-)
Title: Decorate a 'ggplot' with Associated Information
Description: For many times, we are not just aligning plots as what 'cowplot' and 'patchwork' did. Users would like to align associated information that requires axes to be exactly matched in subplots, e.g. hierarchical clustering with a heatmap. Inspired by the 'Method 2' in 'ggtree' (G Yu (2018) <doi:10.1093/molbev/msy194>), 'aplot' provides utilities to aligns associated subplots to a main plot at different sides (left, right, top and bottom) with axes exactly matched.
Author: Guangchuang Yu [aut, cre] ,
Shuangbin Xu [ctb] ,
Thomas Hackl [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between aplot versions 0.2.6 dated 2025-06-12 and 0.2.7 dated 2025-06-21
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md | 4 ++++ R/axis.R | 6 +++--- man/figures |only 5 files changed, 14 insertions(+), 9 deletions(-)
Title: Miscellaneous Functions for 'ggplot2'
Description: Useful functions and utilities for 'ggplot' object (e.g., geometric layers, themes, and utilities to edit the object).
Author: Guangchuang Yu [aut, cre, cph] ,
Shuangbin Xu [aut]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggfun versions 0.1.8 dated 2024-12-03 and 0.1.9 dated 2025-06-21
DESCRIPTION | 14 +++++++------- MD5 | 20 ++++++++++---------- NAMESPACE | 1 + NEWS.md | 8 +++----- R/geom-scatter-rect.R | 4 ++-- R/geom_segment_c.R | 4 ++-- R/ggelement.R | 19 +++++++++++++------ R/method-ggplot-add.R | 5 +++-- build/vignette.rds |binary inst/doc/ggfun.html | 15 ++++++++------- man/element_roundrect.Rd | 19 +++++++++++-------- 11 files changed, 60 insertions(+), 49 deletions(-)
Title: Mediation, Moderation and Moderated-Mediation After Model
Fitting
Description: Computes indirect effects, conditional effects, and conditional
indirect effects in a structural equation model or path model after model
fitting, with no need to define any user parameters or label any paths in
the model syntax, using the approach presented in Cheung and Cheung
(2024) <doi:10.3758/s13428-023-02224-z>. Can also form bootstrap
confidence intervals by doing bootstrapping only once and reusing the
bootstrap estimates in all subsequent computations. Supports bootstrap
confidence intervals for standardized (partially or completely) indirect
effects, conditional effects, and conditional indirect effects as described
in Cheung (2009) <doi:10.3758/BRM.41.2.425> and Cheung, Cheung, Lau, Hui,
and Vong (2022) <doi:10.1037/hea0001188>. Model fitting can be done by
structural equation modeling using lavaan() or regression using lm().
Author: Shu Fai Cheung [aut, cre] ,
Sing-Hang Cheung [aut]
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between manymome versions 0.2.8 dated 2025-05-03 and 0.2.9 dated 2025-06-21
DESCRIPTION | 10 - MD5 | 29 ++--- NEWS.md | 23 ++++ R/boot2est_lavaan.R | 158 +++++++++++++++++++++++++----- R/boot2est_lm.R | 13 +- R/lavaan2lm_list.R | 49 +++++++++ R/lavaan_helpers.R | 44 ++++++-- R/lm2ptable.R | 16 ++- R/lm_helpers.R | 70 +++++++++++-- R/mc2est_lavaan.R | 57 ++++++++++ README.md | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/mod_levels.html | 4 man/fit2boot_out.Rd | 9 + tests/testthat/test_plot_lm_from_lavaan.R |only 16 files changed, 405 insertions(+), 79 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-03-14 0.1.2
Title: Univariate GARCH Models
Description: ARFIMA, in-mean, external regressors and various GARCH flavors, with methods for fit, forecast, simulation, inference and plotting.
Author: Alexios Galanos [aut, cre, cph] ,
Tobias Kley [ctb]
Maintainer: Alexios Galanos <alexios@4dscape.com>
Diff between rugarch versions 1.5-3 dated 2024-09-22 and 1.5-4 dated 2025-06-21
ChangeLog | 5 +++++ DESCRIPTION | 15 ++++++++------- MD5 | 14 +++++++------- NAMESPACE | 2 +- R/rugarch-methods.R | 6 ------ README.md | 3 ++- inst/doc/Introduction_to_the_rugarch_package.pdf |binary man/uGARCHfit-class.Rd | 1 + 8 files changed, 24 insertions(+), 22 deletions(-)
Title: Confidence Intervals for Robust and Classical Linear Mixed Model
Estimators
Description: The main function calculates confidence intervals (CI) for Mixed Models, utilizing both classical estimators from the lmer() function in the 'lme4' package and robust estimators from the rlmer() function in the 'robustlmm' package, as well as the varComprob() function in the 'robustvarComp' package. Three methods are available: the classical Wald method, the wild bootstrap, and the parametric bootstrap. Bootstrap methods offer flexibility in obtaining lower and upper bounds through percentile or BCa methods. More details are given in Mason, F., Cantoni, E., & Ghisletta, P. (2021) <doi:10.5964/meth.6607> and Mason, F., Cantoni, E., & Ghisletta, P. (2024) <doi:10.1037/met0000643>.
Author: Fabio Mason [aut, cre],
Manuel Koller [aut],
Eva Cantoni [ctb, ths],
Paolo Ghisletta [ths]
Maintainer: Fabio Mason <fabio.mason@unige.ch>
Diff between confintROB versions 1.0-1 dated 2024-06-06 and 1.0-2 dated 2025-06-21
DESCRIPTION | 10 MD5 | 48 - NAMESPACE | 56 - R/BCa.R | 248 +++--- R/BCaVarCompRob.R | 96 +- R/CIfunction_param.R | 52 - R/CIfunction_paramMLvarCompRob.R | 160 ++-- R/CIfunction_wald.R | 120 +-- R/CIfunction_wild.R | 194 ++-- R/CIfunction_wildvarCompRob.R | 64 - R/confintLMMFast.R | 108 +- R/confintrob.R | 342 ++++---- R/helpers.R | 450 +++++------ R/medication-data.R | 46 - R/medsim-data.R | 32 README.md | 36 inst/CITATION | 26 man/confintROB.Rd | 206 ++--- man/medication.Rd | 60 - man/medsim.Rd | 46 - tests/confintrob_test.R | 188 ++-- tests/confintrob_test.Rout.save | 748 +++++++++---------- tests/parallelTest.R | 54 - tests/varComprob_createParamSampleFunction.R | 344 ++++---- tests/varComprob_createParamSampleFunction.Rout.save | 554 +++++++------- 25 files changed, 2144 insertions(+), 2144 deletions(-)