Title: Computations on Conics
Description: Solve some conic related problems (intersection of conics with lines and conics, arc length of an ellipse, polar lines, etc.).
Author: Emanuel Huber [aut, cre]
Maintainer: Emanuel Huber <emanuel.huber@pm.me>
Diff between RConics versions 1.1.1 dated 2022-03-11 and 1.1.2 dated 2025-02-17
DESCRIPTION | 11 +++++------ MD5 | 6 +++--- R/conicMatrixToEllipse.R | 3 ++- README.md | 4 +++- 4 files changed, 13 insertions(+), 11 deletions(-)
Title: Analysis of Check-All-that-Apply (CATA) Data
Description: Package contains functions for analyzing check-all-that-apply (CATA) data from consumer and sensory tests. Cochran's Q test, McNemar's test, and Penalty-Lift analysis are provided; for details, see Meyners, Castura & Carr (2013) <doi:10.1016/j.foodqual.2013.06.010>. Cluster analysis can be performed using b-cluster analysis, then evaluated using various measures; for details, see Castura, Meyners, Varela & Næs (2022) <doi:10.1016/j.foodqual.2022.104564>. Methods are adapted to cluster consumers based on their product-related hedonic responses; for details, see Castura, Meyners, Pohjanheimo, Varela & Næs (2023) <doi:10.1111/joss.12860>.
Author: J.C. Castura [aut, cre, ctb]
Maintainer: J.C. Castura <jcastura@compusense.com>
Diff between cata versions 0.1.0.7 dated 2024-10-08 and 0.1.0.26 dated 2025-02-17
cata-0.1.0.26/cata/DESCRIPTION | 10 cata-0.1.0.26/cata/MD5 | 47 +- cata-0.1.0.26/cata/NAMESPACE | 4 cata-0.1.0.26/cata/R/cata-internal.R | 4 cata-0.1.0.26/cata/R/cata.R | 448 +++++++++++------------ cata-0.1.0.26/cata/R/evalClusterQuality.R | 40 -- cata-0.1.0.26/cata/R/ocov.R |only cata-0.1.0.26/cata/R/plift.R |only cata-0.1.0.26/cata/build/partial.rdb |binary cata-0.1.0.26/cata/data/bread.rda |binary cata-0.1.0.26/cata/man/ARI.Rd | 18 cata-0.1.0.26/cata/man/barray.Rd | 18 cata-0.1.0.26/cata/man/bcluster.Rd | 9 cata-0.1.0.26/cata/man/bcluster.h.Rd | 4 cata-0.1.0.26/cata/man/cochranQ.Rd | 30 - cata-0.1.0.26/cata/man/code.topk.Rd | 6 cata-0.1.0.26/cata/man/evaluateClusterQuality.Rd | 14 cata-0.1.0.26/cata/man/getb.Rd | 8 cata-0.1.0.26/cata/man/homogeneity.Rd | 6 cata-0.1.0.26/cata/man/mad.dist.Rd |only cata-0.1.0.26/cata/man/madperm.Rd |only cata-0.1.0.26/cata/man/mcnemarQ.Rd | 17 cata-0.1.0.26/cata/man/plift.Rd |only cata-0.1.0.26/cata/man/rv.coef.Rd | 8 cata-0.1.0.26/cata/man/toMatrix.Rd | 14 cata-0.1.0.26/cata/man/toWideMatrix.Rd | 14 cata-0.1.0.7/cata/R/pLift.R |only cata-0.1.0.7/cata/man/pLift.Rd |only 28 files changed, 364 insertions(+), 355 deletions(-)
Title: Learn Clustering Techniques Through Examples and Code
Description: A comprehensive educational package combining clustering algorithms with
detailed step-by-step explanations. Provides implementations of both traditional
(hierarchical, k-means) and modern (Density-Based Spatial Clustering of Applications with Noise (DBSCAN),
Gaussian Mixture Models (GMM), genetic k-means) clustering methods
as described in Ezugwu et. al., (2022) <doi:10.1016/j.engappai.2022.104743>.
Includes educational datasets highlighting different clustering challenges, based on
'scikit-learn' examples (Pedregosa et al., 2011)
<https://jmlr.csail.mit.edu/papers/v12/pedregosa11a.html>. Features detailed
algorithm explanations, visualizations, and weighted distance calculations for
enhanced learning.
Author: Eduardo Ruiz Sabajanes [aut],
Roberto Alcantara [aut],
Juan Jose Cuadrado Gallego [aut]
,
Andriy Protsak Protsak [aut, cre],
Universidad de Alcala [cph]
Maintainer: Andriy Protsak Protsak <andriy.protsak@edu.uah.es>
Diff between UAHDataScienceUC versions 1.0.0 dated 2025-02-17 and 1.0.1 dated 2025-02-17
DESCRIPTION | 9 MD5 | 12 - NEWS.md | 5 R/divisive_clustering.R | 5 inst/doc/UAHDataScienceUC.html | 408 ++++++++++++++++++++--------------------- man/divisive_clustering.Rd | 5 man/gaussian_mixture.Rd | 21 -- 7 files changed, 233 insertions(+), 232 deletions(-)
More information about UAHDataScienceUC at CRAN
Permanent link
Title: Geolocalização De Endereços Brasileiros (Geocoding Brazilian
Addresses)
Description: Método simples e eficiente de geolocalizar dados no Brasil. O
pacote é baseado em conjuntos de dados espaciais abertos de endereços
brasileiros, utilizando principalmente o Cadastro Nacional de Endereços para
Fins Estatísticos (CNEFE). O CNEFE é publicado pelo Instituto Brasileiro de
Geografia e Estatística (IBGE), órgão oficial de estatísticas e geografia do
Brasil. (A simple and efficient method for geolocating data in Brazil. The
package is based on open spatial datasets of Brazilian addresses, primarily
using the Cadastro Nacional de Endereços para Fins Estatísticos (CNEFE),
published by the Instituto Brasileiro de Geografia e Estatística (IBGE),
Brazil's official statistics and geography agency.)
Author: Rafael H. M. Pereira [aut, cre]
,
Daniel Herszenhut [aut] ,
Ipea - Instituto de Pesquisa Economica Aplicada [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geocodebr versions 0.1.0 dated 2025-02-12 and 0.1.1 dated 2025-02-17
DESCRIPTION | 6 - MD5 | 39 ++++----- NAMESPACE | 1 NEWS.md | 7 + R/cache.R | 36 ++++++-- R/geocodebr.R | 17 --- README.md | 13 ++- build/vignette.rds |binary inst/doc/geocodebr.R | 6 - inst/doc/geocodebr.Rmd | 12 ++ inst/doc/geocodebr.html | 112 +++++++++++++------------- man/create_index.Rd | 24 ++--- man/definir_campos.Rd | 132 +++++++++++++++---------------- man/deletar_pasta_cache.Rd | 38 ++++---- man/listar_dados_cache.Rd | 48 +++++------ man/listar_pasta_cache.Rd | 42 ++++----- man/update_input_db.Rd | 44 +++++----- tests/tests_rafa/benchmark_LIKE.R | 20 ++-- tests/tests_rafa/teste_geocodebr_1km.csv |only tests/testthat/test-cache.R | 3 vignettes/geocodebr.Rmd | 12 ++ 21 files changed, 325 insertions(+), 287 deletions(-)
Title: Elastic Functional Data Analysis
Description: Performs alignment, PCA, and modeling of multidimensional and
unidimensional functions using the square-root velocity framework
(Srivastava et al., 2011 <doi:10.48550/arXiv.1103.3817> and Tucker et al., 2014
<DOI:10.1016/j.csda.2012.12.001>). This framework allows for elastic
analysis of functional data through phase and amplitude separation.
Author: J. Derek Tucker [aut, cre] ,
Aymeric Stamm [ctb]
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between fdasrvf versions 2.3.5 dated 2025-02-11 and 2.3.6 dated 2025-02-17
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 5 ++++- R/jointfPCA.R | 6 ++++++ src/bayesian.cpp | 2 +- 5 files changed, 19 insertions(+), 10 deletions(-)
Title: Analysis Results Data
Description: Construct CDISC (Clinical Data Interchange Standards
Consortium) compliant Analysis Results Data objects. These objects are
used and re-used to construct summary tables, visualizations, and
written reports. The package also exports utilities for working with
these objects and creating new Analysis Results Data objects.
Author: Daniel D. Sjoberg [aut, cre] ,
Becca Krouse [aut],
Emily de la Rua [aut],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline Research & Development Limited [cph]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cards versions 0.4.0 dated 2024-11-27 and 0.5.0 dated 2025-02-17
cards-0.4.0/cards/man/label_cards.Rd |only cards-0.4.0/cards/tests/spelling.R |only cards-0.4.0/cards/tests/testthat/test-label_cards.R |only cards-0.5.0/cards/DESCRIPTION | 17 cards-0.5.0/cards/MD5 | 127 +- cards-0.5.0/cards/NAMESPACE | 3 cards-0.5.0/cards/NEWS.md | 24 cards-0.5.0/cards/R/apply_fmt_fn.R | 31 cards-0.5.0/cards/R/ard_attributes.R | 1 cards-0.5.0/cards/R/ard_categorical.R | 107 ++ cards-0.5.0/cards/R/ard_complex.R | 1 cards-0.5.0/cards/R/ard_continuous.R | 5 cards-0.5.0/cards/R/ard_hierarchical.R | 41 cards-0.5.0/cards/R/ard_stack_hierarchical.R | 1 cards-0.5.0/cards/R/ard_strata.R | 3 cards-0.5.0/cards/R/default_stat_labels.R | 2 cards-0.5.0/cards/R/deprecated.R |only cards-0.5.0/cards/R/eval_capture_conditions.R | 1 cards-0.5.0/cards/R/options.R |only cards-0.5.0/cards/R/print.R | 1 cards-0.5.0/cards/R/print_ard_conditions.R | 27 cards-0.5.0/cards/R/rename_ard_groups.R |only cards-0.5.0/cards/R/round5.R | 2 cards-0.5.0/cards/R/selectors.R | 10 cards-0.5.0/cards/R/tidy_ard_order.R | 43 cards-0.5.0/cards/R/tidy_as_ard.R | 1 cards-0.5.0/cards/README.md | 432 +++++++++- cards-0.5.0/cards/inst/WORDLIST | 5 cards-0.5.0/cards/man/ard_categorical.Rd | 33 cards-0.5.0/cards/man/ard_complex.Rd | 3 cards-0.5.0/cards/man/ard_continuous.Rd | 2 cards-0.5.0/cards/man/ard_dichotomous.Rd | 31 cards-0.5.0/cards/man/ard_hierarchical.Rd | 52 - cards-0.5.0/cards/man/ard_missing.Rd | 2 cards-0.5.0/cards/man/ard_stack_hierarchical.Rd | 5 cards-0.5.0/cards/man/ard_strata.Rd | 1 cards-0.5.0/cards/man/cards.options.Rd |only cards-0.5.0/cards/man/deprecated.Rd |only cards-0.5.0/cards/man/dot-calculate_tabulation_statistics.Rd | 10 cards-0.5.0/cards/man/dot-cli_condition_messaging.Rd | 2 cards-0.5.0/cards/man/dot-process_denominator.Rd | 6 cards-0.5.0/cards/man/dot-rename_last_group_as_variable.Rd | 4 cards-0.5.0/cards/man/eval_capture_conditions.Rd | 1 cards-0.5.0/cards/man/label_round.Rd |only cards-0.5.0/cards/man/print.card.Rd | 1 cards-0.5.0/cards/man/print_ard_conditions.Rd | 7 cards-0.5.0/cards/man/rename_ard_groups.Rd |only cards-0.5.0/cards/man/round5.Rd | 2 cards-0.5.0/cards/man/selectors.Rd | 2 cards-0.5.0/cards/man/tidy_ard_order.Rd | 12 cards-0.5.0/cards/tests/testthat/_snaps/ard_categorical.md | 79 - cards-0.5.0/cards/tests/testthat/_snaps/ard_hierarchical.md | 8 cards-0.5.0/cards/tests/testthat/_snaps/ard_stack_hierarchical.md | 24 cards-0.5.0/cards/tests/testthat/_snaps/ard_strata.md | 22 cards-0.5.0/cards/tests/testthat/_snaps/bind_ard.md | 120 -- cards-0.5.0/cards/tests/testthat/_snaps/options.md |only cards-0.5.0/cards/tests/testthat/_snaps/print.md | 14 cards-0.5.0/cards/tests/testthat/_snaps/print_ard_conditions.md | 29 cards-0.5.0/cards/tests/testthat/_snaps/rename_ard_columns.md | 47 - cards-0.5.0/cards/tests/testthat/_snaps/rename_ard_groups.md |only cards-0.5.0/cards/tests/testthat/_snaps/tidy_ard_row_order.md |only cards-0.5.0/cards/tests/testthat/test-ard_categorical.R | 253 +++++ cards-0.5.0/cards/tests/testthat/test-ard_hierarchical.R | 12 cards-0.5.0/cards/tests/testthat/test-ard_stack.R | 10 cards-0.5.0/cards/tests/testthat/test-ard_stack_hierarchical.R | 5 cards-0.5.0/cards/tests/testthat/test-bind_ard.R | 1 cards-0.5.0/cards/tests/testthat/test-label_round.R |only cards-0.5.0/cards/tests/testthat/test-options.R |only cards-0.5.0/cards/tests/testthat/test-print_ard_conditions.R | 30 cards-0.5.0/cards/tests/testthat/test-rename_ard_columns.R | 5 cards-0.5.0/cards/tests/testthat/test-rename_ard_groups.R |only cards-0.5.0/cards/tests/testthat/test-tidy_ard_column_order.R | 15 cards-0.5.0/cards/tests/testthat/test-tidy_ard_row_order.R |only 73 files changed, 1310 insertions(+), 425 deletions(-)
Title: Select an Optimal Block-Length to Bootstrap Dependent Data
(Block Bootstrap)
Description: A set of functions to select the optimal block-length for a
dependent bootstrap (block-bootstrap). Includes the Hall, Horowitz, and Jing
(1995) <doi:10.1093/biomet/82.3.561> subsampling-based cross-validation method, the
Politis and White (2004) <doi:10.1081/ETC-120028836> Spectral Density
Plug-in method, including the Patton, Politis, and White (2009)
<doi:10.1080/07474930802459016> correction, and the Lahiri, Furukawa, and Lee
(2007) <doi:10.1016/j.stamet.2006.08.002> nonparametric plug-in method, with
a corresponding set of S3 plot methods.
Author: Alec Stashevsky [aut, cre] ,
Sergio Armella [ctb]
Maintainer: Alec Stashevsky <alec@alecstashevsky.com>
Diff between blocklength versions 0.1.5 dated 2022-03-02 and 0.2.0 dated 2025-02-17
DESCRIPTION | 21 MD5 | 53 NAMESPACE | 14 NEWS.md | 95 - R/hhj.R | 750 ++++---- R/nppi.R |only R/plot.hhj.R | 130 - R/plot.nppi.R |only R/plot.pwsd.R | 156 - R/pwsd.R | 522 +++--- README.md | 531 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/tuning-parameters.R | 274 +-- inst/doc/tuning-parameters.Rmd | 542 +++--- inst/doc/tuning-parameters.html | 3412 +++++++++++++++++++++++++++++++++++----- man/figures/README-hhj-1.svg | 604 +++---- man/figures/README-hhj-2.svg | 604 +++---- man/figures/README-nppi-1.svg |only man/figures/README-pwsd-1.svg | 520 +++--- man/hhj.Rd | 2 man/nppi.Rd |only man/plot.nppi.Rd |only tests/testthat.R | 8 tests/testthat/Rplots.pdf |only tests/testthat/test-hhj.R | 164 - tests/testthat/test-nppi.R |only tests/testthat/test-plots.R | 70 tests/testthat/test-pwsd.R | 126 - vignettes/references.bib | 244 +- vignettes/tuning-parameters.Rmd | 542 +++--- 31 files changed, 6085 insertions(+), 3299 deletions(-)
Title: Working with Sets the Tidy Way
Description: Implements a class and methods to work with sets, doing
intersection, union, complementary sets, power sets, cartesian product
and other set operations in a "tidy" way. These set operations are
available for both classical sets and fuzzy sets. Import sets from
several formats or from other several data structures.
Author: Lluis Revilla Sancho [aut, cre, cph]
,
Zebulun Arendsee [rev],
Jennifer Chang [rev]
Maintainer: Lluis Revilla Sancho <lluis.revilla@gmail.com>
Diff between BaseSet versions 0.9.0 dated 2023-08-22 and 1.0.0 dated 2025-02-17
BaseSet-0.9.0/BaseSet/R/utils-pipe.R |only BaseSet-0.9.0/BaseSet/man/pipe.Rd |only BaseSet-0.9.0/BaseSet/man/tidy.Rd |only BaseSet-0.9.0/BaseSet/tests/testthat/test-gmt.R |only BaseSet-0.9.0/BaseSet/tests/testthat/test-toimplement.R |only BaseSet-1.0.0/BaseSet/DESCRIPTION | 42 - BaseSet-1.0.0/BaseSet/LICENSE | 2 BaseSet-1.0.0/BaseSet/MD5 | 235 ++++---- BaseSet-1.0.0/BaseSet/NAMESPACE | 13 BaseSet-1.0.0/BaseSet/NEWS.md | 11 BaseSet-1.0.0/BaseSet/R/AllGenerics.R | 26 BaseSet-1.0.0/BaseSet/R/GeneSetCollection.R | 62 +- BaseSet-1.0.0/BaseSet/R/c.R | 1 BaseSet-1.0.0/BaseSet/R/complement.R | 20 BaseSet-1.0.0/BaseSet/R/data_frame.R | 1 BaseSet-1.0.0/BaseSet/R/elements.R | 15 BaseSet-1.0.0/BaseSet/R/extract.R | 65 +- BaseSet-1.0.0/BaseSet/R/names.R | 320 +++++++----- BaseSet-1.0.0/BaseSet/R/obo.R | 11 BaseSet-1.0.0/BaseSet/R/set.R | 15 BaseSet-1.0.0/BaseSet/R/size.R | 11 BaseSet-1.0.0/BaseSet/R/tidy-set.R | 11 BaseSet-1.0.0/BaseSet/README.md | 2 BaseSet-1.0.0/BaseSet/build/vignette.rds |binary BaseSet-1.0.0/BaseSet/inst/WORDLIST | 4 BaseSet-1.0.0/BaseSet/inst/doc/BaseSet.html | 92 +-- BaseSet-1.0.0/BaseSet/inst/doc/advanced.R | 312 +++++------ BaseSet-1.0.0/BaseSet/inst/doc/advanced.Rmd | 8 BaseSet-1.0.0/BaseSet/inst/doc/advanced.html | 131 +++- BaseSet-1.0.0/BaseSet/inst/doc/fuzzy.html | 54 +- BaseSet-1.0.0/BaseSet/man/TidySet-class.Rd | 6 BaseSet-1.0.0/BaseSet/man/activate.Rd | 6 BaseSet-1.0.0/BaseSet/man/add_column.Rd | 6 BaseSet-1.0.0/BaseSet/man/add_relation.Rd | 6 BaseSet-1.0.0/BaseSet/man/arrange_.Rd | 6 BaseSet-1.0.0/BaseSet/man/cartesian.Rd | 6 BaseSet-1.0.0/BaseSet/man/complement.Rd | 24 BaseSet-1.0.0/BaseSet/man/complement_element.Rd | 8 BaseSet-1.0.0/BaseSet/man/complement_set.Rd | 8 BaseSet-1.0.0/BaseSet/man/dimnames.TidySet.Rd |only BaseSet-1.0.0/BaseSet/man/element_size.Rd | 6 BaseSet-1.0.0/BaseSet/man/elements.Rd | 19 BaseSet-1.0.0/BaseSet/man/extract-TidySet.Rd | 3 BaseSet-1.0.0/BaseSet/man/filter_.Rd | 6 BaseSet-1.0.0/BaseSet/man/group.Rd | 4 BaseSet-1.0.0/BaseSet/man/group_by_.Rd | 4 BaseSet-1.0.0/BaseSet/man/incidence.Rd | 6 BaseSet-1.0.0/BaseSet/man/intersection.Rd | 6 BaseSet-1.0.0/BaseSet/man/is.fuzzy.Rd | 6 BaseSet-1.0.0/BaseSet/man/is_nested.Rd | 6 BaseSet-1.0.0/BaseSet/man/move_to.Rd | 6 BaseSet-1.0.0/BaseSet/man/mutate_.Rd | 6 BaseSet-1.0.0/BaseSet/man/nElements.Rd | 10 BaseSet-1.0.0/BaseSet/man/nRelations.Rd | 6 BaseSet-1.0.0/BaseSet/man/nSets.Rd | 10 BaseSet-1.0.0/BaseSet/man/name_elements-set.Rd | 14 BaseSet-1.0.0/BaseSet/man/name_elements.Rd | 30 - BaseSet-1.0.0/BaseSet/man/name_sets-set.Rd | 12 BaseSet-1.0.0/BaseSet/man/name_sets.Rd | 34 - BaseSet-1.0.0/BaseSet/man/names.TidySet.Rd |only BaseSet-1.0.0/BaseSet/man/power_set.Rd | 6 BaseSet-1.0.0/BaseSet/man/pull_.Rd | 6 BaseSet-1.0.0/BaseSet/man/relations.Rd | 6 BaseSet-1.0.0/BaseSet/man/remove_column.Rd | 6 BaseSet-1.0.0/BaseSet/man/remove_element.Rd | 6 BaseSet-1.0.0/BaseSet/man/remove_relation.Rd | 6 BaseSet-1.0.0/BaseSet/man/remove_set.Rd | 6 BaseSet-1.0.0/BaseSet/man/rename_elements.Rd | 10 BaseSet-1.0.0/BaseSet/man/rename_set.Rd | 10 BaseSet-1.0.0/BaseSet/man/select_.Rd | 6 BaseSet-1.0.0/BaseSet/man/set_size.Rd | 6 BaseSet-1.0.0/BaseSet/man/sets.Rd | 21 BaseSet-1.0.0/BaseSet/man/size.Rd | 2 BaseSet-1.0.0/BaseSet/man/subtract.Rd | 10 BaseSet-1.0.0/BaseSet/man/tidySet.Rd | 31 + BaseSet-1.0.0/BaseSet/man/union.Rd | 6 BaseSet-1.0.0/BaseSet/tests/testthat.R | 8 BaseSet-1.0.0/BaseSet/tests/testthat/test-GMT.R |only BaseSet-1.0.0/BaseSet/tests/testthat/test-activate.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-add_relation.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-add_relations.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-adjacency.R | 12 BaseSet-1.0.0/BaseSet/tests/testthat/test-arrange.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-cartesian.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-complement.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-data_frame.R | 6 BaseSet-1.0.0/BaseSet/tests/testthat/test-df2TS.R | 4 BaseSet-1.0.0/BaseSet/tests/testthat/test-element_size.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-elements.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-extract.R | 51 + BaseSet-1.0.0/BaseSet/tests/testthat/test-filter.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-group.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-group_by.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-head.R |only BaseSet-1.0.0/BaseSet/tests/testthat/test-incidence.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-independent.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-intersection.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-length.R | 8 BaseSet-1.0.0/BaseSet/tests/testthat/test-move_to.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-mutate.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-name.R | 18 BaseSet-1.0.0/BaseSet/tests/testthat/test-naming.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-nested.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-operations.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-power_set.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-print.R | 1 BaseSet-1.0.0/BaseSet/tests/testthat/test-pull.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-relations.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-remove_column.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-remove_element.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-remove_relation.R | 23 BaseSet-1.0.0/BaseSet/tests/testthat/test-remove_set.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-rename.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-select.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-setAs.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-set_size.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-sets.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-size.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-subtract.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-tidy.R | 34 - BaseSet-1.0.0/BaseSet/tests/testthat/test-tidyset.R | 2 BaseSet-1.0.0/BaseSet/tests/testthat/test-union.R | 2 BaseSet-1.0.0/BaseSet/vignettes/advanced.Rmd | 8 123 files changed, 1235 insertions(+), 884 deletions(-)
Title: Sparse-Group Boosting
Description: Sparse-group boosting to be used in conjunction with the 'mboost' for modeling grouped data.
Applicable to all sparse-group lasso type problems where within-group and between-group sparsity is desired.
Interprets and visualizes individual variables and groups.
Author: Fabian Obster [aut, cre, cph]
Maintainer: Fabian Obster <fabian.obster@unibw.de>
Diff between sgboost versions 0.1.3 dated 2024-05-19 and 0.2.0 dated 2025-02-17
DESCRIPTION | 6 MD5 | 25 +-- NAMESPACE | 7 NEWS.md | 8 + R/balance.R |only R/create_formula.R | 21 +- R/get_coef.R | 6 R/plot_path.R | 278 +++++++++++++++++------------------ inst/doc/sgboost.html | 182 +++++++++++----------- man/balance.Rd |only man/create_formula.Rd | 3 tests/spelling.R | 9 - tests/testthat/test-create_formula.R | 15 + tests/testthat/test-plot_path.R | 9 - tests/testthat/test-test-balance.R |only 15 files changed, 306 insertions(+), 263 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization, Stochastic dominance and Advanced Monte Carlo sampling. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre],
Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 11.0 dated 2025-01-10 and 11.1 dated 2025-02-17
DESCRIPTION | 8 +++--- MD5 | 22 +++++++++-------- NAMESPACE | 3 ++ R/Causation.R | 13 ++++------ R/Numerical_Differentiation.R | 28 +++++++++++----------- R/SD_Cluster.R |only R/gvload.R | 2 - README.md | 4 +-- inst/doc/NNSvignette_Comparing_Distributions.R | 28 +++++++++++----------- inst/doc/NNSvignette_Comparing_Distributions.Rmd | 12 +++++++-- inst/doc/NNSvignette_Comparing_Distributions.html | 26 ++++++++++++++++++-- man/NNS.SD.cluster.Rd |only vignettes/NNSvignette_Comparing_Distributions.Rmd | 12 +++++++-- 13 files changed, 101 insertions(+), 57 deletions(-)
Title: Maximum Likelihood Estimation of Various Univariate and
Multivariate Distributions
Description: Several functions for maximum likelihood estimation of various univariate and multivariate distributions. The list includes more than 100 functions for univariate continuous and discrete distributions, distributions that lie on the real line, the positive line, interval restricted, circular distributions. Further, multivariate continuous and discrete distributions, distributions for compositional and directional data, etc. Some references include Johnson N. L., Kotz S. and Balakrishnan N. (1994). "Continuous Univariate Distributions, Volume 1" <ISBN:978-0-471-58495-7>, Johnson, Norman L. Kemp, Adrianne W. Kotz, Samuel (2005). "Univariate Discrete Distributions". <ISBN:978-0-471-71580-1> and Mardia, K. V. and Jupp, P. E. (2000). "Directional Statistics". <ISBN:978-0-471-95333-3>.
Author: Michail Tsagris [aut, cre],
Sofia Piperaki [aut],
Muhammad Imran [ctb],
Rafail Vargiakakis [aut],
Nikolaos Kontemeniotis [aut]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between MLE versions 1.3 dated 2024-12-16 and 1.4 dated 2025-02-17
DESCRIPTION | 16 ++-- MD5 | 44 ++++++------ R/circ.mle.R | 2 R/colcens.mle.R | 13 +++ R/colcirc.mle.R | 109 +++++++++++++++++++++++++++++++ R/coldisc.mle.R | 169 ++++++++++++++++++++++++++++++++++++++++++++++++- R/colpositive.mle.R | 133 ++++++++++++++++++++++++++++++++++++++ R/colprop.mle.R | 76 ++++++++++++++++++++++ R/colreal.mle.R | 96 +++++++++++++++++++++++++-- R/disc.mle.R | 2 R/prop.mle.R | 2 man/MLE-package.Rd | 9 +- man/circ.mle.Rd | 8 +- man/colcens.mle.Rd | 12 +-- man/colcirc.mle.Rd | 43 ++++++++++-- man/coldisc.mle.Rd | 33 +++++++-- man/colpositive.mle.Rd | 6 - man/colprop.mle.Rd | 17 ++++ man/colreal.mle.Rd | 21 ++++-- man/disc.mle.Rd | 6 - man/hspher.mle.Rd | 10 +- man/prop.mle.Rd | 2 man/real.mle.Rd | 5 + 23 files changed, 742 insertions(+), 92 deletions(-)
Title: Constrained Generalized Additive Model
Description: A constrained generalized additive model is fitted by the cgam routine. Given a set of predictors, each of which may have a shape or order restrictions, the maximum likelihood estimator for the constrained generalized additive model is found using an iteratively re-weighted cone projection algorithm. The ShapeSelect routine chooses a subset of predictor variables and describes the component relationships with the response. For each predictor, the user needs only specify a set of possible shape or order restrictions. A model selection method chooses the shapes and orderings of the relationships as well as the variables. The cone information criterion (CIC) is used to select the best combination of variables and shapes. A genetic algorithm may be used when the set of possible models is large. In addition, the cgam routine implements a two-dimensional isotonic regression using warped-plane splines without additivity assumptions. It can also fit a convex or concave regression surface with [...truncated...]
Author: Mary Meyer [aut],
Xiyue Liao [aut, cre]
Maintainer: Xiyue Liao <xliao@sdsu.edu>
Diff between cgam versions 1.21 dated 2023-08-10 and 1.22 dated 2025-02-17
ChangeLog | 7 DESCRIPTION | 14 MD5 | 20 - NAMESPACE | 2 R/cgam.R | 761 ++++++++++++++++++++++++++++++++++++++++++++-------- R/cgamm.R | 5 man/ShapeSelect.Rd | 2 man/cgam.Rd | 2 man/plotpersp.Rd | 10 man/predict.cgam.Rd | 8 man/shapes.Rd | 2 11 files changed, 698 insertions(+), 135 deletions(-)
Title: Read and Write Sparse Matrices in 'SVMLight' and 'LibSVM'
Formats
Description: Read and write labelled sparse matrices in text format as used by
software such as 'SVMLight', 'LibSVM', 'ThunderSVM', 'LibFM', 'xLearn', 'XGBoost', 'LightGBM',
and others. Supports labelled data for regression, classification (binary, multi-class, multi-label),
and ranking (with 'qid' field), and can handle header metadata and comments in files.
Author: David Cortes [aut, cre, cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between readsparse versions 0.1.5-6 dated 2023-11-27 and 0.1.5-8 dated 2025-02-17
DESCRIPTION | 14 +++++++++----- MD5 | 14 +++++++------- R/RcppExports.R | 4 ++++ R/read_sparse.R | 4 +++- man/read.sparse.Rd | 2 ++ src/RcppExports.cpp | 10 ++++++++++ src/Rwrapper.cpp | 10 ++++++++++ tests/testthat/test-read-write.R | 20 ++++++++++++++++++++ 8 files changed, 65 insertions(+), 13 deletions(-)
Title: Processing Proteomics Data, Statistical Analysis and
Visualization
Description: The 'Proteomics Eye' ('ProtE') offers a comprehensive and intuitive framework for the univariate analysis of label-free proteomics data. By integrating essential data wrangling and processing steps into a single function, 'ProtE' streamlines pairwise statistical comparisons for categorical variables. It provides quality checks and generates publication-ready visualizations, enabling efficient and robust data analysis. 'ProtE' is compatible with proteomics data outputs from 'MaxQuant' (Cox & Mann, (2008) <doi:10.1038/nbt.1511>), 'DIA-NN' (Demichev et al., (2020) <doi:10.1038/s41592-019-0638-x>), and 'Proteome Discoverer' (Thermo Fisher Scientific, version 2.5). The package leverages 'ggplot2' for visualization (Wickham, (2016) <doi:10.1007/978-3-319-24277-4>) and 'limma' for statistical analysis (Ritchie et al., (2015) <doi:10.1093/nar/gkv007>).
Author: Theodoros Margelos [aut, cre, cph],
Rafael Stroggilos [ctb, cph]
Maintainer: Theodoros Margelos <ted.margelos02@gmail.com>
Diff between ProtE versions 1.0.1 dated 2025-01-15 and 1.0.2 dated 2025-02-17
DESCRIPTION | 14 +- MD5 | 38 ++--- NAMESPACE | 11 - NEWS.md | 4 R/DIAnn.R | 176 ++++++++++--------------- R/max_quant.R | 103 +++++++++----- R/new_vers_PD.R | 117 ++++++++-------- R/path_res.R | 124 ++++++++++------- README.md | 18 +- inst/doc/Workflow.Rmd | 8 - inst/doc/Workflow.html | 18 +- inst/doc/informations.Rmd | 14 +- inst/doc/informations.html | 20 +- inst/extdata/report.pg_matrix.tsv | 262 +++++++++++++++++++------------------- man/dianno.Rd | 9 + man/maximum_quantum.Rd | 8 + man/pd_multi.Rd | 17 ++ man/pd_single.Rd | 7 - vignettes/Workflow.Rmd | 8 - vignettes/informations.Rmd | 14 +- 20 files changed, 525 insertions(+), 465 deletions(-)
More information about UAHDataScienceUC at CRAN
Permanent link
Title: Make PX-Files in R
Description: Create PX-files from scratch or read and modify existing ones.
Includes a function for every PX keyword, making metadata manipulation
simple and human-readable.
Author: Johan Ejstrud [cre, aut],
Lars Pedersen [aut],
Statistics Greenland [cph]
Maintainer: Johan Ejstrud <johan@ejstrud.com>
Diff between pxmake versions 0.14.2 dated 2025-01-22 and 0.15.1 dated 2025-02-17
DESCRIPTION | 12 MD5 | 80 +-- NEWS.md | 22 R/classification.R | 28 - R/data.R | 1 R/data_df.R | 30 - R/documentation.R | 4 R/excel.R | 49 +- R/helper_functions.R | 11 R/metadata_df.R | 1 R/modify_helpers.R | 44 + R/modify_languages.R | 11 R/modify_variable1.R | 4 R/note_warning_error.R | 21 R/px.R | 32 + R/px_base_tables.R | 39 + R/px_file.R | 63 +- R/r_script.R |only README.md | 484 ++++++++++---------- build/vignette.rds |binary data/px_keywords.rda |binary inst/doc/first-px-file.html | 42 - inst/doc/micro-files.R | 8 inst/doc/micro-files.html | 26 - inst/extdata |only man/convert_df_to_code.Rd |only man/convert_value_to_code.Rd |only man/px.Rd | 19 man/px_classification.Rd | 28 - man/px_keywords.Rd | 1 man/px_save.Rd | 9 man/save_px_as_r_script.Rd |only man/save_px_as_xlsx.Rd | 5 man/validate_px_arguments.Rd | 13 man/validate_px_save_arguments.Rd | 6 tests/testthat/fixtures/px/multilingual_no_codes.px |only tests/testthat/test-50-px.R | 7 tests/testthat/test-51-pxsave.R | 9 tests/testthat/test-52-px-ordering.R |only tests/testthat/test-53-pxjob-px-pxsave.R | 1 tests/testthat/test-55-modify-cells1.R | 22 tests/testthat/test-55-modify-cells2.R | 11 tests/testthat/test-74-pxsave-to-R-preserves.R |only tests/testthat/test-91-micromake.R | 6 44 files changed, 697 insertions(+), 452 deletions(-)
Title: Optimal Policy Learning
Description: Provides functions for optimal policy learning in socioeconomic applications helping users to learn the most effective policies based
on data in order to maximize empirical welfare. Specifically, 'OPL' allows to find "treatment assignment rules" that maximize the overall
welfare, defined as the sum of the policy effects estimated over all the policy beneficiaries. Documentation about 'OPL' is provided by
several international articles via Athey et al (2021, <doi:10.3982/ECTA15732>), Kitagawa et al (2018, <doi:10.3982/ECTA13288>),
Cerulli (2022, <doi:10.1080/13504851.2022.2032577>), the paper by Cerulli (2021, <doi:10.1080/13504851.2020.1820939>)
and the book by Gareth et al (2013, <doi:10.1007/978-1-4614-7138-7>).
Author: Federico Brogi [aut, cre],
Barbara Guardabascio [aut],
Giovanni Cerulli [aut]
Maintainer: Federico Brogi <federicobrogi@gmail.com>
Diff between OPL versions 1.0.0 dated 2025-02-03 and 1.0.1 dated 2025-02-17
DESCRIPTION | 8 - MD5 | 4 R/opl_lc_c.R | 400 +++++++++++++++++++++++++++++------------------------------ 3 files changed, 206 insertions(+), 206 deletions(-)
More information about UAHDataScienceSC at CRAN
Permanent link
Title: An Analyzer of International Large Scale Assessments in
Education
Description: An easy way to analyze international large-scale assessments and surveys in education or any other dataset that includes replicated weights (Balanced Repeated Replication (BRR) weights, Jackknife replicate weights,...) while also allowing for analysis with multiply imputed variables (plausible values). It supports the estimation of univariate statistics (e.g. mean, variance, standard deviation, quantiles), frequencies, correlation, linear regression and any other model already implemented in R that takes a data frame and weights as parameters. It also includes options to prepare the results for publication, following the table formatting standards of the Organization for Economic Cooperation and Development (OECD).
Author: Rodolfo Ilizaliturri [aut, cre],
Francesco Avvisati [aut],
Francois Keslair [aut]
Maintainer: Rodolfo Ilizaliturri <rodolfo.ilizaliturri@oecd.org>
Diff between Rrepest versions 1.5.2 dated 2025-02-10 and 1.5.3 dated 2025-02-17
DESCRIPTION | 16 ++++------------ MD5 | 10 ++++++---- NAMESPACE | 1 + R/average.R | 24 +++++++++++++++++++++--- R/coverage_column.R | 42 +++++++++++++++++++++++++++++++----------- R/coverage_daggers.R |only man/coverage_daggers.Rd |only 7 files changed, 63 insertions(+), 30 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-17 1.1.0
2021-09-16 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-10 0.3.0
2023-07-09 0.2.1
2023-06-04 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-01-27 0.2.1
2025-01-08 0.1.3
2024-11-08 0.1.2
2024-11-02 0.1.1
2024-10-03 0.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-30 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-05-03 0.2
2021-07-09 0.1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-28 1.1.9
2015-02-10 1.1.8
2013-07-09 1.1.7
2013-04-29 1.1.6
2013-03-02 1.1.0
2012-02-20 0.99.19
2012-02-08 0.99.18
2012-01-18 0.99.17
2011-12-02 0.99.15
2011-11-17 0.99.14
2011-11-15 0.99.13
2011-11-09 0.99.12
2011-11-04 0.99.11
2011-06-15 0.99.9
2011-06-07 0.99.8
2011-06-04 0.99.7
2011-04-24 0.99.6
2011-04-14 0.99.4
2011-04-12 0.99.2
2011-03-31 0.99.0
2011-03-07 0.9.3
2010-12-08 0.9.2
2010-09-29 0.9.1
2010-09-09 0.9.0
2010-05-19 0.1.6
2009-12-14 0.1.5
2009-11-13 0.1.3
2009-10-20 0.1.2
2009-07-24 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-28 0.1-7
2016-11-20 0.1-6
2016-09-04 0.1-5
2015-08-01 0.1-4
2015-07-11 0.1-3
2015-07-08 0.1-2
2014-05-13 0.1-1
2014-05-04 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-11 1.0.7
2023-01-27 1.0.6
2022-01-05 1.0.5
2021-09-20 1.0.4
2020-01-08 1.0.3
2019-08-30 1.0.1
2019-08-30 1.0.2
2019-08-28 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-31 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-08-29 0.4.47
Title: Enrichment Analysis Utilizing Active Subnetworks
Description: Enrichment analysis enables researchers to uncover mechanisms
underlying a phenotype. However, conventional methods for enrichment
analysis do not take into account protein-protein interaction information,
resulting in incomplete conclusions. 'pathfindR' is a tool for enrichment
analysis utilizing active subnetworks. The main function identifies active
subnetworks in a protein-protein interaction network using a user-provided
list of genes and associated p values. It then performs enrichment analyses
on the identified subnetworks, identifying enriched terms (i.e. pathways or,
more broadly, gene sets) that possibly underlie the phenotype of interest.
'pathfindR' also offers functionalities to cluster the enriched terms and
identify representative terms in each cluster, to score the enriched terms
per sample and to visualize analysis results. The enrichment, clustering and
other methods implemented in 'pathfindR' are described in detail in
Ulgen E, Ozisik O, Sezerman OU. 2019. 'pathfindR [...truncated...]
Author: Ege Ulgen [cre, cph] ,
Ozan Ozisik [aut]
Maintainer: Ege Ulgen <egeulgen@gmail.com>
Diff between pathfindR versions 2.4.1 dated 2024-05-04 and 2.4.2 dated 2025-02-17
DESCRIPTION | 20 +-- MD5 | 52 ++++---- NEWS.md | 7 + R/active_snw_search.R | 2 R/data_generation.R | 6 - R/utility.R | 2 R/visualization.R | 6 - build/vignette.rds |binary inst/doc/comparing_results.R | 20 +-- inst/doc/comparing_results.html | 10 - inst/doc/intro_vignette.R | 190 +++++++++++++++---------------- inst/doc/intro_vignette.html | 194 +++++++++++++++----------------- inst/doc/manual_execution.R | 124 ++++++++++---------- inst/doc/manual_execution.html | 12 +- inst/doc/non_hs_analysis.R | 160 +++++++++++++------------- inst/doc/non_hs_analysis.html | 203 ++++++++++++++++++++++++---------- inst/doc/obtain_data.R | 64 +++++----- inst/doc/obtain_data.Rmd | 4 inst/doc/obtain_data.html | 46 ++++--- inst/doc/visualization_vignette.R | 98 ++++++++-------- inst/doc/visualization_vignette.html | 26 ++-- man/active_snw_search.Rd | 2 man/get_gene_sets_list.Rd | 4 man/get_mgsigdb_gsets.Rd | 2 man/input_processing.Rd | 2 tests/testthat/test-data_generation.R | 16 +- vignettes/obtain_data.Rmd | 4 27 files changed, 685 insertions(+), 591 deletions(-)
Title: Analysis of Spatial Stratified Heterogeneity
Description: Analyzing spatial factors and exploring spatial associations based on the concept of spatial stratified heterogeneity, while also taking into account local spatial dependencies, spatial interpretability, complex spatial interactions, and robust spatial stratification. Additionally, it supports the spatial stratified heterogeneity family established in academic literature.
Author: Wenbo Lv [aut, cre, cph] ,
Yangyang Lei [aut] ,
Fangmei Liu [aut] ,
Jianwu Yan [aut] ,
Yongze Song [aut] ,
Wufan Zhao [aut]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between gdverse versions 1.3-1 dated 2024-12-14 and 1.3-2 dated 2025-02-17
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Title: Super Learner for Survival Prediction from Censored Data
Description: Several functions and S3 methods to construct a super learner in the presence of censored times-to-event and to evaluate its prognostic capacities.
Author: Yohann Foucher [aut, cre] ,
Camille Sabathe [aut]
Maintainer: Yohann Foucher <yohann.foucher@univ-poitiers.fr>
Diff between survivalSL versions 0.97 dated 2025-01-29 and 0.97.1 dated 2025-02-17
DESCRIPTION | 6 +- MD5 | 46 ++++++++--------- R/LIB_AFTgamma.R | 2 R/LIB_AFTggamma.R | 2 R/LIB_AFTllogis.R | 2 R/LIB_AFTweibull.R | 2 R/LIB_COXall.R | 2 R/LIB_PHexponential.R | 2 R/LIB_PHgompertz.R | 2 R/LIB_PHspline.R | 2 R/survivalSL.R | 131 ++++++++++++++++++++++++++++---------------------- R/tuneCOXen.R | 15 ++++- R/tuneCOXlasso.R | 17 ++++-- R/tuneCOXridge.R | 14 ++++- R/tunePHspline.R | 9 ++- R/tunePLANN.R | 8 ++- R/tuneSNN.R | 8 ++- man/survivalSL.Rd | 11 ++-- man/tuneCOXen.Rd | 11 ++-- man/tuneCOXlasso.Rd | 12 ++-- man/tuneCOXridge.Rd | 7 +- man/tunePHspline.Rd | 5 + man/tunePLANN.Rd | 5 + man/tuneSNN.Rd | 7 +- 24 files changed, 197 insertions(+), 131 deletions(-)
Title: Emax Model Analysis with 'Stan'
Description: Perform sigmoidal Emax model fit using 'Stan' in a formula notation, without writing 'Stan' model code.
Author: Kenta Yoshida [aut, cre] ,
Danielle Navarro [aut] ,
Trustees of Columbia University [cph]
Maintainer: Kenta Yoshida <yoshida.kenta.6@gmail.com>
Diff between rstanemax versions 0.1.8 dated 2025-02-05 and 0.1.9 dated 2025-02-17
DESCRIPTION | 8 +- MD5 | 34 ++++---- NAMESPACE | 7 + NEWS.md | 6 + R/log_lik.R |only R/posterior_predict.R | 62 ++++++++++------ R/rstanemax-package.R | 1 R/yyy.R | 5 + README.md | 33 +++++--- build/vignette.rds |binary inst/doc/emaxmodel.html | 108 ++++++++++++++-------------- man/figures/README-unnamed-chunk-3-1.png |binary man/log_lik.Rd |only man/posterior_predict.Rd | 12 ++- src/Makevars.win |only tests/testthat/test-log_lik.R |only tests/testthat/test-set_prior.R | 6 - tests/testthat/test-stan_emax.R | 4 + tests/testthat/test-stan_emax_binary.R | 9 ++ tests/testthat/test-tidybayes_integration.R | 16 +--- 20 files changed, 180 insertions(+), 131 deletions(-)
Title: Fit Log-Ratio Lasso Regression for Compositional Data
Description: Log-ratio Lasso regression for continuous, binary, and survival outcomes with (longitudinal) compositional features. See Fei and others (2024) <doi:10.1016/j.crmeth.2024.100899>.
Author: Teng Fei [aut, cre, cph] ,
Tyler Funnell [aut] ,
Nicholas Waters [aut] ,
Sandeep Raj [aut]
Maintainer: Teng Fei <feit1@mskcc.org>
Diff between FLORAL versions 0.3.0 dated 2024-08-20 and 0.4.0 dated 2025-02-17
DESCRIPTION | 14 MD5 | 53 NAMESPACE | 77 NEWS.md | 10 R/FLORAL.R | 2280 +++++----- R/LogRatioGEE.R | 111 R/RcppExports.R | 94 R/coxsplit.R | 43 R/simu.R | 1032 ++-- R/utils.R |only README.md | 364 - build/vignette.rds |binary inst/WORDLIST | 86 inst/doc/Using-FLORAL-for-Microbiome-Analysis.R | 162 inst/doc/Using-FLORAL-for-Microbiome-Analysis.Rmd | 322 - inst/doc/Using-FLORAL-for-Microbiome-Analysis.html | 1212 ++--- inst/doc/Using-FLORAL-for-survival-models-with-longitudinal-microbiome-data.R | 78 inst/doc/Using-FLORAL-for-survival-models-with-longitudinal-microbiome-data.html | 885 +-- inst/doc/Using-FLORAL-with-phyloseq.R |only inst/doc/Using-FLORAL-with-phyloseq.Rmd |only inst/doc/Using-FLORAL-with-phyloseq.html |only man/FLORAL.Rd | 9 man/a.FLORAL.Rd | 3 man/mcv.FLORAL.Rd | 3 man/phy_to_floral_data.Rd |only man/simu.Rd | 20 src/pgee.cpp | 34 tests/spelling.R | 6 tests/testthat/test-utils.R |only vignettes/Using-FLORAL-for-Microbiome-Analysis.Rmd | 322 - vignettes/Using-FLORAL-with-phyloseq.Rmd |only 31 files changed, 3759 insertions(+), 3461 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD, Extra
Support Functions
Description: Fit and compare nonlinear mixed-effects models in
differential equations with flexible dosing information commonly seen
in pharmacokinetics and pharmacodynamics (Almquist, Leander, and
Jirstrand 2015 <doi:10.1007/s10928-015-9409-1>). Differential equation
solving is by compiled C code provided in the 'rxode2' package (Wang,
Hallow, and James 2015 <doi:10.1002/psp4.12052>). This package is for
support functions like preconditioned fits
<doi:10.1208/s12248-016-9866-5>, boostrap and stepwise covariate
selection.
Author: Matthew Fidler [aut, cre] ,
Vipul Mann [aut],
Vishal Sarsani [aut] ,
Christian Bartels [ctb],
Bill Denney [aut]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between nlmixr2extra versions 3.0.1 dated 2024-10-29 and 3.0.2 dated 2025-02-17
DESCRIPTION | 6 - MD5 | 14 +-- NEWS.md | 4 R/computingutil.R | 12 ++ R/profile.R | 11 ++ README.md | 223 +++++----------------------------------------------- inst/tools/build.R | 20 +++- man/profileFixed.Rd | 3 8 files changed, 70 insertions(+), 223 deletions(-)