Title: Applicability Domain Methods of Viral Load and CD4 Lymphocytes
Description: Provides methods for assessing the applicability domain of models that predict viral load and CD4 (Cluster of Differentiation 4) lymphocyte counts. These methods help determine the extent of extrapolation when making predictions.
Author: Juan Pablo Acuna Gonzalez [aut, cre]
Maintainer: Juan Pablo Acuna Gonzalez <acua6307@gmail.com>
Diff between viraldomain versions 0.0.5 dated 2024-08-17 and 0.0.6 dated 2024-10-17
DESCRIPTION | 6 - MD5 | 23 ++- NEWS.md | 4 README.md | 59 +++++----- data/sero.rda |binary data/viral.rda |binary man/figures/README-simp-1.png |binary tests/testthat/_snaps/knn_domain_score.md | 20 +-- tests/testthat/_snaps/mars_domain_score.md | 20 +-- tests/testthat/_snaps/nn_domain_score.md | 20 +-- tests/testthat/_snaps/normalized_domain_plot |only tests/testthat/_snaps/rf_domain_score.md | 20 +-- tests/testthat/_snaps/simple_domain_plot/simple-domain-plot.svg | 20 +-- 13 files changed, 99 insertions(+), 93 deletions(-)
Title: Toolbox for WELL Random Number Generators
Description: It is a dedicated package to WELL pseudo random generators,
which were introduced in Panneton et al. (2006), ``Improved Long-Period
Generators Based on Linear Recurrences Modulo 2'', see <doi:10.1145/1132973.1132974>.
But this package is not intended to be used directly, you are strongly __encouraged__
to use the 'randtoolbox' package, which depends on this package.
Author: Christophe Dutang [aut, cre] ,
Petr Savicky [aut],
F. Panneton [ctb] ,
P. L'Ecuyer [ctb] ,
M. Matsumoto [ctb]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between rngWELL versions 0.10-9 dated 2023-01-16 and 0.10-10 dated 2024-10-17
DESCRIPTION | 21 +++++++++++++++------ MD5 | 15 ++++++++------- README.md |only configure | 20 ++++++++++---------- configure.ac | 2 +- inst/CITATION | 2 +- inst/NEWS | 4 ++++ src/config.h | 4 ++-- src/version.c | 2 +- 9 files changed, 42 insertions(+), 28 deletions(-)
Title: Maxwell Boltzmann Bose Einstein Fermi Dirac Distribution and
Destruction Rate Modelling
Description: Distributions that are typically used for exposure rating in
general insurance, in particular to price reinsurance contracts.
The vignette shows code snippets to fit the distribution to
empirical data. See, e.g., Bernegger (1997) <doi:10.2143/AST.27.1.563208>
freely available on-line.
Author: Christophe Dutang [aut, cre] ,
Giorgio Spedicato [aut] ,
Markus Gesmann [ctb]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between mbbefd versions 0.8.11 dated 2023-08-28 and 0.8.12 dated 2024-10-17
mbbefd-0.8.11/mbbefd/ChangeLog |only mbbefd-0.8.12/mbbefd/DESCRIPTION | 6 +- mbbefd-0.8.12/mbbefd/MD5 | 15 +++---- mbbefd-0.8.12/mbbefd/README.md | 8 +++ mbbefd-0.8.12/mbbefd/build/partial.rdb |binary mbbefd-0.8.12/mbbefd/build/vignette.rds |binary mbbefd-0.8.12/mbbefd/inst/NEWS.Rd | 7 +++ mbbefd-0.8.12/mbbefd/inst/doc/Introduction_to_mbbefd.pdf |binary mbbefd-0.8.12/mbbefd/man/fitDR.Rd | 32 +++++++-------- 9 files changed, 41 insertions(+), 27 deletions(-)
Title: Implements the Leiden Algorithm via an R Interface
Description: An R interface to the Leiden algorithm, an iterative community detection algorithm on networks. The algorithm is designed to converge to a partition in which all subsets of all communities are locally optimally assigned, yielding communities guaranteed to be connected. The implementation proves to be fast, scales well, and can be run on graphs of millions of nodes (as long as they can fit in memory). The original implementation was constructed as a python interface "leidenalg" found here: <https://github.com/vtraag/leidenalg>. The algorithm was originally described in Traag, V.A., Waltman, L. & van Eck, N.J. "From Louvain to Leiden: guaranteeing well-connected communities". Sci Rep 9, 5233 (2019) <doi:10.1038/s41598-019-41695-z>.
Author: Peter Kharchenko [aut],
Viktor Petukhov [aut],
Yichen Wang [aut],
V.A. Traag [ctb],
Gabor Csardi [ctb],
Tamas Nepusz [ctb],
Minh Van Nguyen [ctb],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between leidenAlg versions 1.1.3 dated 2024-02-27 and 1.1.4 dated 2024-10-17
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- src/rigraph/vendor/arpack/dmout.f | 2 +- src/rigraph/vendor/arpack/dngets.f | 2 +- src/rigraph/vendor/arpack/dsesrt.f | 2 +- src/rigraph/vendor/arpack/dsgets.f | 2 +- src/rigraph/vendor/arpack/dsortc.f | 2 +- src/rigraph/vendor/arpack/dsortr.f | 2 +- src/rigraph/vendor/arpack/dvout.f | 2 +- src/rigraph/vendor/arpack/ivout.f | 2 +- src/rigraph/vendor/arpack/second.f | 16 ++++++++++++---- src/rigraph/vendor/arpack/wrap.f | 4 ++-- 12 files changed, 36 insertions(+), 28 deletions(-)
Title: Bayesian Networks
Description: Probability propagation in Bayesian networks, also known as graphical independence networks. Documentation
of the package is provided in vignettes included in the package and in
the paper by Højsgaard (2012, <doi:10.18637/jss.v046.i10>).
See 'citation("gRain")' for details.
Author: Soeren Hoejsgaard [aut, cre]
Maintainer: Soeren Hoejsgaard <sorenh@math.aau.dk>
Diff between gRain versions 1.4.4 dated 2024-10-10 and 1.4.5 dated 2024-10-17
DESCRIPTION | 8 ++--- MD5 | 36 ++++++++++++------------- NEWS | 12 ++++++++ R/cpt_pot_extract.R | 8 ----- R/cpt_pot_gather.R | 16 +---------- R/evidence.R | 15 +--------- R/evidence_objects.R | 4 -- R/grain_internal.R | 9 ------ R/grain_main.R | 3 -- R/querygrain.R | 12 ++------ inst/doc/grain.pdf |binary vignettes/figures/grain-bn1-1.png |binary vignettes/figures/grain-bn2-1.png |binary vignettes/figures/grain-chest-LS-1.png |binary vignettes/figures/grain-unnamed-chunk-35-1.png |binary vignettes/figures/grain-unnamed-chunk-36-1.png |binary vignettes/figures/grain-unnamed-chunk-39-1.png |binary vignettes/figures/grain-unnamed-chunk-53-1.png |binary vignettes/grain.html | 18 ++++++------ 19 files changed, 52 insertions(+), 89 deletions(-)
Title: Load US Census Boundary and Attribute Data as 'tidyverse' and
'sf'-Ready Data Frames
Description: An integrated R interface to several United States Census Bureau
APIs (<https://www.census.gov/data/developers/data-sets.html>) and the US Census Bureau's
geographic boundary files. Allows R users to return Census and ACS data as
tidyverse-ready data frames, and optionally returns a list-column with feature geometry for mapping
and spatial analysis.
Author: Kyle Walker [aut, cre],
Matt Herman [aut],
Kris Eberwein [ctb]
Maintainer: Kyle Walker <kyle@walker-data.com>
Diff between tidycensus versions 1.6.6 dated 2024-09-20 and 1.6.7 dated 2024-10-17
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/estimates.R | 2 +- R/load_data.R | 16 ++++++++++++---- R/pums.R | 8 +++++++- data/pums_variables.rda |binary man/pums_variables.Rd | 2 +- 7 files changed, 31 insertions(+), 17 deletions(-)
Title: Copula Mixed Models for Multivariate Meta-Analysis of Diagnostic
Test Accuracy Studies
Description: The bivariate copula mixed model for meta-analysis of diagnostic test accuracy studies in Nikoloulopoulos (2015) <doi:10.1002/sim.6595> and Nikoloulopoulos (2018) <doi:10.1007/s10182-017-0299-y>. The vine copula mixed model for meta-analysis of diagnostic test accuracy studies accounting for disease prevalence in Nikoloulopoulos (2017) <doi:10.1177/0962280215596769> and also accounting for non-evaluable subjects in Nikoloulopoulos (2020) <doi:10.1515/ijb-2019-0107>. The hybrid vine copula mixed model for meta-analysis of diagnostic test accuracy case-control and cohort studies in Nikoloulopoulos (2018) <doi:10.1177/0962280216682376>. The D-vine copula mixed model for meta-analysis and comparison of two diagnostic tests in Nikoloulopoulos (2019) <doi:10.1177/0962280218796685>. The multinomial quadrivariate D-vine copula mixed model for meta-analysis of diagnostic tests with non-evaluable subjects in Nikoloulopoulos (2020) <doi:10.1177/0962280220913 [...truncated...]
Author: Aristidis K. Nikoloulopoulos [aut, cre]
Maintainer: Aristidis K. Nikoloulopoulos <A.Nikoloulopoulos@uea.ac.uk>
Diff between CopulaREMADA versions 1.6.2 dated 2024-04-08 and 1.7.3 dated 2024-10-17
CopulaREMADA-1.6.2/CopulaREMADA/INDEX |only CopulaREMADA-1.7.3/CopulaREMADA/DESCRIPTION | 18 ++- CopulaREMADA-1.7.3/CopulaREMADA/MD5 | 46 ++++++---- CopulaREMADA-1.7.3/CopulaREMADA/NAMESPACE | 14 ++- CopulaREMADA-1.7.3/CopulaREMADA/R/imperfect.CopulaREMADA.R |only CopulaREMADA-1.7.3/CopulaREMADA/R/imperfect.REMADA.R |only CopulaREMADA-1.7.3/CopulaREMADA/R/imperfect.fivevariateVineCopulaREMADA.R |only CopulaREMADA-1.7.3/CopulaREMADA/R/imperfect.quadrivariateVineCopulaREMADA.R |only CopulaREMADA-1.7.3/CopulaREMADA/R/imperfect.trivariateVineCopulaREMADA.R |only CopulaREMADA-1.7.3/CopulaREMADA/R/rimperfect.trivariateVineCopulaREMADA.R |only CopulaREMADA-1.7.3/CopulaREMADA/data/Pap.rda |only CopulaREMADA-1.7.3/CopulaREMADA/data/mgrid5d15.rda |only CopulaREMADA-1.7.3/CopulaREMADA/data/mgrid5d30.rda |only CopulaREMADA-1.7.3/CopulaREMADA/man/CopulaREMADA-package.Rd | 12 +- CopulaREMADA-1.7.3/CopulaREMADA/man/CopulaREMADA.Rd | 2 CopulaREMADA-1.7.3/CopulaREMADA/man/FactorCopulaREMADA.Rd | 2 CopulaREMADA-1.7.3/CopulaREMADA/man/Pap.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/VineCopulaREMADA.Rd | 3 CopulaREMADA-1.7.3/CopulaREMADA/man/Vuong.Rd | 2 CopulaREMADA-1.7.3/CopulaREMADA/man/dvine6dsim.Rd | 2 CopulaREMADA-1.7.3/CopulaREMADA/man/hybridCopulaREMADA.Rd | 4 CopulaREMADA-1.7.3/CopulaREMADA/man/imperfect.CopulaREMADA.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/imperfect.REMADA.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/imperfect.fivevariateVineCopulaREMADA.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/imperfect.quadriateVineCopulaREMADA.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/imperfect.trivariateVineCopulaREMADA.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/mgrid.Rd | 2 CopulaREMADA-1.7.3/CopulaREMADA/man/mgrid5d.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/mutinom6dVineCopulaREMADA.Rd | 4 CopulaREMADA-1.7.3/CopulaREMADA/man/quadVineCopulaREMADA.Rd | 3 CopulaREMADA-1.7.3/CopulaREMADA/man/rimperfect.trivariateVineCopulaREMADA.Rd |only CopulaREMADA-1.7.3/CopulaREMADA/man/rmultinom6dVineCopulaREMADA.Rd | 2 CopulaREMADA-1.7.3/CopulaREMADA/man/vineVuong.Rd | 2 33 files changed, 78 insertions(+), 40 deletions(-)
Title: Variable Table for Variable Documentation
Description: Automatically generates HTML variable documentation including variable names, labels, classes, value labels (if applicable), value ranges, and summary statistics. See the vignette "vtable" for a package overview.
Author: Nick Huntington-Klein [aut, cre]
Maintainer: Nick Huntington-Klein <nhuntington-klein@seattleu.edu>
Diff between vtable versions 1.4.6 dated 2023-10-26 and 1.4.7 dated 2024-10-17
DESCRIPTION | 8 ++++---- MD5 | 36 ++++++++++++++++++------------------ NEWS.md | 4 ++++ R/helpers.R | 13 +++++++++++-- R/sumtable.R | 13 +++++++++---- build/vignette.rds |binary inst/doc/dftotable.R | 32 ++++++++++++++++---------------- inst/doc/dftotable.html | 6 +++--- inst/doc/labeltable.R | 4 ++-- inst/doc/labeltable.html | 6 +++--- inst/doc/sumtable.R | 14 +++++++------- inst/doc/sumtable.html | 6 +++--- inst/doc/vtable.html | 4 ++-- inst/doc/vtablefunction.R | 16 ++++++++-------- inst/doc/vtablefunction.html | 6 +++--- inst/doc/vtablehelpers.R | 2 +- inst/doc/vtablehelpers.html | 10 +++++----- man/sumtable.Rd | 6 +++++- man/weighted.sd.Rd | 4 +++- 19 files changed, 107 insertions(+), 83 deletions(-)
Title: Read, Write and Edit 'xlsx' Files
Description: Simplifies the creation of 'xlsx' files by
providing a high level interface to writing, styling and editing
worksheets.
Author: Jordan Mark Barbone [aut] ,
Jan Marvin Garbuszus [aut, cre],
Olivier Roy [ctb],
openxlsx authors [cph] ,
Arseny Kapoulkine [ctb, cph]
Maintainer: Jan Marvin Garbuszus <jan.garbuszus@ruhr-uni-bochum.de>
Diff between openxlsx2 versions 1.9 dated 2024-09-08 and 1.10 dated 2024-10-17
DESCRIPTION | 6 MD5 | 119 ++-- NAMESPACE | 2 NEWS.md | 37 + R/asserts.R | 5 R/baseXML.R | 15 R/class-chart-sheet.R | 1 R/class-hyperlink.R | 75 +- R/class-workbook-wrappers.R | 82 ++ R/class-workbook.R | 740 +++++++++++++++++--------- R/class-worksheet.R | 12 R/get-named-regions.R | 9 R/helper-functions.R | 5 R/read.R | 73 ++ R/utils.R | 10 R/wb_load.R | 48 - R/write.R | 25 inst/AUTHORS | 1 inst/WORDLIST | 2 man/base_font-wb.Rd | 1 man/col_widths-wb.Rd | 2 man/create_hyperlink.Rd | 3 man/creators-wb.Rd | 1 man/filter-wb.Rd | 1 man/grouping-wb.Rd | 3 man/named_region-wb.Rd | 1 man/row_heights-wb.Rd | 2 man/wbWorkbook.Rd | 75 ++ man/wb_add_chartsheet.Rd | 1 man/wb_add_conditional_formatting.Rd | 1 man/wb_add_data.Rd | 2 man/wb_add_data_table.Rd | 2 man/wb_add_formula.Rd | 19 man/wb_add_hyperlink.Rd |only man/wb_add_image.Rd | 3 man/wb_add_pivot_table.Rd | 2 man/wb_add_slicer.Rd | 2 man/wb_add_thread.Rd | 1 man/wb_add_worksheet.Rd | 1 man/wb_base_colors.Rd | 1 man/wb_clean_sheet.Rd | 5 man/wb_clone_worksheet.Rd | 1 man/wb_copy_cells.Rd | 1 man/wb_freeze_pane.Rd | 2 man/wb_merge_cells.Rd | 2 man/wb_save.Rd | 1 man/wb_set_last_modified_by.Rd | 1 man/wb_to_df.Rd | 12 man/wb_workbook.Rd | 1 src/write_file.cpp | 23 tests/testthat/helper.R | 15 tests/testthat/test-class-hyperlink.R | 106 +++ tests/testthat/test-class-workbook-wrappers.R | 12 tests/testthat/test-cloneWorksheet.R | 57 +- tests/testthat/test-formulas.R | 33 + tests/testthat/test-read_sources.R | 43 + tests/testthat/test-read_xlsb.R | 2 tests/testthat/test-save.R | 2 tests/testthat/test-tables.R | 75 ++ tests/testthat/test-utils.R | 23 tests/testthat/test-write.R | 96 +++ 61 files changed, 1449 insertions(+), 455 deletions(-)
Title: Highlight Conserved Edits Across Versions of a Document
Description: Input multiple versions of a source document,
and receive HTML code for a highlighted version of the source document
indicating the frequency of occurrence of phrases in the different versions.
This method is described in Chapter 3 of
Rogers (2024) <https://digitalcommons.unl.edu/dissertations/AAI31240449/>.
Author: Center for Statistics and Applications in Forensic Evidence [aut, cph,
fnd],
Rachel Rogers [aut, cre] ,
Susan VanderPlas [aut]
Maintainer: Rachel Rogers <rrogers.rpackages@gmail.com>
Diff between highlightr versions 1.0.0 dated 2024-07-31 and 1.0.2 dated 2024-10-17
DESCRIPTION | 8 MD5 | 50 - NEWS.md | 10 R/collocate_comments.R | 4 R/collocate_comments_fuzzy.R | 2 R/data.R | 2 R/token_comments.R | 6 R/token_transcript.R | 6 R/transcript_frequency.R | 8 README.md | 5 data/comment_example.rda |binary data/transcript_example.rda |binary inst/doc/highlightr.Rmd | 8 inst/doc/highlightr.html | 96 +- inst/doc/wikipedia-highlighter.R | 2 inst/doc/wikipedia-highlighter.Rmd | 2 inst/doc/wikipedia-highlighter.html | 1102 +++++++++++++------------ man/collocate_comments.Rd | 2 man/transcript_example.Rd | 2 tests/testthat/test-collocate_comments.R | 6 tests/testthat/test-collocate_comments_fuzzy.R | 3 tests/testthat/test-token_comments.R | 41 tests/testthat/test-token_transcript.R | 36 tests/testthat/test-transcript_frequency.R | 101 ++ vignettes/highlightr.Rmd | 8 vignettes/wikipedia-highlighter.Rmd | 2 26 files changed, 893 insertions(+), 619 deletions(-)
Title: Landscape Meteorology Tools
Description: Functions to estimate weather variables at any position of a landscape [De Caceres et al. (2018) <doi:10.1016/j.envsoft.2018.08.003>].
Author: Miquel De Caceres [aut, cre] ,
Victor Granda [aut] ,
Nicolas Martin [aut] ,
Antoine Cabon [aut]
Maintainer: Miquel De Caceres <miquelcaceres@gmail.com>
Diff between meteoland versions 2.2.1 dated 2023-11-29 and 2.2.2 dated 2024-10-17
DESCRIPTION | 14 +- MD5 | 19 +-- NEWS.md | 8 - R/tidy_assertions.R | 3 R/tidy_interpolator.R | 36 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/reshaping-meteo.html | 76 +++++++------- inst/doc/tidy-meteoland.html | 222 +++++++++++++++++++++--------------------- man/figures |only man/meteoland-package.Rd | 1 11 files changed, 192 insertions(+), 187 deletions(-)
Title: Robust Statistics: Theory and Methods
Description: Companion package for the book: "Robust Statistics: Theory and Methods, second edition", <http://www.wiley.com/go/maronna/robust>. This package contains code that implements the robust estimators discussed in the recent second edition of the book above, as well as the scripts reproducing all the examples in the book.
Author: Matias Salibian-Barrera [cre],
Victor Yohai [aut],
Ricardo Maronna [aut],
Doug Martin [aut],
Gregory Brownson [aut] ,
Kjell Konis [aut],
Kjell Konis [cph] ,
Christophe Croux [ctb] ,
Gentiane Haesbroeck [ctb] ,
Martin Maechler [cph] ,
Manuel Koller [c [...truncated...]
Maintainer: Matias Salibian-Barrera <matias@stat.ubc.ca>
Diff between RobStatTM versions 1.0.8 dated 2023-11-27 and 1.0.11 dated 2024-10-17
RobStatTM-1.0.11/RobStatTM/.Rinstignore | 2 RobStatTM-1.0.11/RobStatTM/DESCRIPTION | 10 RobStatTM-1.0.11/RobStatTM/MD5 | 268 RobStatTM-1.0.11/RobStatTM/NAMESPACE | 124 RobStatTM-1.0.11/RobStatTM/NEWS.md | 173 RobStatTM-1.0.11/RobStatTM/R/BYlogreg.R | 632 - RobStatTM-1.0.11/RobStatTM/R/DCML.R | 789 - RobStatTM-1.0.11/RobStatTM/R/INVTR2.R | 144 RobStatTM-1.0.11/RobStatTM/R/KurtSDNew.R | 1608 +-- RobStatTM-1.0.11/RobStatTM/R/MLocDis.R | 308 RobStatTM-1.0.11/RobStatTM/R/Multirobu.R | 1736 +-- RobStatTM-1.0.11/RobStatTM/R/RFPE.R | 786 - RobStatTM-1.0.11/RobStatTM/R/RobPCA_SM.R | 176 RobStatTM-1.0.11/RobStatTM/R/WBYlogreg.R | 646 - RobStatTM-1.0.11/RobStatTM/R/WMLlogreg.R | 218 RobStatTM-1.0.11/RobStatTM/R/alcohol.R | 58 RobStatTM-1.0.11/RobStatTM/R/algae.R | 58 RobStatTM-1.0.11/RobStatTM/R/biochem.R | 34 RobStatTM-1.0.11/RobStatTM/R/breslow.dat.R | 88 RobStatTM-1.0.11/RobStatTM/R/bus.R | 82 RobStatTM-1.0.11/RobStatTM/R/fastmve.R | 108 RobStatTM-1.0.11/RobStatTM/R/flour.R | 40 RobStatTM-1.0.11/RobStatTM/R/glass.R | 58 RobStatTM-1.0.11/RobStatTM/R/hearing.R | 72 RobStatTM-1.0.11/RobStatTM/R/image.R | 38 RobStatTM-1.0.11/RobStatTM/R/leuk.dat.R | 52 RobStatTM-1.0.11/RobStatTM/R/lmrob.MM.R | 2795 +++--- RobStatTM-1.0.11/RobStatTM/R/lmrob.lar.R | 194 RobStatTM-1.0.11/RobStatTM/R/lmrobdet.R | 2992 +++--- RobStatTM-1.0.11/RobStatTM/R/mineral.R | 42 RobStatTM-1.0.11/RobStatTM/R/neuralgia.R | 32 RobStatTM-1.0.11/RobStatTM/R/oats.R | 38 RobStatTM-1.0.11/RobStatTM/R/prcompRob.R | 206 RobStatTM-1.0.11/RobStatTM/R/psiFunUtils.R | 726 - RobStatTM-1.0.11/RobStatTM/R/psiFuns.R | 612 - RobStatTM-1.0.11/RobStatTM/R/resex.R | 42 RobStatTM-1.0.11/RobStatTM/R/shock.R | 46 RobStatTM-1.0.11/RobStatTM/R/skin.R | 44 RobStatTM-1.0.11/RobStatTM/R/stackloss.R | 50 RobStatTM-1.0.11/RobStatTM/R/utils.R | 60 RobStatTM-1.0.11/RobStatTM/R/vehicle.R | 78 RobStatTM-1.0.11/RobStatTM/R/waste.R | 64 RobStatTM-1.0.11/RobStatTM/R/wine.R | 66 RobStatTM-1.0.11/RobStatTM/build/vignette.rds |binary RobStatTM-1.0.11/RobStatTM/inst/doc/OptimalBiasRobustRegressionPsiandRho.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/inst/doc/PolynomialOptandmOptRhoFunctions.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/inst/doc/VignetteRobStatTM.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/inst/doc/fitmodelsusingRobStatTM.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/inst/scripts/ExactFit.R | 78 RobStatTM-1.0.11/RobStatTM/inst/scripts/MA1-AO.R | 82 RobStatTM-1.0.11/RobStatTM/inst/scripts/VignetteRobStatTM.R | 256 RobStatTM-1.0.11/RobStatTM/inst/scripts/algae.R | 70 RobStatTM-1.0.11/RobStatTM/inst/scripts/ar1.R | 98 RobStatTM-1.0.11/RobStatTM/inst/scripts/ar3.R | 146 RobStatTM-1.0.11/RobStatTM/inst/scripts/autism.R | 162 RobStatTM-1.0.11/RobStatTM/inst/scripts/biochem.R | 78 RobStatTM-1.0.11/RobStatTM/inst/scripts/bus.R | 114 RobStatTM-1.0.11/RobStatTM/inst/scripts/epilepsy.R | 168 RobStatTM-1.0.11/RobStatTM/inst/scripts/fitmodelsRobStatTM.R | 106 RobStatTM-1.0.11/RobStatTM/inst/scripts/flour.R | 72 RobStatTM-1.0.11/RobStatTM/inst/scripts/identAR2.R | 134 RobStatTM-1.0.11/RobStatTM/inst/scripts/identMA1.R | 146 RobStatTM-1.0.11/RobStatTM/inst/scripts/leukemia.R | 136 RobStatTM-1.0.11/RobStatTM/inst/scripts/mineral.R | 188 RobStatTM-1.0.11/RobStatTM/inst/scripts/oats.R | 134 RobStatTM-1.0.11/RobStatTM/inst/scripts/resex.R | 130 RobStatTM-1.0.11/RobStatTM/inst/scripts/shock.R | 118 RobStatTM-1.0.11/RobStatTM/inst/scripts/skin.R | 126 RobStatTM-1.0.11/RobStatTM/inst/scripts/step.R | 86 RobStatTM-1.0.11/RobStatTM/inst/scripts/vehicle.R | 92 RobStatTM-1.0.11/RobStatTM/inst/scripts/wine.R | 82 RobStatTM-1.0.11/RobStatTM/inst/scripts/wine1.R | 208 RobStatTM-1.0.11/RobStatTM/inst/scripts/wood.R | 124 RobStatTM-1.0.11/RobStatTM/man/BYlogreg.Rd | 108 RobStatTM-1.0.11/RobStatTM/man/DCML.Rd | 82 RobStatTM-1.0.11/RobStatTM/man/INVTR2.Rd | 74 RobStatTM-1.0.11/RobStatTM/man/KurtSDNew.Rd | 104 RobStatTM-1.0.11/RobStatTM/man/MLocDis.Rd | 108 RobStatTM-1.0.11/RobStatTM/man/MMPY.Rd | 78 RobStatTM-1.0.11/RobStatTM/man/MMultiSHR.Rd | 100 RobStatTM-1.0.11/RobStatTM/man/Multirobu.Rd | 124 RobStatTM-1.0.11/RobStatTM/man/RockeMulti.Rd | 144 RobStatTM-1.0.11/RobStatTM/man/SMPCA.Rd | 104 RobStatTM-1.0.11/RobStatTM/man/SMPY.Rd | 82 RobStatTM-1.0.11/RobStatTM/man/WBYlogreg.Rd | 110 RobStatTM-1.0.11/RobStatTM/man/WMLlogreg.Rd | 90 RobStatTM-1.0.11/RobStatTM/man/alcohol.Rd | 74 RobStatTM-1.0.11/RobStatTM/man/algae.Rd | 76 RobStatTM-1.0.11/RobStatTM/man/biochem.Rd | 50 RobStatTM-1.0.11/RobStatTM/man/bisquare.Rd | 60 RobStatTM-1.0.11/RobStatTM/man/breslow.dat.Rd | 104 RobStatTM-1.0.11/RobStatTM/man/bus.Rd | 98 RobStatTM-1.0.11/RobStatTM/man/cov.dcml.Rd | 70 RobStatTM-1.0.11/RobStatTM/man/covClassic.Rd | 106 RobStatTM-1.0.11/RobStatTM/man/drop1.lmrobdetMM.Rd | 96 RobStatTM-1.0.11/RobStatTM/man/fastmve.Rd | 102 RobStatTM-1.0.11/RobStatTM/man/flour.Rd | 56 RobStatTM-1.0.11/RobStatTM/man/glass.Rd | 74 RobStatTM-1.0.11/RobStatTM/man/hearing.Rd | 88 RobStatTM-1.0.11/RobStatTM/man/huber.Rd | 60 RobStatTM-1.0.11/RobStatTM/man/image.Rd | 54 RobStatTM-1.0.11/RobStatTM/man/leuk.dat.Rd | 68 RobStatTM-1.0.11/RobStatTM/man/lmrobM.Rd | 212 RobStatTM-1.0.11/RobStatTM/man/lmrobM.control.Rd | 132 RobStatTM-1.0.11/RobStatTM/man/lmrobdet.control.Rd | 304 RobStatTM-1.0.11/RobStatTM/man/lmrobdetDCML.Rd | 212 RobStatTM-1.0.11/RobStatTM/man/lmrobdetMM.RFPE.Rd | 84 RobStatTM-1.0.11/RobStatTM/man/lmrobdetMM.Rd | 274 RobStatTM-1.0.11/RobStatTM/man/mineral.Rd | 58 RobStatTM-1.0.11/RobStatTM/man/mopt.Rd | 62 RobStatTM-1.0.11/RobStatTM/man/moptv0.Rd | 62 RobStatTM-1.0.11/RobStatTM/man/neuralgia.Rd | 50 RobStatTM-1.0.11/RobStatTM/man/oats.Rd | 56 RobStatTM-1.0.11/RobStatTM/man/opt.Rd | 62 RobStatTM-1.0.11/RobStatTM/man/optv0.Rd | 62 RobStatTM-1.0.11/RobStatTM/man/prcompRob.Rd | 82 RobStatTM-1.0.11/RobStatTM/man/refine.sm.Rd | 142 RobStatTM-1.0.11/RobStatTM/man/resex.Rd | 60 RobStatTM-1.0.11/RobStatTM/man/rho.Rd | 80 RobStatTM-1.0.11/RobStatTM/man/rhoprime.Rd | 74 RobStatTM-1.0.11/RobStatTM/man/rhoprime2.Rd | 74 RobStatTM-1.0.11/RobStatTM/man/rob.linear.test.Rd | 78 RobStatTM-1.0.11/RobStatTM/man/scaleM.Rd |only RobStatTM-1.0.11/RobStatTM/man/shock.Rd | 66 RobStatTM-1.0.11/RobStatTM/man/skin.Rd | 60 RobStatTM-1.0.11/RobStatTM/man/stackloss.Rd | 66 RobStatTM-1.0.11/RobStatTM/man/step.lmrobdetMM.Rd | 168 RobStatTM-1.0.11/RobStatTM/man/vehicle.Rd | 94 RobStatTM-1.0.11/RobStatTM/man/waste.Rd | 82 RobStatTM-1.0.11/RobStatTM/man/wine.Rd | 82 RobStatTM-1.0.11/RobStatTM/src/lmrob.c | 180 RobStatTM-1.0.11/RobStatTM/vignettes/OptimalBiasRobustRegressionPsiandRho.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/vignettes/PolynomialOptandmOptRhoFunctions.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/vignettes/VignetteRobStatTM.pdf.asis | 6 RobStatTM-1.0.11/RobStatTM/vignettes/fitmodelsusingRobStatTM.lyx | 4370 +++++----- RobStatTM-1.0.11/RobStatTM/vignettes/fitmodelsusingRobStatTM.pdf.asis | 6 RobStatTM-1.0.8/RobStatTM/man/mscale.Rd |only 137 files changed, 14767 insertions(+), 14742 deletions(-)
Title: Interface to 'REDCap'
Description: Access data stored in 'REDCap' databases using the Application
Programming Interface (API). 'REDCap' (Research Electronic Data CAPture;
<https://projectredcap.org>, Harris, et al. (2009) <doi:10.1016/j.jbi.2008.08.010>,
Harris, et al. (2019) <doi:10.1016/j.jbi.2019.103208>) is
a web application for building and managing online surveys and databases
developed at Vanderbilt University. The API allows users to access data
and project meta data (such as the data dictionary) from the web
programmatically. The 'redcapAPI' package facilitates the process of
accessing data with options to prepare an analysis-ready data set
consistent with the definitions in a database's data dictionary.
Author: Benjamin Nutter [ctb, aut],
Shawn Garbett [cre, ctb] ,
Savannah Obregon [ctb],
Thomas Obadia [ctb],
Marcus Lehr [ctb],
Brian High [ctb],
Stephen Lane [ctb],
Will Beasley [ctb],
Will Gray [ctb],
Nick Kennedy [ctb],
Tan Hsi-Nien [ctb],
Jeffrey Horner [ [...truncated...]
Maintainer: Shawn Garbett <shawn.garbett@vumc.org>
Diff between redcapAPI versions 2.9.1 dated 2024-05-15 and 2.10.0 dated 2024-10-17
redcapAPI-2.10.0/redcapAPI/DESCRIPTION | 10 redcapAPI-2.10.0/redcapAPI/MD5 | 401 ++++------ redcapAPI-2.10.0/redcapAPI/NAMESPACE | 30 redcapAPI-2.10.0/redcapAPI/NEWS | 23 redcapAPI-2.10.0/redcapAPI/R/createFileRepositoryFolder.R | 35 redcapAPI-2.10.0/redcapAPI/R/createRedcapProject.R | 35 redcapAPI-2.10.0/redcapAPI/R/curl.R |only redcapAPI-2.10.0/redcapAPI/R/deleteArms.R | 52 - redcapAPI-2.10.0/redcapAPI/R/deleteDags.R | 35 redcapAPI-2.10.0/redcapAPI/R/deleteEvents.R | 34 redcapAPI-2.10.0/redcapAPI/R/deleteFileRepository.R | 32 redcapAPI-2.10.0/redcapAPI/R/deleteFiles.R | 44 - redcapAPI-2.10.0/redcapAPI/R/deleteFromFileRepository.R | 37 redcapAPI-2.10.0/redcapAPI/R/deleteRecords.R | 36 redcapAPI-2.10.0/redcapAPI/R/deleteUserRoles.R | 40 redcapAPI-2.10.0/redcapAPI/R/deleteUsers.R | 38 redcapAPI-2.10.0/redcapAPI/R/docsArmsMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsDagAssignmentMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsDagMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsEventMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsFileMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsFileRepositoryMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsFromFileRepository.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsMappingMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsMetaDataMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsProjectInformationMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsRecordsManagementMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsRecordsMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsRecordsTypedMethods.R | 10 redcapAPI-2.10.0/redcapAPI/R/docsRepeatingInstrumentEventMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsSurveyMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsUserMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsUserRoleAssignmentMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/docsUserRoleMethods.R | 6 redcapAPI-2.10.0/redcapAPI/R/documentation-common-args.R | 5 redcapAPI-2.10.0/redcapAPI/R/exportArms.R | 39 redcapAPI-2.10.0/redcapAPI/R/exportDags.R | 34 redcapAPI-2.10.0/redcapAPI/R/exportDataQuality.R | 18 redcapAPI-2.10.0/redcapAPI/R/exportEvents.R | 37 redcapAPI-2.10.0/redcapAPI/R/exportExternalCoding.R | 55 - redcapAPI-2.10.0/redcapAPI/R/exportFieldNames.R | 45 - redcapAPI-2.10.0/redcapAPI/R/exportFileRepository.R | 24 redcapAPI-2.10.0/redcapAPI/R/exportFileRepositoryListing.R | 39 redcapAPI-2.10.0/redcapAPI/R/exportFiles.R | 36 redcapAPI-2.10.0/redcapAPI/R/exportFilesMultiple.R | 30 redcapAPI-2.10.0/redcapAPI/R/exportFromFileRepository.R | 36 redcapAPI-2.10.0/redcapAPI/R/exportInstruments.R | 37 redcapAPI-2.10.0/redcapAPI/R/exportLogging.R | 172 ++-- redcapAPI-2.10.0/redcapAPI/R/exportMappings.R | 34 redcapAPI-2.10.0/redcapAPI/R/exportMetaData.R | 37 redcapAPI-2.10.0/redcapAPI/R/exportNextRecordName.R | 38 redcapAPI-2.10.0/redcapAPI/R/exportPDF.R | 36 redcapAPI-2.10.0/redcapAPI/R/exportProjectInformation.R | 37 redcapAPI-2.10.0/redcapAPI/R/exportProjectXml.R | 33 redcapAPI-2.10.0/redcapAPI/R/exportRecords.R | 63 - redcapAPI-2.10.0/redcapAPI/R/exportRecordsTyped.R | 69 - redcapAPI-2.10.0/redcapAPI/R/exportRepeatingInstrumentsEvents.R | 37 redcapAPI-2.10.0/redcapAPI/R/exportReports.R | 39 redcapAPI-2.10.0/redcapAPI/R/exportReportsTyped.R | 46 - redcapAPI-2.10.0/redcapAPI/R/exportSurveyLink.R | 35 redcapAPI-2.10.0/redcapAPI/R/exportSurveyParticipants.R | 38 redcapAPI-2.10.0/redcapAPI/R/exportSurveyQueueLink.R | 34 redcapAPI-2.10.0/redcapAPI/R/exportSurveyReturnCode.R | 38 redcapAPI-2.10.0/redcapAPI/R/exportUserDagAssignments.R | 39 redcapAPI-2.10.0/redcapAPI/R/exportUserRoleAssignments.R | 38 redcapAPI-2.10.0/redcapAPI/R/exportUserRoles.R | 39 redcapAPI-2.10.0/redcapAPI/R/exportUsers.R | 43 - redcapAPI-2.10.0/redcapAPI/R/exportVersion.R | 48 - redcapAPI-2.10.0/redcapAPI/R/fieldCastingFunctions.R | 5 redcapAPI-2.10.0/redcapAPI/R/fieldToVar.R | 1 redcapAPI-2.10.0/redcapAPI/R/fieldValidationAndCasting.R | 13 redcapAPI-2.10.0/redcapAPI/R/importArms.R | 44 - redcapAPI-2.10.0/redcapAPI/R/importDags.R | 40 redcapAPI-2.10.0/redcapAPI/R/importEvents.R | 38 redcapAPI-2.10.0/redcapAPI/R/importFileRepository.R | 33 redcapAPI-2.10.0/redcapAPI/R/importFiles.R | 41 - redcapAPI-2.10.0/redcapAPI/R/importMappings.R | 39 redcapAPI-2.10.0/redcapAPI/R/importMetaData.R | 40 redcapAPI-2.10.0/redcapAPI/R/importProjectInformation.R | 38 redcapAPI-2.10.0/redcapAPI/R/importRecords.R | 98 -- redcapAPI-2.10.0/redcapAPI/R/importRepeatingInstrumentsEvents.R | 37 redcapAPI-2.10.0/redcapAPI/R/importToFileRepository.R | 35 redcapAPI-2.10.0/redcapAPI/R/importUserDagAssignments.R | 41 - redcapAPI-2.10.0/redcapAPI/R/importUserRoleAssignments.R | 40 redcapAPI-2.10.0/redcapAPI/R/importUserRoles.R | 36 redcapAPI-2.10.0/redcapAPI/R/importUsers.R | 37 redcapAPI-2.10.0/redcapAPI/R/makeApiCall.R | 107 +- redcapAPI-2.10.0/redcapAPI/R/prepUserImportData.R | 2 redcapAPI-2.10.0/redcapAPI/R/preserveProject.R | 63 - redcapAPI-2.10.0/redcapAPI/R/purgeRestoreProject.R | 214 ++--- redcapAPI-2.10.0/redcapAPI/R/redcapAPI-package.R | 14 redcapAPI-2.10.0/redcapAPI/R/redcapConnection.R | 22 redcapAPI-2.10.0/redcapAPI/R/redcapDataStructure.R | 61 - redcapAPI-2.10.0/redcapAPI/R/redcapError.R | 81 -- redcapAPI-2.10.0/redcapAPI/R/renameRecord.R | 37 redcapAPI-2.10.0/redcapAPI/R/switchDag.R | 43 - redcapAPI-2.10.0/redcapAPI/R/unlockREDCap.R | 33 redcapAPI-2.10.0/redcapAPI/R/validateImport.R | 1 redcapAPI-2.10.0/redcapAPI/R/zzz.R | 33 redcapAPI-2.10.0/redcapAPI/README.md | 28 redcapAPI-2.10.0/redcapAPI/build/vignette.rds |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-best-practices.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-casting-data.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-data-validation.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-faq.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-getting-started-connecting.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-missing-data-detection.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/doc/redcapAPI-offline-connection.pdf |binary redcapAPI-2.10.0/redcapAPI/inst/vignette-source/redcapAPI-best-practices.Rmd | 77 + redcapAPI-2.10.0/redcapAPI/man/armsMethods.Rd | 44 - redcapAPI-2.10.0/redcapAPI/man/as.character.response.Rd |only redcapAPI-2.10.0/redcapAPI/man/createFileRepositoryFolder.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/createRedcapProject.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/dagAssignmentMethods.Rd | 29 redcapAPI-2.10.0/redcapAPI/man/dagMethods.Rd | 42 - redcapAPI-2.10.0/redcapAPI/man/deleteRecords.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/eventsMethods.Rd | 44 - redcapAPI-2.10.0/redcapAPI/man/exportExternalCoding.Rd | 22 redcapAPI-2.10.0/redcapAPI/man/exportFieldNames.Rd | 21 redcapAPI-2.10.0/redcapAPI/man/exportFileRepositoryListing.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/exportFilesMultiple.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/exportInstruments.Rd | 20 redcapAPI-2.10.0/redcapAPI/man/exportLogging.Rd | 37 redcapAPI-2.10.0/redcapAPI/man/exportPdf.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/exportProjectXml.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/exportVersion.Rd | 20 redcapAPI-2.10.0/redcapAPI/man/fileMethods.Rd | 27 redcapAPI-2.10.0/redcapAPI/man/fileRepositoryMethods.Rd | 27 redcapAPI-2.10.0/redcapAPI/man/fromFileRepositoryMethods.Rd | 46 - redcapAPI-2.10.0/redcapAPI/man/importRecords.Rd | 17 redcapAPI-2.10.0/redcapAPI/man/makeApiCall.Rd | 20 redcapAPI-2.10.0/redcapAPI/man/mappingMethods.Rd | 32 redcapAPI-2.10.0/redcapAPI/man/metaDataMethods.Rd | 27 redcapAPI-2.10.0/redcapAPI/man/preserveProject.Rd | 19 redcapAPI-2.10.0/redcapAPI/man/projectInformationMethods.Rd | 29 redcapAPI-2.10.0/redcapAPI/man/purgeRestoreProject.Rd | 34 redcapAPI-2.10.0/redcapAPI/man/recordsManagementMethods.Rd | 33 redcapAPI-2.10.0/redcapAPI/man/recordsMethods.Rd | 20 redcapAPI-2.10.0/redcapAPI/man/recordsTypedMethods.Rd | 23 redcapAPI-2.10.0/redcapAPI/man/redcapConnection.Rd | 8 redcapAPI-2.10.0/redcapAPI/man/redcapDataStructures.Rd | 4 redcapAPI-2.10.0/redcapAPI/man/repeatingInstrumentMethods.Rd | 29 redcapAPI-2.10.0/redcapAPI/man/surveyMethods.Rd | 41 - redcapAPI-2.10.0/redcapAPI/man/switchDag.Rd | 21 redcapAPI-2.10.0/redcapAPI/man/userMethods.Rd | 46 - redcapAPI-2.10.0/redcapAPI/man/userRoleAssignmentMethods.Rd | 29 redcapAPI-2.10.0/redcapAPI/man/userRoleMethods.Rd | 45 - redcapAPI-2.10.0/redcapAPI/tests/testthat/helper-00-REDCapQACredentials.R | 11 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-001-packageSetup.R | 13 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-020-redcapConnection-ArgumentValidation.R | 16 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-020-redcapConnection-Functionality.R | 2 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-024-unlockREDCap.R | 63 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-050-makeApiCall.R | 64 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-053-fieldValidationAndCasting.R | 43 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-056-redcapError.R | 25 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-100-projectInfo-ArgumentValidation.R | 14 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-101-userMethods-ArgumentValidation.R | 30 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-102-userRoleMethods-ArgumentValidation.R | 57 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-102-userRoleMethods-Functionality.R | 21 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-103-userRoleAssignmentMethods-ArgumentValidation.R | 16 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-104-dagMethods-ArgumentValidation.R | 43 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-104-dagMethods-Functionality.R | 22 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-105-dagAssignment-ArgumentValidation.R | 16 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-106-armsMethods-ArgumentValidation.R | 62 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-106-armsMethods-Functionality.R | 31 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-107-eventsMethods-ArgumentValidation.R | 36 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-107-eventsMethods-Functionality.R | 17 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-108-metadataMethods-ArgumentValidation.R | 15 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-109-instrumentMethods-ArgumentValidation.R | 80 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-109-instrumentMethods-Functionality.R | 51 + redcapAPI-2.10.0/redcapAPI/tests/testthat/test-110-repeatingInstruments-ArgumentValidation.R | 31 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-110-repeatingInstruments-Functionality.R | 16 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-111-switchDag-ArgumentValidation.R | 31 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-150-importDeleteRecords-ArgumentValidation.R | 16 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-204-exportTypedRecords-withRepeatingInstruments.R | 4 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-205-exportTypedRecords-offline-Functionality.R | 7 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-257-exportExternalCoding.R | 7 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-301-fileMethods-ArgumentValidation.R | 101 -- redcapAPI-2.10.0/redcapAPI/tests/testthat/test-301-fileMethods-Functionality.R | 112 ++ redcapAPI-2.10.0/redcapAPI/tests/testthat/test-302-createFileRepository-ArgumentValidation.R | 8 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-303-fileRepository-SingleFileMethods-ArgumentValidation.R | 76 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-303-fileRepository-SingleFileMethods-Functionality.R | 60 + redcapAPI-2.10.0/redcapAPI/tests/testthat/test-304-fileRepository-BulkFileMethods-ArgumentValidation.R | 87 -- redcapAPI-2.10.0/redcapAPI/tests/testthat/test-304-fileRepository-BulkFileMethods-Functionality.R | 29 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-305-exportFileRepositoryListing.R | 8 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-307-exportFilesMultiple.R | 39 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-350-exportNextRecordName-ArgumentValidation.R | 7 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-351-exportVersion.R | 7 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-352-savePurgeRestoreProject-ArgumentValidation.R | 38 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-355-invalid.R | 46 + redcapAPI-2.10.0/redcapAPI/tests/testthat/test-358-renameRecord-ArgumentValidation.R | 9 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-359-exportProjectXml-ArgumentValidation.R | 8 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-360-createRedcapProject-ArgumentValidation.R | 18 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-361-userStructureVersion.R | 26 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-400-exportSurveyParticipants-ArgumentValidation.R | 29 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-401-exportSurveyLink-ArgumentValidation.R | 33 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-402-exportSurveyQueueLink-ArgumentValidation.R | 8 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-403-exportSurveyReturnCode-ArgumentValidation.R | 34 redcapAPI-2.10.0/redcapAPI/tests/testthat/test-800-exportLogging-Functionality.R | 60 - redcapAPI-2.10.0/redcapAPI/tests/testthat/test-800-exportLogging-argumentValidation.R | 15 redcapAPI-2.10.0/redcapAPI/vignettes/precompiled-best-practices.pdf |binary redcapAPI-2.9.1/redcapAPI/R/massert.R |only redcapAPI-2.9.1/redcapAPI/man/massert.Rd |only redcapAPI-2.9.1/redcapAPI/man/redcapError.Rd |only 204 files changed, 2047 insertions(+), 4540 deletions(-)
Title: One-Step Estimation
Description: Provide principally an eponymic function that numerically computes
the Le Cam's one-step estimator for an independent and identically distributed sample.
One-step estimation is asymptotically
efficient (see L. Le Cam (1956) <https://projecteuclid.org/euclid.bsmsp/1200501652>)
and can be computed faster than the maximum likelihood estimator for large observation
samples, see e.g. Brouste et al. (2021) <doi:10.32614/RJ-2021-044>.
Author: Alexandre Brouste [aut] ,
Christophe Dutang [aut, cre] ,
Darel Noutsa Mieniedou [ctb]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between OneStep versions 0.9.3 dated 2024-02-23 and 0.9.4 dated 2024-10-17
DESCRIPTION | 10 +++++----- MD5 | 11 ++++++----- README.md |only build/partial.rdb |binary inst/CITATION | 8 ++++---- inst/NEWS.md | 5 +++++ man/onestep.Rd | 18 +++++++++--------- 7 files changed, 29 insertions(+), 23 deletions(-)
Title: Bayesian Model Averaging for Multinomial Logit Models
Description: Provides a modified function bic.glm of the BMA package that can be applied to multinomial logit (MNL) data. The data is converted to binary logit using the Begg & Gray approximation. The package also contains functions for maximum likelihood estimation of MNL.
Author: Hana Sevcikova [aut, cre],
Adrian Raftery [aut]
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between mlogitBMA versions 0.1-7 dated 2022-04-13 and 0.1-9 dated 2024-10-17
ChangeLog | 3 + DESCRIPTION | 20 ++++++--- MD5 | 10 ++-- build/vignette.rds |binary inst/doc/conversion.pdf |binary src/fwleaps.f | 98 +++++++++++++++++++++++++++--------------------- 6 files changed, 79 insertions(+), 52 deletions(-)
Title: Quantify the Robustness of Causal Inferences
Description: Statistical methods that quantify the conditions necessary to
alter inferences, also known as sensitivity analysis, are becoming
increasingly important to a variety of quantitative sciences. A series
of recent works, including Frank (2000)
<doi:10.1177/0049124100029002001> and Frank et al. (2013)
<doi:10.3102/0162373713493129> extend previous sensitivity analyses by
considering the characteristics of omitted variables or unobserved
cases that would change an inference if such variables or cases were
observed. These analyses generate statements such as "an omitted
variable would have to be correlated at xx with the predictor of
interest (e.g., the treatment) and outcome to invalidate an inference of a
treatment effect". Or "one would have to replace pp percent of the
observed data with nor which the treatment had no effect to invalidate the
inference".
We implement these recent developments of sensitivity analysis and
provide modules to calculate these two robustness indices [...truncated...]
Author: Joshua M Rosenberg [aut, cre],
Ran Xu [ctb],
Qinyun Lin [ctb],
Spiro Maroulis [ctb],
Sarah Narvaiz [ctb],
Kenneth A Frank [ctb],
Wei Wang [ctb],
Yunhe Cui [ctb],
Gaofei Zhang [ctb],
Xuesen Cheng [ctb],
JiHoon Choi [ctb],
Guan Saw [ctb]
Maintainer: Joshua M Rosenberg <jmrosen48@gmail.com>
Diff between konfound versions 1.0.1 dated 2024-10-07 and 1.0.2 dated 2024-10-17
DESCRIPTION | 13 MD5 | 15 NEWS.md | 5 README.md | 71 ++ inst/doc/introduction-to-konfound.R | 75 -- inst/doc/introduction-to-konfound.Rmd | 248 +++---- inst/doc/introduction-to-konfound.html | 1052 +++++++++++---------------------- vignettes/introduction-to-konfound.Rmd | 248 +++---- vignettes/references.bib |only 9 files changed, 686 insertions(+), 1041 deletions(-)
Title: Geographically Optimal Similarity
Description: Understanding spatial association is essential for spatial
statistical inference, including factor exploration and spatial prediction.
Geographically optimal similarity (GOS) model is an effective method
for spatial prediction, as described in Yongze Song (2022)
<doi:10.1007/s11004-022-10036-8>. GOS was developed based on
the geographical similarity principle, as described in Axing Zhu (2018)
<doi:10.1080/19475683.2018.1534890>. GOS has advantages in
more accurate spatial prediction using fewer samples and
critically reduced prediction uncertainty.
Author: Yongze Song [aut, cph] ,
Wenbo Lv [aut, cre]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between geosimilarity versions 3.6 dated 2024-09-29 and 3.7 dated 2024-10-17
DESCRIPTION | 6 MD5 | 20 - NEWS.md | 6 R/gos.R | 232 +++++++++---------- R/gos_bestkappa.R | 256 ++++++++++----------- R/zzz.R | 2 README.md | 5 inst/doc/geosimilarity.Rmd | 8 inst/doc/geosimilarity.html | 10 vignettes/geosimilarity.Rmd | 8 vignettes/geosimilarity.Rmd.orig | 454 +++++++++++++++++++-------------------- 11 files changed, 510 insertions(+), 497 deletions(-)
Title: Geographical Detectors for Assessing Spatial Factors
Description: Geographical detectors for measuring spatial stratified heterogeneity,
as described in Jinfeng Wang (2010) <doi:10.1080/13658810802443457> and
Jinfeng Wang (2016) <doi:10.1016/j.ecolind.2016.02.052>. Includes the
optimal discretization of continuous data, four primary functions of
geographical detectors, comparison of size effects of spatial unit and
the visualizations of results. To use the package and to refer the
descriptions of the package, methods and case datasets, please cite
Yongze Song (2020) <doi:10.1080/15481603.2020.1760434>. The model has
been applied in factor exploration of road performance and multi-scale
spatial segmentation for network data, as described in
Yongze Song (2018) <doi:10.3390/rs10111696> and
Yongze Song (2020) <doi:10.1109/TITS.2020.3001193>, respectively.
Author: Yongze Song [aut, cph] ,
Wenbo Lv [aut, cre]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between GD versions 10.3 dated 2023-09-18 and 10.5 dated 2024-10-17
GD-10.3/GD/INDEX |only GD-10.3/GD/vignettes/fig |only GD-10.5/GD/DESCRIPTION | 50 GD-10.5/GD/MD5 | 68 GD-10.5/GD/NAMESPACE | 60 GD-10.5/GD/NEWS.md |only GD-10.5/GD/R/data.R | 8 GD-10.5/GD/R/disc.R | 36 GD-10.5/GD/R/gd.R | 25 GD-10.5/GD/R/gdeco.R | 34 GD-10.5/GD/R/gdinteract.R | 41 GD-10.5/GD/R/gdm.R | 8 GD-10.5/GD/R/gdrisk.R | 33 GD-10.5/GD/R/optidisc.R | 42 GD-10.5/GD/R/riskmean.R | 14 GD-10.5/GD/R/sesu.R | 40 GD-10.5/GD/R/v2m.R | 2 GD-10.5/GD/R/zzz.R | 2 GD-10.5/GD/README.md |only GD-10.5/GD/build/vignette.rds |binary GD-10.5/GD/inst/CITATION | 64 GD-10.5/GD/inst/doc/GD.R | 274 +- GD-10.5/GD/inst/doc/GD.Rmd | 31 GD-10.5/GD/inst/doc/GD.html | 3986 ++++++++++++++++++++---------------------- GD-10.5/GD/man/H1N1.Rd | 3 GD-10.5/GD/man/NDVI.Rd | 3 GD-10.5/GD/man/disc.Rd | 8 GD-10.5/GD/man/figures |only GD-10.5/GD/man/gdinteract.Rd | 3 GD-10.5/GD/vignettes/GD.Rmd | 31 30 files changed, 2406 insertions(+), 2460 deletions(-)
Title: Brazilian Population Estimatives
Description: Functions to handle and aggregate population estimates for Brazilian municipalities by sex and age groups.
Author: Raphael Saldanha [aut, cre]
Maintainer: Raphael Saldanha <raphael.de-freitas-saldanha@inria.fr>
Diff between brpop versions 0.3.0 dated 2023-10-24 and 0.5.0 dated 2024-10-17
brpop-0.3.0/brpop/R/mun_female_pop.R |only brpop-0.3.0/brpop/R/mun_male_pop.R |only brpop-0.3.0/brpop/R/mun_pop.R |only brpop-0.3.0/brpop/R/regsaude_pop.R |only brpop-0.3.0/brpop/R/uf_female_pop.R |only brpop-0.3.0/brpop/R/uf_male_pop.R |only brpop-0.3.0/brpop/R/uf_pop.R |only brpop-0.3.0/brpop/data/mun_female_pop.rda |only brpop-0.3.0/brpop/data/mun_male_pop.rda |only brpop-0.3.0/brpop/data/uf_female_pop.rda |only brpop-0.3.0/brpop/data/uf_male_pop.rda |only brpop-0.3.0/brpop/man/mun_female_pop.Rd |only brpop-0.3.0/brpop/man/mun_male_pop.Rd |only brpop-0.3.0/brpop/man/mun_pop.Rd |only brpop-0.3.0/brpop/man/regsaude_pop.Rd |only brpop-0.3.0/brpop/man/uf_female_pop.Rd |only brpop-0.3.0/brpop/man/uf_male_pop.Rd |only brpop-0.3.0/brpop/man/uf_pop.Rd |only brpop-0.5.0/brpop/DESCRIPTION | 21 +- brpop-0.5.0/brpop/MD5 | 122 ++++++------ brpop-0.5.0/brpop/NAMESPACE | 17 + brpop-0.5.0/brpop/NEWS.md | 13 + brpop-0.5.0/brpop/R/brpop-package.R |only brpop-0.5.0/brpop/R/datasus_mun_female_pop.R |only brpop-0.5.0/brpop/R/datasus_mun_male_pop.R |only brpop-0.5.0/brpop/R/ibge_pop.R |only brpop-0.5.0/brpop/R/mun_female_pop_totals.R | 28 +- brpop-0.5.0/brpop/R/mun_male_pop_totals.R | 28 +- brpop-0.5.0/brpop/R/mun_pop_age.R |only brpop-0.5.0/brpop/R/mun_pop_totals.R | 46 ++-- brpop-0.5.0/brpop/R/mun_reg_saude.R | 2 brpop-0.5.0/brpop/R/mun_reg_saude_449.R | 2 brpop-0.5.0/brpop/R/mun_sex_pop.R | 24 +- brpop-0.5.0/brpop/R/regsaude_female_pop.R | 46 +--- brpop-0.5.0/brpop/R/regsaude_female_pop_totals.R | 30 -- brpop-0.5.0/brpop/R/regsaude_male_pop.R | 48 ++-- brpop-0.5.0/brpop/R/regsaude_male_pop_totals.R | 30 -- brpop-0.5.0/brpop/R/regsaude_pop_age.R |only brpop-0.5.0/brpop/R/regsaude_pop_totals.R | 61 +++--- brpop-0.5.0/brpop/R/regsaude_sex_pop.R | 41 +--- brpop-0.5.0/brpop/R/uf_female_pop_totals.R | 34 ++- brpop-0.5.0/brpop/R/uf_male_pop_totals.R | 34 ++- brpop-0.5.0/brpop/R/uf_pop_age.R |only brpop-0.5.0/brpop/R/uf_pop_totals.R | 55 +++-- brpop-0.5.0/brpop/R/uf_sex_pop.R | 24 +- brpop-0.5.0/brpop/R/ufrn_mun_female_pop.R |only brpop-0.5.0/brpop/R/ufrn_mun_male_pop.R |only brpop-0.5.0/brpop/R/zenodo_deposit.R |only brpop-0.5.0/brpop/README.md | 56 ----- brpop-0.5.0/brpop/data/mun_reg_saude.rda |binary brpop-0.5.0/brpop/data/mun_reg_saude_449.rda |binary brpop-0.5.0/brpop/man/brpop-package.Rd |only brpop-0.5.0/brpop/man/datasus_mun_female_pop.Rd |only brpop-0.5.0/brpop/man/datasus_mun_male_pop.Rd |only brpop-0.5.0/brpop/man/ibge_pop.Rd |only brpop-0.5.0/brpop/man/mun_female_pop_totals.Rd | 18 - brpop-0.5.0/brpop/man/mun_male_pop_totals.Rd | 18 - brpop-0.5.0/brpop/man/mun_pop_age.Rd |only brpop-0.5.0/brpop/man/mun_pop_totals.Rd | 20 - brpop-0.5.0/brpop/man/mun_reg_saude.Rd | 2 brpop-0.5.0/brpop/man/mun_reg_saude_449.Rd | 2 brpop-0.5.0/brpop/man/mun_sex_pop.Rd | 9 brpop-0.5.0/brpop/man/regsaude_female_pop.Rd | 19 - brpop-0.5.0/brpop/man/regsaude_female_pop_totals.Rd | 14 - brpop-0.5.0/brpop/man/regsaude_male_pop.Rd | 19 - brpop-0.5.0/brpop/man/regsaude_male_pop_totals.Rd | 14 - brpop-0.5.0/brpop/man/regsaude_pop_age.Rd |only brpop-0.5.0/brpop/man/regsaude_pop_totals.Rd | 18 - brpop-0.5.0/brpop/man/regsaude_sex_pop.Rd | 6 brpop-0.5.0/brpop/man/uf_female_pop_totals.Rd | 18 - brpop-0.5.0/brpop/man/uf_male_pop_totals.Rd | 18 - brpop-0.5.0/brpop/man/uf_pop_age.Rd |only brpop-0.5.0/brpop/man/uf_pop_totals.Rd | 20 - brpop-0.5.0/brpop/man/uf_sex_pop.Rd | 9 brpop-0.5.0/brpop/man/ufrn_mun_female_pop.Rd |only brpop-0.5.0/brpop/man/ufrn_mun_male_pop.Rd |only brpop-0.5.0/brpop/tests/testthat/test-errors.R |only brpop-0.5.0/brpop/tests/testthat/test-pop_mun_consistency.R | 48 ++++ brpop-0.5.0/brpop/tests/testthat/test-pop_uf_consistency.R | 18 - brpop-0.5.0/brpop/tests/testthat/test-regsaude_female_pop.R | 22 +- brpop-0.5.0/brpop/tests/testthat/test-regsaude_male_pop.R | 22 +- 81 files changed, 559 insertions(+), 537 deletions(-)
Title: Risk-Based Control Charts
Description: Univariate and multivariate versions of risk-based control charts. Univariate versions of control charts, such as the risk-based version of X-bar, Moving Average (MA), Exponentially Weighted Moving Average Control Charts (EWMA), and Cumulative Sum Control Charts (CUSUM) charts. The risk-based version of the multivariate T2 control chart. Plot and summary functions. Kosztyan et. al. (2016) <doi:10.1016/j.eswa.2016.06.019>.
Author: Aamir Saghir [aut],
Attila Imre Katona [aut],
Zsolt Tibor Kosztyan [aut, cre]
Maintainer: Zsolt Tibor Kosztyan <kosztyan.zsolt@gtk.uni-pannon.hu>
Diff between rbcc versions 0.1.1 dated 2024-06-05 and 0.1.2 dated 2024-10-17
DESCRIPTION | 6 - MD5 | 58 +++++++------- R/data_gen.R | 58 +++++++------- R/plot.rbcc.R | 206 +++++++++++++++++++++++++-------------------------- R/rbcc.R | 191 ++++++++++++++++++++++------------------------- R/rbcc_opt.R | 114 ++++++++++++++-------------- R/rbcusumcc.R | 75 ++++++++++++------ R/rbcusumcc_opt.R | 15 --- R/rbewmacc.R | 32 ++++--- R/rbewmacc_opt.R | 10 +- R/rbmacc.R | 36 +++----- R/rbmacc_opt.R | 6 - R/rbmcc.R | 2 R/rbmcc_opt.R | 76 +++++++++--------- R/summary.rbcc.R | 4 inst/NEWS | 82 +++++++++++--------- man/data_gen.Rd | 7 - man/plot.rbcc.Rd | 7 - man/rbcc-package.Rd | 48 +++++------ man/rbcc.Rd | 11 +- man/rbcc_opt.Rd | 14 +-- man/rbcusumcc.Rd | 16 ++- man/rbcusumcc_opt.Rd | 18 ++-- man/rbewmacc.Rd | 10 +- man/rbewmacc_opt.Rd | 16 ++- man/rbmacc.Rd | 10 +- man/rbmacc_opt.Rd | 12 +- man/rbmcc.Rd | 6 - man/rbmcc_opt.Rd | 6 - man/summary.rbcc.Rd | 6 - 30 files changed, 598 insertions(+), 560 deletions(-)
Title: Implementation of Fused MGM to Infer 2-Class Networks
Description: Implementation of fused Markov graphical model (FMGM; Park and Won, 2022). The functions include building mixed graphical model (MGM) objects from data, inference of networks using FMGM, stable edge-specific penalty selection (StEPS) for the determination of penalization parameters, and the visualization. For details, please refer to Park and Won (2022) <doi:10.48550/arXiv.2208.14959>.
Author: Jaehyun Park [aut, cre, cph] ,
Sungho Won [ths]
Maintainer: Jaehyun Park <J.31.Park@gmail.com>
Diff between fusedMGM versions 0.1.0.1 dated 2023-04-25 and 0.1.2 dated 2024-10-17
fusedMGM-0.1.0.1/fusedMGM/README.md |only fusedMGM-0.1.0.1/fusedMGM/tests |only fusedMGM-0.1.2/fusedMGM/DESCRIPTION | 13 - fusedMGM-0.1.2/fusedMGM/LICENSE | 2 fusedMGM-0.1.2/fusedMGM/MD5 | 33 +-- fusedMGM-0.1.2/fusedMGM/R/MGM.r | 75 +++++--- fusedMGM-0.1.2/fusedMGM/R/MGM_algorithms.r | 2 fusedMGM-0.1.2/fusedMGM/R/MGM_plots.r | 35 +++ fusedMGM-0.1.2/fusedMGM/R/StEPS_functions.r | 36 +++- fusedMGM-0.1.2/fusedMGM/R/data.R | 23 ++ fusedMGM-0.1.2/fusedMGM/data/data_all.rda |binary fusedMGM-0.1.2/fusedMGM/data/data_mini.rda |only fusedMGM-0.1.2/fusedMGM/data/ind_disc.rda |binary fusedMGM-0.1.2/fusedMGM/data/ind_disc_mini.rda |only fusedMGM-0.1.2/fusedMGM/man/FMGM_StEPS.Rd | 36 +++- fusedMGM-0.1.2/fusedMGM/man/FMGM_mc.Rd | 221 +++++++++++++------------ fusedMGM-0.1.2/fusedMGM/man/FMGM_plot.Rd | 35 +++ fusedMGM-0.1.2/fusedMGM/man/data_mini.Rd |only fusedMGM-0.1.2/fusedMGM/man/ind_disc.Rd | 4 fusedMGM-0.1.2/fusedMGM/man/ind_disc_mini.Rd |only 20 files changed, 329 insertions(+), 186 deletions(-)
Title: Identify Relevant Clinical Codes and Evaluate Their Use
Description: Generate a candidate code list for the Observational Medical Outcomes Partnership (OMOP) common data model based on string matching. For a given search strategy, a candidate code list will be returned.
Author: Edward Burn [aut, cre] ,
Marti Catala [ctb] ,
Xihang Chen [aut] ,
Nuria Mercade-Besora [aut] ,
Mike Du [ctb] ,
Danielle Newby [ctb]
Maintainer: Edward Burn <edward.burn@ndorms.ox.ac.uk>
Diff between CodelistGenerator versions 3.2.0 dated 2024-09-24 and 3.2.1 dated 2024-10-17
DESCRIPTION | 6 MD5 | 144 NEWS.md | 98 R/codesFromConceptSet.R | 2 R/codesInUse.R | 8 R/compareCodelists.R | 3 R/drugCodes.R | 21 R/getCandidateCodes.R | 3 R/getDoseUnit.R | 102 R/getICD10StandardCodes.R | 3 R/getMappings.R | 3 R/helperFunctions.R | 6 R/mockVocabRef.R | 3 R/runSearch.R | 1000 +-- R/stratifyByConcept.R | 174 R/stratifyByDoseUnit.R | 280 R/subsetOnDoseUnit.R | 200 R/summariseAchillesCodeUse.R | 388 - R/summariseCodeUse.R | 1694 ++--- R/summariseOrphanCodes.R | 2 R/tableAchillesCodeUse.R | 12 R/tableCodeUse.R | 616 +- R/vocabUtilities.R | 1293 ++-- build/vignette.rds |binary inst/doc/a01_Introduction_to_CodelistGenerator.html | 2 inst/doc/a02_Candidate_codes_OA.html | 2 inst/doc/a03_Options_for_CodelistGenerator.Rmd | 434 - inst/doc/a03_Options_for_CodelistGenerator.html | 2 inst/doc/a04_Vocab_based_codelists.html | 4 inst/not_all_concept_sets/cohort_def.json | 5706 ++++++++++---------- man/availableATC.Rd | 56 man/availableICD10.Rd | 52 man/availableIngredients.Rd | 48 man/codesFromConceptSet.Rd | 2 man/codesInUse.Rd | 2 man/compareCodelists.Rd | 3 man/getATCCodes.Rd | 3 man/getCandidateCodes.Rd | 3 man/getConceptClassId.Rd | 59 man/getDescendants.Rd | 3 man/getDomains.Rd | 3 man/getDoseForm.Rd | 3 man/getDoseUnit.Rd | 38 man/getDrugIngredientCodes.Rd | 10 man/getICD10StandardCodes.Rd | 3 man/getMappings.Rd | 3 man/getRelationshipId.Rd | 3 man/getVocabVersion.Rd | 3 man/getVocabularies.Rd | 3 man/mockVocabRef.Rd | 3 man/restrictToCodesInUse.Rd | 2 man/sourceCodesInUse.Rd | 2 man/stratifyByConcept.Rd | 44 man/stratifyByDoseUnit.Rd | 44 man/subsetOnDoseUnit.Rd | 46 man/subsetToCodesInUse.Rd | 2 man/summariseAchillesCodeUse.Rd | 2 man/summariseOrphanCodes.Rd | 2 man/tableAchillesCodeUse.Rd | 2 man/tableOrphanCodes.Rd | 10 tests/testthat/test-compareCodelists.R | 254 tests/testthat/test-dbms.R | 16 tests/testthat/test-drugCodes.R | 8 tests/testthat/test-findUnmappedCodes.R | 86 tests/testthat/test-getCandidateCodes.R | 668 +- tests/testthat/test-getDoseUnit.R | 22 tests/testthat/test-getMappings.R | 148 tests/testthat/test-mockVocabRef.R | 26 tests/testthat/test-stratifyByConcept.R | 74 tests/testthat/test-stratifyByDoseUnit.R | 44 tests/testthat/test-stratifyByRouteCategory.R | 76 tests/testthat/test-subsetOnDoseUnit.R | 36 vignettes/a03_Options_for_CodelistGenerator.Rmd | 434 - 73 files changed, 7278 insertions(+), 7284 deletions(-)
More information about CodelistGenerator at CRAN
Permanent link
Title: Continuous Analog of a Beta-Binomial Distribution
Description: Implementation of the d/p/q/r family of functions for a continuous analog to the standard discrete beta-binomial with continuous size parameter and continuous support with x in [0, size + 1].
Author: Xiurui Zhu [aut, cre]
Maintainer: Xiurui Zhu <zxr6@163.com>
Diff between cbbinom versions 0.1.0 dated 2024-09-02 and 0.2.0 dated 2024-10-17
cbbinom-0.1.0/cbbinom/inst/include/zeroin.h |only cbbinom-0.1.0/cbbinom/man/figures/README-cbbinom-vs-bbinom-1.png |only cbbinom-0.1.0/cbbinom/man/gen_hypergeo.Rd |only cbbinom-0.1.0/cbbinom/src/hypergeo.cpp |only cbbinom-0.1.0/cbbinom/src/hypergeo.h |only cbbinom-0.2.0/cbbinom/DESCRIPTION | 12 cbbinom-0.2.0/cbbinom/MD5 | 40 - cbbinom-0.2.0/cbbinom/NAMESPACE | 18 cbbinom-0.2.0/cbbinom/NEWS.md | 17 cbbinom-0.2.0/cbbinom/R/RcppExports.R | 45 - cbbinom-0.2.0/cbbinom/R/cbbinom-package.R | 1 cbbinom-0.2.0/cbbinom/R/cbbinom.R | 85 +- cbbinom-0.2.0/cbbinom/README.md | 122 +++- cbbinom-0.2.0/cbbinom/inst/include/cbbinom |only cbbinom-0.2.0/cbbinom/inst/include/cbbinom.h | 2 cbbinom-0.2.0/cbbinom/inst/include/cbbinom_RcppExports.h | 117 +++ cbbinom-0.2.0/cbbinom/man/cbbinom-package.Rd | 8 cbbinom-0.2.0/cbbinom/man/cbbinom.Rd | 299 ++++------ cbbinom-0.2.0/cbbinom/man/figures/README-cbbinom-prec-p-1.png |only cbbinom-0.2.0/cbbinom/man/figures/README-cbbinom-prec-p-2.png |only cbbinom-0.2.0/cbbinom/man/figures/README-cbbinom-vs-bbinom-d-1.png |only cbbinom-0.2.0/cbbinom/man/figures/README-cbbinom-vs-bbinom-p-1.png |only cbbinom-0.2.0/cbbinom/src/RcppExports.cpp | 248 ++++++-- cbbinom-0.2.0/cbbinom/src/cbbinom.cpp | 260 ++------ cbbinom-0.2.0/cbbinom/src/cbbinom_impl.cpp |only cbbinom-0.2.0/cbbinom/src/cbbinom_impl.h |only cbbinom-0.2.0/cbbinom/tests/testthat/test-cbbinom.R | 44 - 27 files changed, 734 insertions(+), 584 deletions(-)
Title: Testing, Monitoring, and Dating Structural Changes: C++ Version
Description: A fast implementation with additional experimental features for
testing, monitoring and dating structural changes in (linear)
regression models. 'strucchangeRcpp' features tests/methods from
the generalized fluctuation test framework as well as from
the F test (Chow test) framework. This includes methods to
fit, plot and test fluctuation processes (e.g. cumulative/moving
sum, recursive/moving estimates) and F statistics, respectively.
These methods are described in Zeileis et al. (2002)
<doi:10.18637/jss.v007.i02>.
Finally, the breakpoints in regression models with structural
changes can be estimated together with confidence intervals,
and their magnitude as well as the model fit can be evaluated
using a variety of statistical measures.
Author: Dainius Masiliunas [aut, cre] ,
Achim Zeileis [aut] ,
Marius Appel [aut],
Friedrich Leisch [aut],
Kurt Hornik [aut],
Christian Kleiber [aut],
Andrei Mirt [ctb] ,
Bruce Hansen [ctb],
Edgar C. Merkle [ctb],
Nikolaus Umlauf [ctb]
Maintainer: Dainius Masiliunas <pastas4@gmail.com>
Diff between strucchangeRcpp versions 1.5-3-1.0.4 dated 2021-11-26 and 1.5-4-1.0.0 dated 2024-10-17
strucchangeRcpp-1.5-3-1.0.4/strucchangeRcpp/tests/Examples/strucchange-Ex.Rout.save |only strucchangeRcpp-1.5-3-1.0.4/strucchangeRcpp/vignettes/testout |only strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/DESCRIPTION | 13 +- strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/MD5 | 45 ++++---- strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/NAMESPACE | 2 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/NEWS | 7 + strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/R/breakpoints.R | 16 ++ strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/R/efp.R | 4 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/build/partial.rdb |binary strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/build/vignette.rds |binary strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/inst/CITATION | 54 +++------- strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/inst/doc/strucchange-intro.pdf |binary strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/GermanM1.Rd | 9 - strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/Grossarl.Rd | 5 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/SP2001.Rd | 6 - strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/breakpoints.Rd | 8 - strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/durab.Rd | 8 - strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/efp.Rd | 5 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/plot.efp.Rd | 5 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/scPublications.Rd | 2 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/sctest.Fstats.Rd | 2 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/man/sctest.efp.Rd | 5 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/src/recresid.cpp | 3 strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/src/strucchange_functions.c |only strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/src/strucchange_init.c |only strucchangeRcpp-1.5-4-1.0.0/strucchangeRcpp/tests/Examples/strucchangeRcpp-Ex.Rout |only 26 files changed, 100 insertions(+), 99 deletions(-)
More information about strucchangeRcpp at CRAN
Permanent link
Title: Generalized Pareto Distribution and Peaks Over Threshold
Description: Some functions useful to perform a Peak Over Threshold
analysis in univariate and bivariate cases, see Beirlant et al. (2004)
<doi:10.1002/0470012382>. A user guide is available in the vignette.
Author: Christophe Dutang [aut, cre] ,
Mathieu Ribatet [aut]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between POT versions 1.1-10 dated 2022-04-14 and 1.1-11 dated 2024-10-17
DESCRIPTION | 17 ++++++++++++----- MD5 | 12 +++++++----- README.md |only build/vignette.rds |binary inst/CITATION | 6 ++---- inst/ChangeLog | 5 +++++ inst/doc/POT.pdf |binary tests/t-clust.R |only 8 files changed, 26 insertions(+), 14 deletions(-)
Title: The Gumbel-Hougaard Copula
Description: Provides probability functions (cumulative distribution and density functions), simulation function (Gumbel copula multivariate simulation) and estimation functions (Maximum Likelihood Estimation, Inference For Margins, Moment Based Estimation and Canonical Maximum Likelihood).
Author: Christophe Dutang [aut, cre] ,
Anne-Lise Caillat [ctb],
Veronique Larrieu [ctb],
Triet Nguyen [ctb]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between gumbel versions 1.10-2 dated 2018-08-07 and 1.10-3 dated 2024-10-17
gumbel-1.10-2/gumbel/vignettes/gumbel-concordance.tex |only gumbel-1.10-2/gumbel/vignettes/gumbel.tex |only gumbel-1.10-3/gumbel/DESCRIPTION | 21 +++ gumbel-1.10-3/gumbel/MD5 | 19 +-- gumbel-1.10-3/gumbel/README.md |only gumbel-1.10-3/gumbel/build/vignette.rds |binary gumbel-1.10-3/gumbel/inst/CITATION | 20 +-- gumbel-1.10-3/gumbel/inst/doc/gumbel.Rnw | 6 - gumbel-1.10-3/gumbel/inst/doc/gumbel.pdf |binary gumbel-1.10-3/gumbel/man/gumbel.Rd | 12 +- gumbel-1.10-3/gumbel/man/winddata.Rd | 95 ++++++++---------- gumbel-1.10-3/gumbel/vignettes/gumbel.Rnw | 6 - 12 files changed, 94 insertions(+), 85 deletions(-)
Title: A GUI to Correct Measurement Bias in DNA Methylation Analyses
Description: A GUI to correct measurement bias in DNA methylation
analyses. The 'BiasCorrector' package just wraps the functions
implemented in the 'R' package 'rBiasCorrection' into a shiny web
application in order to make them more easily accessible. Publication:
Kapsner et al. (2021) <doi:10.1002/ijc.33681>.
Author: Lorenz A. Kapsner [cre, aut, cph]
,
Evgeny A. Moskalev [aut]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between BiasCorrector versions 0.2.2 dated 2022-06-20 and 0.2.3 dated 2024-10-17
DESCRIPTION | 9 MD5 | 102 - NAMESPACE | 64 - R/app_omitnas_modal.R | 80 - R/app_render_regressionstatistics.R | 232 ++-- R/app_requirements_error.R | 224 +-- R/app_utils.R | 44 R/launch_app.R | 200 +-- R/moduleCalibrationFile.R | 2 R/moduleCorrectedPlots.R | 1968 +++++++++++++++++----------------- R/moduleCorrectedStatistics.R | 570 ++++----- R/moduleExperimentalFile.R | 482 ++++---- R/moduleFileupload.R | 1174 ++++++++++---------- R/moduleInfo.R | 224 +-- R/moduleLog.R | 262 ++-- R/moduleModelSelection.R | 456 +++---- R/modulePlotting.R | 906 +++++++-------- R/moduleResults.R | 1310 +++++++++++----------- R/moduleSettings.R | 688 +++++------ R/moduleStatistics.R | 640 +++++------ R/type2Files.R | 218 +-- inst/CITATION | 64 - inst/application/global.R | 22 inst/application/server.R | 1140 +++++++++---------- inst/application/ui.R | 308 ++--- man/launch_app.Rd | 90 - man/module_calibrationfile_server.Rd | 88 - man/module_calibrationfile_ui.Rd | 66 - man/module_correctedplots_server.Rd | 88 - man/module_correctedplots_ui.Rd | 66 - man/module_correctedstatistics_ui.Rd | 66 - man/module_correctedstats_server.Rd | 84 - man/module_experimentalfile_server.Rd | 82 - man/module_experimentalfile_ui.Rd | 66 - man/module_fileupload_server.Rd | 88 - man/module_fileupload_ui.Rd | 72 - man/module_info_server.Rd | 84 - man/module_info_ui.Rd | 66 - man/module_log_server.Rd | 88 - man/module_log_ui.Rd | 66 - man/module_modelselection_server.Rd | 84 - man/module_modelselection_ui.Rd | 66 - man/module_plotting_server.Rd | 88 - man/module_plotting_ui.Rd | 66 - man/module_results_server.Rd | 88 - man/module_results_ui.Rd | 66 - man/module_settings_server.Rd | 88 - man/module_settings_ui.Rd | 66 - man/module_statistics_server.Rd | 84 - man/module_statistics_ui.Rd | 66 - tests/testthat.R | 8 tests/testthat/test-lints.R | 34 52 files changed, 6676 insertions(+), 6677 deletions(-)
Title: Extracting and Visualizing Paleobiodiversity
Description: Contains various tools for conveniently downloading and editing taxon-specific datasets from the Paleobiology Database <https://paleobiodb.org>, extracting information on abundance, temporal distribution of subtaxa and taxonomic diversity through deep time, and visualizing these data in relation to phylogeny and stratigraphy.
Author: Darius Nau [aut, cre]
Maintainer: Darius Nau <dariusnau@gmx.at>
Diff between paleoDiv versions 0.3.0 dated 2024-05-02 and 0.4.0 dated 2024-10-17
DESCRIPTION | 13 MD5 | 29 +- NAMESPACE | 7 NEWS.md | 19 + R/paleoDiv.R | 436 ++++++++++++++++++++++++++++--- build/vignette.rds |binary inst/doc/Paleobiodiversity_analysis.R | 2 inst/doc/Paleobiodiversity_analysis.html | 6 man/jitterp.Rd |only man/multijitter.Rd |only man/pdb.Rd | 11 man/pdb.autodiv.Rd | 4 man/phylo.spindles.Rd | 11 man/redraw.phylo.Rd | 2 man/tree.ages.spp.Rd | 2 man/viol.Rd | 5 man/violins.Rd |only 17 files changed, 475 insertions(+), 72 deletions(-)
Title: Computation of Generalized Nash Equilibria
Description: Compute standard and generalized Nash Equilibria of non-cooperative games.
Optimization methods available are nonsmooth reformulation, fixed-point formulation,
minimization problem and constrained-equation reformulation.
See e.g. Kanzow and Facchinei (2010), <doi:10.1007/s10479-009-0653-x>.
Author: Christophe Dutang [aut, cre]
Maintainer: Christophe Dutang <dutangc@gmail.com>
Diff between GNE versions 0.99-5 dated 2023-03-30 and 0.99-6 dated 2024-10-17
GNE-0.99-5/GNE/vignettes/GNE-howto-preamble.tex |only GNE-0.99-5/GNE/vignettes/GNE-howto.bib |only GNE-0.99-6/GNE/DESCRIPTION | 8 - GNE-0.99-6/GNE/MD5 | 30 ++-- GNE-0.99-6/GNE/README.md |only GNE-0.99-6/GNE/build/vignette.rds |binary GNE-0.99-6/GNE/inst/NEWS.Rd | 8 + GNE-0.99-6/GNE/inst/doc/GNE-optim-bench.R | 4 GNE-0.99-6/GNE/inst/doc/GNE-optim-bench.Rmd | 64 +++++----- GNE-0.99-6/GNE/inst/doc/GNE-optim-bench.pdf |binary GNE-0.99-6/GNE/man/GNE.Rd | 2 GNE-0.99-6/GNE/man/GNE.ceq.Rd | 2 GNE-0.99-6/GNE/man/GNE.fpeq.Rd | 4 GNE-0.99-6/GNE/man/GNE.nseq.Rd | 8 - GNE-0.99-6/GNE/man/eqsolve.depr.Rd | 2 GNE-0.99-6/GNE/vignettes/GNE-optim-bench.Rmd | 64 +++++----- GNE-0.99-6/GNE/vignettes/GNE-preamble.tex |only GNE-0.99-6/GNE/vignettes/GNE.bib |only GNE-0.99-6/GNE/vignettes/img/river-basin-pollution-game-indus-only.pdf |only 19 files changed, 103 insertions(+), 93 deletions(-)
Title: Statistical Methods for Survival Data with Dependent Censoring
Description: Several statistical methods for analyzing survival data under various forms of dependent
censoring are implemented in the package. In addition to accounting for dependent censoring, it
offers tools to adjust for unmeasured confounding factors. The implemented approaches allow
users to estimate the dependency between survival time and dependent censoring time, based
solely on observed survival data. For more details on the methods, refer to Deresa and Van
Keilegom (2021) <doi:10.1093/biomet/asaa095>, Czado and Van Keilegom (2023)
<doi:10.1093/biomet/asac067>, Crommen et al. (2024) <doi:10.1007/s11749-023-00903-9>
and Willems et al. (2024+) <doi:10.48550/arXiv.2403.11860>.
Author: Ilias Willems [aut] ,
Gilles Crommen [aut] ,
Negera Wakgari Deresa [aut, cre]
,
Ingrid Van Keilegom [aut] ,
Claudia Czado [aut]
Maintainer: Negera Wakgari Deresa <negera.deresa@gmail.com>
Diff between depCensoring versions 0.1.2 dated 2024-10-03 and 0.1.3 dated 2024-10-17
DESCRIPTION | 12 +++++++----- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/FullyParametricCopulas.R | 32 +++++++++++++++++--------------- man/ParamCop.Rd | 4 +++- man/optimlikelihood.Rd | 4 +++- 6 files changed, 39 insertions(+), 27 deletions(-)
Title: Fit and Apply ComBat, LMM, or Prescaling Harmonization for
ENIGMA and Other Multisite MRI Data
Description: Fit and apply ComBat, linear mixed-effects models (LMM), or prescaling to harmonize magnetic resonance imaging (MRI) data from different sites. Briefly, these methods remove differences between sites due to using different scanning devices, and LMM additionally tests linear hypotheses. As detailed in the manual, the original ComBat function was first modified for the harmonization of MRI data (Fortin et al. (2017) <doi:10.1016/j.neuroimage.2017.11.024>) and then modified again to create separate functions for fitting and applying the harmonization and allow missing values and constant rows for its use within the Enhancing Neuro Imaging Genetics through Meta-Analysis (ENIGMA) Consortium (Radua et al. (2020) <doi:10.1016/j.neuroimage.2017.11.024>); this package includes the latter version. LMM calls "lme" massively considering specific brain imaging details. Finally, prescaling is a good option for fMRI, where different devices can have varying units of measurement.
Author: Joaquim Radua [aut, cre]
Maintainer: Joaquim Radua <quimradua@gmail.com>
Diff between combat.enigma versions 1.0 dated 2023-10-06 and 1.1 dated 2024-10-17
combat.enigma-1.0/combat.enigma/man/combat_apply.Rd |only combat.enigma-1.1/combat.enigma/DESCRIPTION | 14 combat.enigma-1.1/combat.enigma/MD5 | 12 combat.enigma-1.1/combat.enigma/NAMESPACE | 8 combat.enigma-1.1/combat.enigma/NEWS |only combat.enigma-1.1/combat.enigma/R/source.R | 965 ++++++++++++++++---- combat.enigma-1.1/combat.enigma/man/combat_fit.Rd | 25 combat.enigma-1.1/combat.enigma/man/lmm_fit.Rd |only combat.enigma-1.1/combat.enigma/man/prescale_fit.Rd |only 9 files changed, 847 insertions(+), 177 deletions(-)
Title: Multivariate Outlier Explanations using Shapley Values and
Mahalanobis Distances
Description: Based on Shapley values to explain multivariate outlyingness and to detect and impute cellwise outliers.
Includes implementations of methods described in Mayrhofer and Filzmoser (2023) <doi:10.1016/j.ecosta.2023.04.003>.
Author: Marcus Mayrhofer [aut, cre],
Peter Filzmoser [aut]
Maintainer: Marcus Mayrhofer <marcus.mayrhofer@tuwien.ac.at>
Diff between ShapleyOutlier versions 0.1.1 dated 2023-02-20 and 0.1.2 dated 2024-10-17
DESCRIPTION | 10 MD5 | 16 - build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 30 ++ inst/REFERENCES.bib | 12 - inst/doc/ShapleyOutlier_examples.R | 2 inst/doc/ShapleyOutlier_examples.html | 363 +++++++++++++++++----------------- man/ShapleyOutlier-package.Rd | 2 9 files changed, 230 insertions(+), 205 deletions(-)
More information about ShapleyOutlier at CRAN
Permanent link
Title: Robust Matrix-Variate Parameter Estimation
Description: Robust covariance estimation for matrix-valued data and data with Kronecker-covariance structure using the Matrix Minimum Covariance Determinant (MMCD) estimators and outlier explanation using and Shapley values.
Author: Marcus Mayrhofer [aut, cre],
Una Radojicic [aut],
Peter Filzmoser [aut]
Maintainer: Marcus Mayrhofer <marcus.mayrhofer@tuwien.ac.at>
Diff between robustmatrix versions 0.1.2 dated 2024-01-29 and 0.1.3 dated 2024-10-17
DESCRIPTION | 8 +++--- MD5 | 13 +++++----- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION |only inst/REFERENCES.bib | 8 +++--- inst/doc/MMCD_examples.html | 53 +++++++++++++++++++++++++------------------- src/functions.cpp | 39 +++++++++++++++++++++++++++++--- 8 files changed, 81 insertions(+), 40 deletions(-)
Title: Counterfactual Explanations
Description: Modular and unified R6-based interface for counterfactual explanation methods.
The following methods are currently implemented: Burghmans et al. (2022) <doi:10.48550/arXiv.2104.07411>,
Dandl et al. (2020) <doi:10.1007/978-3-030-58112-1_31> and Wexler et al. (2019) <doi:10.1109/TVCG.2019.2934619>.
Optional extensions allow these methods to be applied to a variety of models and use cases.
Once generated, the counterfactuals can be analyzed and visualized by provided functionalities.
Author: Susanne Dandl [aut, cre] ,
Andreas Hofheinz [aut],
Martin Binder [ctb],
Giuseppe Casalicchio [ctb]
Maintainer: Susanne Dandl <dandls.datascience@gmail.com>
Diff between counterfactuals versions 0.1.5 dated 2024-10-15 and 0.1.6 dated 2024-10-17
DESCRIPTION | 6 MD5 | 8 NEWS.md | 3 inst/doc/how-to-add-new-cf-methods.html | 1011 ++++++++------------------------ inst/doc/other_models.html | 134 ++-- 5 files changed, 333 insertions(+), 829 deletions(-)
More information about counterfactuals at CRAN
Permanent link
Title: An Interface to Google's 'BigQuery Storage' API
Description: Easily talk to Google's 'BigQuery Storage' API from R
(<https://cloud.google.com/bigquery/docs/reference/storage/rpc>).
Author: Bruno Tremblay [aut, cre],
Google LLC [cph, fnd]
Maintainer: Bruno Tremblay <openr@neoxone.com>
Diff between bigrquerystorage versions 1.2.0 dated 2024-10-01 and 1.2.1 dated 2024-10-17
bigrquerystorage-1.2.0/bigrquerystorage/src/Makevars.win |only bigrquerystorage-1.2.0/bigrquerystorage/src/google |only bigrquerystorage-1.2.1/bigrquerystorage/DESCRIPTION | 8 bigrquerystorage-1.2.1/bigrquerystorage/MD5 | 105 bigrquerystorage-1.2.1/bigrquerystorage/NAMESPACE | 34 bigrquerystorage-1.2.1/bigrquerystorage/NEWS.md | 4 bigrquerystorage-1.2.1/bigrquerystorage/R/bigrquerystorage.R | 48 bigrquerystorage-1.2.1/bigrquerystorage/R/bqs_download.R | 676 ++-- bigrquerystorage-1.2.1/bigrquerystorage/R/client_info.R | 30 bigrquerystorage-1.2.1/bigrquerystorage/R/onload.R | 22 bigrquerystorage-1.2.1/bigrquerystorage/README.md | 408 +- bigrquerystorage-1.2.1/bigrquerystorage/configure | 3 bigrquerystorage-1.2.1/bigrquerystorage/configure.win | 7 bigrquerystorage-1.2.1/bigrquerystorage/inst/bqs_config/bigquerystorage_grpc_service_config.json | 122 bigrquerystorage-1.2.1/bigrquerystorage/man/bigrquerystorage-package.Rd | 54 bigrquerystorage-1.2.1/bigrquerystorage/man/bqs_auth.Rd | 92 bigrquerystorage-1.2.1/bigrquerystorage/man/bqs_table_download.Rd | 126 bigrquerystorage-1.2.1/bigrquerystorage/src/Makevars.win.withgrpc |only bigrquerystorage-1.2.1/bigrquerystorage/src/Makevars.win.withoutgrpc |only bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/api/annotations.proto | 62 bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/api/client.proto | 890 ++--- bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/api/field_behavior.proto | 208 - bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/api/http.proto | 742 ++-- bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/api/launch_stage.proto | 144 bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/api/resource.proto | 486 +-- bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/cloud/bigquery/storage/v1/arrow.proto | 128 bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/cloud/bigquery/storage/v1/avro.proto | 112 bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/cloud/bigquery/storage/v1/protobuf.proto | 96 bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/cloud/bigquery/storage/v1/storage.proto | 1548 +++++----- bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/cloud/bigquery/storage/v1/stream.proto | 670 ++-- bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/cloud/bigquery/storage/v1/table.proto | 378 +- bigrquerystorage-1.2.1/bigrquerystorage/src/protos/google/rpc/status.proto | 98 bigrquerystorage-1.2.1/bigrquerystorage/tests/testthat.R | 16 bigrquerystorage-1.2.1/bigrquerystorage/tests/testthat/test-integration.R | 426 +- bigrquerystorage-1.2.1/bigrquerystorage/tools |only 35 files changed, 3873 insertions(+), 3870 deletions(-)
More information about bigrquerystorage at CRAN
Permanent link
Title: An Implementation of 'Interactive Brokers' API
Description: Allows interaction with 'Interactive Brokers' 'Trader Workstation'
<https://interactivebrokers.github.io/tws-api/>.
Handles the connection over the network and the exchange of messages.
Data is encoded and decoded between user and wire formats.
Data structures and functionality closely mirror the official implementations.
Author: Luca Billi [aut, cre]
Maintainer: Luca Billi <noreply.section+dev@gmail.com>
Diff between rib versions 0.20.0 dated 2024-04-19 and 0.23.1 dated 2024-10-17
DESCRIPTION | 6 MD5 | 26 +- NAMESPACE | 1 NEWS.md | 4 R/Decoder.R | 441 +++++++++++++++++++++----------------- R/IBClient.R | 54 +++- R/IBWrap.R | 2 R/codes.R | 84 ------- R/constants.R | 11 R/structs.R | 12 - R/validate.R | 111 +++++---- inst/data-raw/codes_signature.txt | 8 inst/data-raw/codes_struct.txt | 11 man/structs.Rd | 3 14 files changed, 405 insertions(+), 369 deletions(-)
Title: Understand and Describe Bayesian Models and Posterior
Distributions
Description: Provides utilities to describe posterior
distributions and Bayesian models. It includes point-estimates such as
Maximum A Posteriori (MAP), measures of dispersion (Highest Density
Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and
indices used for null-hypothesis testing (such as ROPE percentage, pd
and Bayes factors). References: Makowski et al. (2021) <doi:10.21105/joss.01541>.
Author: Dominique Makowski [aut, cre] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Indrajeet Patil [aut] ,
Micah K. Wilson [aut] ,
Brenton M. Wiernik [aut] ,
Paul-Christian Buerkner [rev],
Tristan Mahr [rev] ,
Henrik Singmann [ctb] ,
Quentin F. Gron [...truncated...]
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between bayestestR versions 0.14.0 dated 2024-07-24 and 0.15.0 dated 2024-10-17
bayestestR-0.14.0/bayestestR/R/cwi.R |only bayestestR-0.14.0/bayestestR/man/cwi.Rd |only bayestestR-0.15.0/bayestestR/DESCRIPTION | 52 - bayestestR-0.15.0/bayestestR/MD5 | 189 +++--- bayestestR-0.15.0/bayestestR/NAMESPACE | 62 +- bayestestR-0.15.0/bayestestR/NEWS.md | 47 + bayestestR-0.15.0/bayestestR/R/bayesfactor.R | 4 bayestestR-0.15.0/bayestestR/R/bayesfactor_inclusion.R | 5 bayestestR-0.15.0/bayestestR/R/bayesfactor_models.R | 10 bayestestR-0.15.0/bayestestR/R/bayesfactor_parameters.R | 101 ++- bayestestR-0.15.0/bayestestR/R/bayesfactor_restricted.R | 35 + bayestestR-0.15.0/bayestestR/R/bci.R | 44 + bayestestR-0.15.0/bayestestR/R/bic_to_bf.R | 4 bayestestR-0.15.0/bayestestR/R/ci.R | 48 + bayestestR-0.15.0/bayestestR/R/convert_pd_to_p.R | 61 + bayestestR-0.15.0/bayestestR/R/describe_posterior.R | 160 ++++- bayestestR-0.15.0/bayestestR/R/describe_prior.R | 4 bayestestR-0.15.0/bayestestR/R/diagnostic_draws.R | 17 bayestestR-0.15.0/bayestestR/R/distribution.R | 32 - bayestestR-0.15.0/bayestestR/R/effective_sample.R | 10 bayestestR-0.15.0/bayestestR/R/equivalence_test.R | 101 ++- bayestestR-0.15.0/bayestestR/R/estimate_density.R | 54 + bayestestR-0.15.0/bayestestR/R/eti.R | 44 + bayestestR-0.15.0/bayestestR/R/format.R | 15 bayestestR-0.15.0/bayestestR/R/hdi.R | 39 + bayestestR-0.15.0/bayestestR/R/map_estimate.R | 35 + bayestestR-0.15.0/bayestestR/R/model_to_priors.R | 6 bayestestR-0.15.0/bayestestR/R/overlap.R | 52 + bayestestR-0.15.0/bayestestR/R/p_direction.R | 309 ++++++++-- bayestestR-0.15.0/bayestestR/R/p_map.R | 33 + bayestestR-0.15.0/bayestestR/R/p_rope.R | 45 + bayestestR-0.15.0/bayestestR/R/p_significance.R | 225 ++++++- bayestestR-0.15.0/bayestestR/R/point_estimate.R | 50 + bayestestR-0.15.0/bayestestR/R/print.R | 43 - bayestestR-0.15.0/bayestestR/R/print.equivalence_test.R | 69 -- bayestestR-0.15.0/bayestestR/R/print.rope.R | 2 bayestestR-0.15.0/bayestestR/R/print_html.R | 43 + bayestestR-0.15.0/bayestestR/R/print_md.R | 43 + bayestestR-0.15.0/bayestestR/R/rope.R | 124 +++- bayestestR-0.15.0/bayestestR/R/rope_range.R | 15 bayestestR-0.15.0/bayestestR/R/si.R | 46 + bayestestR-0.15.0/bayestestR/R/simulate_simpson.R | 2 bayestestR-0.15.0/bayestestR/R/spi.R | 52 + bayestestR-0.15.0/bayestestR/R/utils.R | 160 +++++ bayestestR-0.15.0/bayestestR/R/utils_bayesfactor.R | 22 bayestestR-0.15.0/bayestestR/build/partial.rdb |binary bayestestR-0.15.0/bayestestR/build/vignette.rds |binary bayestestR-0.15.0/bayestestR/inst/WORDLIST | 1 bayestestR-0.15.0/bayestestR/man/bayesfactor.Rd | 4 bayestestR-0.15.0/bayestestR/man/bayesfactor_parameters.Rd | 85 +- bayestestR-0.15.0/bayestestR/man/bayesfactor_restricted.Rd | 59 + bayestestR-0.15.0/bayestestR/man/bayestestR-package.Rd | 12 bayestestR-0.15.0/bayestestR/man/bci.Rd | 9 bayestestR-0.15.0/bayestestR/man/ci.Rd | 6 bayestestR-0.15.0/bayestestR/man/describe_posterior.Rd | 47 + bayestestR-0.15.0/bayestestR/man/effective_sample.Rd | 6 bayestestR-0.15.0/bayestestR/man/equivalence_test.Rd | 43 + bayestestR-0.15.0/bayestestR/man/estimate_density.Rd | 6 bayestestR-0.15.0/bayestestR/man/eti.Rd | 7 bayestestR-0.15.0/bayestestR/man/hdi.Rd | 9 bayestestR-0.15.0/bayestestR/man/map_estimate.Rd | 5 bayestestR-0.15.0/bayestestR/man/overlap.Rd | 4 bayestestR-0.15.0/bayestestR/man/p_direction.Rd | 150 +++- bayestestR-0.15.0/bayestestR/man/p_map.Rd | 6 bayestestR-0.15.0/bayestestR/man/p_rope.Rd | 33 - bayestestR-0.15.0/bayestestR/man/p_significance.Rd | 33 + bayestestR-0.15.0/bayestestR/man/pd_to_p.Rd | 42 - bayestestR-0.15.0/bayestestR/man/point_estimate.Rd | 13 bayestestR-0.15.0/bayestestR/man/rope.Rd | 45 + bayestestR-0.15.0/bayestestR/man/rope_range.Rd | 3 bayestestR-0.15.0/bayestestR/man/si.Rd | 39 - bayestestR-0.15.0/bayestestR/man/simulate_simpson.Rd | 2 bayestestR-0.15.0/bayestestR/man/spi.Rd | 7 bayestestR-0.15.0/bayestestR/tests/testthat/_snaps/equivalence_test.md |only bayestestR-0.15.0/bayestestR/tests/testthat/test-bayesfactor_models.R | 32 - bayestestR-0.15.0/bayestestR/tests/testthat/test-bayesfactor_parameters.R | 15 bayestestR-0.15.0/bayestestR/tests/testthat/test-bayesfactor_restricted.R | 6 bayestestR-0.15.0/bayestestR/tests/testthat/test-bayesian_as_frequentist.R | 4 bayestestR-0.15.0/bayestestR/tests/testthat/test-blavaan.R | 3 bayestestR-0.15.0/bayestestR/tests/testthat/test-brms.R | 16 bayestestR-0.15.0/bayestestR/tests/testthat/test-check_prior.R | 16 bayestestR-0.15.0/bayestestR/tests/testthat/test-ci.R | 4 bayestestR-0.15.0/bayestestR/tests/testthat/test-data.frame-with-rvar.R |only bayestestR-0.15.0/bayestestR/tests/testthat/test-describe_posterior.R | 26 bayestestR-0.15.0/bayestestR/tests/testthat/test-describe_prior.R | 2 bayestestR-0.15.0/bayestestR/tests/testthat/test-effective_sample.R | 6 bayestestR-0.15.0/bayestestR/tests/testthat/test-emmGrid.R | 44 - bayestestR-0.15.0/bayestestR/tests/testthat/test-equivalence_test.R |only bayestestR-0.15.0/bayestestR/tests/testthat/test-hdi.R | 8 bayestestR-0.15.0/bayestestR/tests/testthat/test-marginaleffects.R |only bayestestR-0.15.0/bayestestR/tests/testthat/test-p_direction.R | 28 bayestestR-0.15.0/bayestestR/tests/testthat/test-p_rope.R |only bayestestR-0.15.0/bayestestR/tests/testthat/test-p_significance.R | 60 + bayestestR-0.15.0/bayestestR/tests/testthat/test-point_estimate.R | 4 bayestestR-0.15.0/bayestestR/tests/testthat/test-print.R | 2 bayestestR-0.15.0/bayestestR/tests/testthat/test-rope.R | 27 bayestestR-0.15.0/bayestestR/tests/testthat/test-rstanarm.R | 12 bayestestR-0.15.0/bayestestR/tests/testthat/test-spi.R | 16 bayestestR-0.15.0/bayestestR/tests/testthat/test-weighted_posteriors.R | 18 99 files changed, 2673 insertions(+), 866 deletions(-)
Title: Sakai Sequential Relation Analysis
Description: 'Takea Semantic Structure Analysis' (TSSA) and 'Sakai Sequential
Relation Analysis' (SSRA) for polytomous items. Package includes functions for
generating a sequential relation table and a treegram to visualize the
sequential relations between pairs of items.
Author: Takuya Yanagida [cre, aut],
Keiko Sakai [aut]
Maintainer: Takuya Yanagida <takuya.yanagida@univie.ac.at>
Diff between SSRA versions 0.1-0 dated 2016-08-22 and 0.1-1 dated 2024-10-17
DESCRIPTION | 22 +++++++++++----------- MD5 | 43 ++++++++++++++++++++++--------------------- NAMESPACE | 17 +++++++---------- NEWS.md |only R/SSRA.R | 13 +++++-------- R/TSSA.R | 28 ++++++++++++---------------- R/plot.ssra.R | 12 ++++++------ R/print.ssra.R | 6 ++++-- R/print.tssa.R | 10 ++++++---- R/scatterplot.R | 31 ++++++------------------------- R/seqtable.R | 9 ++++----- R/start_message.R | 9 +++++---- R/summary.seqtable.R | 11 ++++------- R/treegram.R | 16 ++++++---------- man/SSRA.Rd | 23 ++++++++++------------- man/TSSA.Rd | 36 ++++++++++++++++-------------------- man/plot.ssra.Rd | 15 +++++++-------- man/print.ssra.Rd | 7 +++++-- man/print.tssa.Rd | 11 +++++++---- man/scatterplot.Rd | 13 ++++--------- man/seqtable.Rd | 13 ++++++------- man/summary.seqtable.Rd | 9 +++------ man/treegram.Rd | 19 +++++++------------ 23 files changed, 163 insertions(+), 210 deletions(-)
Title: Extracting and Visualizing Bayesian Graphical Models
Description: Fit and visualize the results of a Bayesian analysis of networks commonly found in psychology.
The package supports fitting cross-sectional network models fitted using the packages 'BDgraph', 'bgms' and 'BGGM'.
The package provides the parameter estimates, posterior inclusion probabilities, inclusion Bayes factor, and the
posterior density of the parameters. In addition, for 'BDgraph' and 'bgms' it allows to assess the posterior
structure space. Furthermore, the package comes with an extensive suite for visualizing results.
Author: Karoline Huth [aut, cre] ,
Sara Keetelaar [ctb]
Maintainer: Karoline Huth <k.huth@uva.nl>
Diff between easybgm versions 0.1.2 dated 2024-03-13 and 0.2.1 dated 2024-10-17
easybgm-0.1.2/easybgm/tests/testthat/_snaps/easybgm |only easybgm-0.2.1/easybgm/DESCRIPTION | 8 easybgm-0.2.1/easybgm/MD5 | 61 ++--- easybgm-0.2.1/easybgm/NAMESPACE | 7 easybgm-0.2.1/easybgm/R/AuxiliaryFunctions.R | 176 +++++++++++------ easybgm-0.2.1/easybgm/R/bgm_plot_class.R | 49 ++-- easybgm-0.2.1/easybgm/R/easybgm.R | 33 ++- easybgm-0.2.1/easybgm/R/functions.bdgraph.R | 14 - easybgm-0.2.1/easybgm/R/functions.bggm.R | 4 easybgm-0.2.1/easybgm/R/functions.bgms.R | 62 ++++- easybgm-0.2.1/easybgm/R/plottingfunctions.bgms.R | 62 ++++- easybgm-0.2.1/easybgm/R/plottingfunctions.easybgm.R | 8 easybgm-0.2.1/easybgm/R/sparse_dense.R |only easybgm-0.2.1/easybgm/R/summary.easybgm.R | 3 easybgm-0.2.1/easybgm/man/HDI.Rd | 9 easybgm-0.2.1/easybgm/man/centrality.Rd | 10 easybgm-0.2.1/easybgm/man/complexity_probs.Rd | 7 easybgm-0.2.1/easybgm/man/easybgm.Rd | 29 ++ easybgm-0.2.1/easybgm/man/edgeevidence.Rd | 4 easybgm-0.2.1/easybgm/man/prior_sensitivity.Rd | 1 easybgm-0.2.1/easybgm/man/sparse_or_dense.Rd |only easybgm-0.2.1/easybgm/man/structure.Rd | 6 easybgm-0.2.1/easybgm/man/structure_probs.Rd | 7 easybgm-0.2.1/easybgm/tests/testthat/Rplots.pdf |binary easybgm-0.2.1/easybgm/tests/testthat/_snaps/easybgm.md | 24 ++ easybgm-0.2.1/easybgm/tests/testthat/test-easybgm.R | 42 ++-- 26 files changed, 404 insertions(+), 222 deletions(-)
Title: An Interface to Specify Causal Graphs and Compute Bounds on
Causal Effects
Description: When causal quantities are not identifiable from the observed data, it still may be possible
to bound these quantities using the observed data. We outline a class of problems for which the
derivation of tight bounds is always a linear programming problem and can therefore, at least
theoretically, be solved using a symbolic linear optimizer. We extend and generalize the
approach of Balke and Pearl (1994) <doi:10.1016/B978-1-55860-332-5.50011-0> and we provide
a user friendly graphical interface for setting up such problems via directed acyclic
graphs (DAG), which only allow for problems within this class to be depicted. The user can
then define linear constraints to further refine their assumptions to meet their specific
problem, and then specify a causal query using a text interface. The program converts this
user defined DAG, query, and constraints, and returns tight bounds. The bounds can be
converted to R functions to evaluate them for specific datasets, and to latex code for
[...truncated...]
Author: Michael C Sachs [aut, cre],
Erin E Gabriel [aut],
Arvid Sjoelander [aut],
Gustav Jonzon [aut],
Alexander A Balke [ctb] ),
Colorado Reed [ctb] )
Maintainer: Michael C Sachs <sachsmc@gmail.com>
Diff between causaloptim versions 0.9.8 dated 2023-10-31 and 1.0.0 dated 2024-10-17
causaloptim-0.9.8/causaloptim/R/response-functional.R |only causaloptim-0.9.8/causaloptim/R/update-effect.R |only causaloptim-0.9.8/causaloptim/R/zzz.R |only causaloptim-0.9.8/causaloptim/inst/include |only causaloptim-0.9.8/causaloptim/man/create_R_matrix.Rd |only causaloptim-0.9.8/causaloptim/man/optimize_effect.Rd |only causaloptim-0.9.8/causaloptim/src |only causaloptim-1.0.0/causaloptim/DESCRIPTION | 19 causaloptim-1.0.0/causaloptim/MD5 | 107 - causaloptim-1.0.0/causaloptim/NAMESPACE | 79 - causaloptim-1.0.0/causaloptim/NEWS.md | 12 causaloptim-1.0.0/causaloptim/R/analyze-graph.R |only causaloptim-1.0.0/causaloptim/R/causal-model.R |only causaloptim-1.0.0/causaloptim/R/causaloptim-package.R | 28 causaloptim-1.0.0/causaloptim/R/check-linearity.R |only causaloptim-1.0.0/causaloptim/R/create-linear-causal-problem.R |only causaloptim-1.0.0/causaloptim/R/deprecated.R |only causaloptim-1.0.0/causaloptim/R/graph-utilities.R | 94 + causaloptim-1.0.0/causaloptim/R/process-optimizer.R | 206 --- causaloptim-1.0.0/causaloptim/R/text-parsing.R | 4 causaloptim-1.0.0/causaloptim/R/translation-modules.R | 298 +---- causaloptim-1.0.0/causaloptim/R/utils.R | 99 + causaloptim-1.0.0/causaloptim/README.md | 4 causaloptim-1.0.0/causaloptim/build/vignette.rds |binary causaloptim-1.0.0/causaloptim/inst/doc/example-code.R | 5 causaloptim-1.0.0/causaloptim/inst/doc/example-code.Rmd | 541 ++++------ causaloptim-1.0.0/causaloptim/inst/doc/example-code.html | 93 - causaloptim-1.0.0/causaloptim/inst/doc/shinyapp.html | 54 causaloptim-1.0.0/causaloptim/inst/doc/vertexenum-speed.html | 20 causaloptim-1.0.0/causaloptim/man/analyze_graph.Rd | 10 causaloptim-1.0.0/causaloptim/man/btm_var.Rd |only causaloptim-1.0.0/causaloptim/man/causaloptim-package.Rd | 2 causaloptim-1.0.0/causaloptim/man/check_constraints_violated.Rd |only causaloptim-1.0.0/causaloptim/man/check_linear_objective.Rd |only causaloptim-1.0.0/causaloptim/man/check_parents.Rd |only causaloptim-1.0.0/causaloptim/man/create_causalmodel.Rd |only causaloptim-1.0.0/causaloptim/man/create_effect_vector.Rd | 49 causaloptim-1.0.0/causaloptim/man/create_linearcausalproblem.Rd |only causaloptim-1.0.0/causaloptim/man/create_q_matrix.Rd | 11 causaloptim-1.0.0/causaloptim/man/create_response_function.Rd | 19 causaloptim-1.0.0/causaloptim/man/find_all_paths.Rd |only causaloptim-1.0.0/causaloptim/man/initialize_graph.Rd |only causaloptim-1.0.0/causaloptim/man/interpret_bounds.Rd | 2 causaloptim-1.0.0/causaloptim/man/latex_bounds.Rd | 4 causaloptim-1.0.0/causaloptim/man/list_to_path.Rd |only causaloptim-1.0.0/causaloptim/man/optimize_effect_2.Rd | 16 causaloptim-1.0.0/causaloptim/man/plot.linearcausalproblem.Rd | 2 causaloptim-1.0.0/causaloptim/man/print.causalmodel.Rd |only causaloptim-1.0.0/causaloptim/man/print.linearcausalproblem.Rd | 2 causaloptim-1.0.0/causaloptim/man/querycheck.Rd | 2 causaloptim-1.0.0/causaloptim/man/rdirichlet.Rd |only causaloptim-1.0.0/causaloptim/man/sample_distribution.Rd |only causaloptim-1.0.0/causaloptim/man/simulate_bounds.Rd | 12 causaloptim-1.0.0/causaloptim/man/update_effect.Rd | 2 causaloptim-1.0.0/causaloptim/tests/testthat/test-check-linearity.R |only causaloptim-1.0.0/causaloptim/tests/testthat/test-inequalities.R |only causaloptim-1.0.0/causaloptim/tests/testthat/test-known-bounds.R | 159 +- causaloptim-1.0.0/causaloptim/vignettes/example-code.Rmd | 541 ++++------ 58 files changed, 1155 insertions(+), 1341 deletions(-)
Title: Progress Bar for Parallel Tasks
Description: A simple interface in the form of R6 classes for executing tasks in
parallel, tracking their progress, and displaying accurate progress bars.
Author: Mihai Constantin [aut, cre]
Maintainer: Mihai Constantin <mihai@mihaiconstantin.com>
Diff between parabar versions 1.1.1 dated 2024-02-05 and 1.2.1 dated 2024-10-17
parabar-1.1.1/parabar/R/exports.r |only parabar-1.2.1/parabar/DESCRIPTION | 10 parabar-1.2.1/parabar/MD5 | 62 - parabar-1.2.1/parabar/NEWS.md | 13 parabar-1.2.1/parabar/R/AsyncBackend.R | 10 parabar-1.2.1/parabar/R/Backend.R | 2 parabar-1.2.1/parabar/R/Bar.R | 2 parabar-1.2.1/parabar/R/Context.R | 19 parabar-1.2.1/parabar/R/Exception.R | 2 parabar-1.2.1/parabar/R/ProgressTrackingContext.R | 14 parabar-1.2.1/parabar/R/Service.R | 12 parabar-1.2.1/parabar/R/SyncBackend.R | 18 parabar-1.2.1/parabar/R/UserApiConsumer.R | 22 parabar-1.2.1/parabar/R/exports.R |only parabar-1.2.1/parabar/README.md | 2 parabar-1.2.1/parabar/build/vignette.rds |binary parabar-1.2.1/parabar/inst/doc/comparison.html | 776 +++++++++---------- parabar-1.2.1/parabar/man/Backend.Rd | 2 parabar-1.2.1/parabar/man/Bar.Rd | 2 parabar-1.2.1/parabar/man/Context.Rd | 17 parabar-1.2.1/parabar/man/ProgressTrackingContext.Rd | 13 parabar-1.2.1/parabar/man/Service.Rd | 2 parabar-1.2.1/parabar/man/clear.Rd | 2 parabar-1.2.1/parabar/man/configure_bar.Rd | 2 parabar-1.2.1/parabar/man/evaluate.Rd | 2 parabar-1.2.1/parabar/man/export.Rd | 2 parabar-1.2.1/parabar/man/option.Rd | 2 parabar-1.2.1/parabar/man/par_apply.Rd | 2 parabar-1.2.1/parabar/man/par_lapply.Rd | 2 parabar-1.2.1/parabar/man/par_sapply.Rd | 2 parabar-1.2.1/parabar/man/peek.Rd | 2 parabar-1.2.1/parabar/man/start_backend.Rd | 2 parabar-1.2.1/parabar/man/stop_backend.Rd | 2 33 files changed, 533 insertions(+), 489 deletions(-)
Title: Dynamic Multi-Species Size Spectrum Modelling
Description: A set of classes and methods to set up and run multi-species, trait
based and community size spectrum ecological models, focused on the marine
environment.
Author: Gustav Delius [cre, aut, cph] ,
Finlay Scott [aut, cph],
Julia Blanchard [aut, cph] ,
Ken Andersen [aut, cph] ,
Richard Southwell [ctb, cph]
Maintainer: Gustav Delius <gustav.delius@york.ac.uk>
Diff between mizer versions 2.5.2 dated 2024-10-14 and 2.5.3 dated 2024-10-17
mizer-2.5.2/mizer/inst/doc/mizer.R |only mizer-2.5.2/mizer/inst/doc/mizer.Rmd |only mizer-2.5.2/mizer/inst/doc/mizer.html |only mizer-2.5.2/mizer/man/idxFinalT.Rd |only mizer-2.5.2/mizer/vignettes/mizer.Rmd |only mizer-2.5.3/mizer/DESCRIPTION | 8 mizer-2.5.3/mizer/MD5 | 150 +++++----- mizer-2.5.3/mizer/NAMESPACE | 3 mizer-2.5.3/mizer/NEWS.md | 11 mizer-2.5.3/mizer/R/MizerParams-class.R | 116 +++++++ mizer-2.5.3/mizer/R/MizerSim-class.R | 78 ++++- mizer-2.5.3/mizer/R/compareParams.R | 2 mizer-2.5.3/mizer/R/extension.R | 3 mizer-2.5.3/mizer/R/newMultispeciesParams.R | 13 mizer-2.5.3/mizer/R/plotBiomassObservedVsModel.R | 6 mizer-2.5.3/mizer/R/plots.R | 8 mizer-2.5.3/mizer/R/pred_kernel_funcs.R | 32 ++ mizer-2.5.3/mizer/R/rate_functions.R | 80 +++-- mizer-2.5.3/mizer/R/setFishing.R | 49 +-- mizer-2.5.3/mizer/R/upgrade.R | 76 +---- mizer-2.5.3/mizer/R/validSpeciesParams.R | 48 +-- mizer-2.5.3/mizer/README.md | 2 mizer-2.5.3/mizer/build/vignette.rds |binary mizer-2.5.3/mizer/data/NS_params.rda |binary mizer-2.5.3/mizer/data/NS_sim.rda |binary mizer-2.5.3/mizer/inst/doc/mizer_vignette.R |only mizer-2.5.3/mizer/inst/doc/mizer_vignette.Rmd |only mizer-2.5.3/mizer/inst/doc/mizer_vignette.pdf |only mizer-2.5.3/mizer/man/animateSpectra.Rd | 1 mizer-2.5.3/mizer/man/box_pred_kernel.Rd | 10 mizer-2.5.3/mizer/man/calc_selectivity.Rd | 1 mizer-2.5.3/mizer/man/completeSpeciesParams.Rd | 15 - mizer-2.5.3/mizer/man/figures/unnamed-chunk-4-1.png |binary mizer-2.5.3/mizer/man/finalN.Rd | 18 + mizer-2.5.3/mizer/man/getCriticalFeedingLevel.Rd | 5 mizer-2.5.3/mizer/man/getEGrowth.Rd | 4 mizer-2.5.3/mizer/man/getERepro.Rd | 6 mizer-2.5.3/mizer/man/getEReproAndGrowth.Rd | 6 mizer-2.5.3/mizer/man/getESpawning.Rd | 6 mizer-2.5.3/mizer/man/getFMort.Rd | 19 - mizer-2.5.3/mizer/man/getFMortGear.Rd | 19 - mizer-2.5.3/mizer/man/getM2.Rd | 10 mizer-2.5.3/mizer/man/getMort.Rd | 6 mizer-2.5.3/mizer/man/getPredMort.Rd | 10 mizer-2.5.3/mizer/man/getPredRate.Rd | 6 mizer-2.5.3/mizer/man/getZ.Rd | 6 mizer-2.5.3/mizer/man/initial_effort.Rd | 19 - mizer-2.5.3/mizer/man/lognormal_pred_kernel.Rd | 10 mizer-2.5.3/mizer/man/needs_upgrading.Rd | 2 mizer-2.5.3/mizer/man/plot-MizerParams-missing-method.Rd |only mizer-2.5.3/mizer/man/plotBiomass.Rd | 1 mizer-2.5.3/mizer/man/plotBiomassObservedVsModel.Rd | 6 mizer-2.5.3/mizer/man/plotDiet.Rd | 1 mizer-2.5.3/mizer/man/plotFMort.Rd | 1 mizer-2.5.3/mizer/man/plotFeedingLevel.Rd | 1 mizer-2.5.3/mizer/man/plotGrowthCurves.Rd | 1 mizer-2.5.3/mizer/man/plotM2.Rd | 1 mizer-2.5.3/mizer/man/plotMizerSim.Rd | 32 -- mizer-2.5.3/mizer/man/plotPredMort.Rd | 1 mizer-2.5.3/mizer/man/plotSpectra.Rd | 1 mizer-2.5.3/mizer/man/plotYield.Rd | 1 mizer-2.5.3/mizer/man/plotYieldGear.Rd | 1 mizer-2.5.3/mizer/man/plotting_functions.Rd | 1 mizer-2.5.3/mizer/man/power_law_pred_kernel.Rd | 13 mizer-2.5.3/mizer/man/truncated_lognormal_pred_kernel.Rd | 7 mizer-2.5.3/mizer/man/upgradeParams.Rd | 43 -- mizer-2.5.3/mizer/man/upgradeSim.Rd | 42 -- mizer-2.5.3/mizer/man/validParams.Rd | 51 +++ mizer-2.5.3/mizer/man/validSim.Rd |only mizer-2.5.3/mizer/man/validSpeciesParams.Rd | 17 - mizer-2.5.3/mizer/tests/testthat/Rplots.pdf |binary mizer-2.5.3/mizer/tests/testthat/test-MizerSim-class.R | 13 mizer-2.5.3/mizer/tests/testthat/test-newMultispeciesParams.R | 5 mizer-2.5.3/mizer/tests/testthat/test-project.R | 2 mizer-2.5.3/mizer/tests/testthat/test-project_methods.R | 6 mizer-2.5.3/mizer/tests/testthat/test-selectivity_funcs.R | 8 mizer-2.5.3/mizer/tests/testthat/test-setFishing.R | 9 mizer-2.5.3/mizer/tests/testthat/test-setReproduction.R | 7 mizer-2.5.3/mizer/tests/testthat/test-upgrade.R | 18 - mizer-2.5.3/mizer/vignettes/mizer.R |only mizer-2.5.3/mizer/vignettes/mizer.html |only mizer-2.5.3/mizer/vignettes/mizer_vignette.Rmd |only mizer-2.5.3/mizer/vignettes/mizer_vignette.html |only 83 files changed, 707 insertions(+), 447 deletions(-)
Title: Access to Spanish Meteorological Stations Services
Description: Access to different Spanish meteorological stations data services and APIs (AEMET, SMC, MG,
Meteoclimatic...).
Author: Victor Granda [aut, cre] ,
Miquel de Caceres [ctb] ,
Aitor Ameztegui [ctb] ,
Luis Franco [ctb],
Ruben Fernandez-Casal [ctb]
Maintainer: Victor Granda <victorgrandagarcia@gmail.com>
Diff between meteospain versions 0.1.4 dated 2023-12-19 and 0.2.0 dated 2024-10-17
DESCRIPTION | 8 MD5 | 68 +++--- NEWS.md | 12 + R/aemet_helpers.R | 10 + R/get_data.R | 4 R/meteocat_helpers.R | 31 ++- R/meteoclimatic_helpers.R | 4 R/services_options.R | 2 R/utils.R | 12 + README.md | 66 +++--- build/vignette.rds |binary inst/doc/aemet.R | 4 inst/doc/aemet.Rmd | 4 inst/doc/aemet.html | 94 +++++---- inst/doc/api_limits.R | 22 +- inst/doc/api_limits.Rmd | 30 +-- inst/doc/api_limits.html | 206 ++++++++++++--------- inst/doc/compatibility.R | 8 inst/doc/compatibility.Rmd | 8 inst/doc/compatibility.html | 170 ++++++++--------- inst/doc/meteocat.html | 13 - inst/doc/meteoclimatic.html | 65 +++--- inst/doc/meteogalicia.html | 29 +- inst/doc/ria.html | 170 ++++++++--------- man/figures/README-plot_stations-1.png |binary man/figures/README-plot_stations-2.png |binary man/get_meteo_from.Rd | 4 man/services_options.Rd | 2 tests/testthat/test-aemet.R | 11 - tests/testthat/test-concordance_between_services.R | 8 tests/testthat/test-meteocat.R | 55 ++++- tests/testthat/test-riaa.R | 5 vignettes/aemet.Rmd | 4 vignettes/api_limits.Rmd | 30 +-- vignettes/compatibility.Rmd | 8 35 files changed, 660 insertions(+), 507 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Hyunki Lee [aut],
Changwoo Lim [aut],
Jinhwan Kim [aut] ,
Yoonkyoung Jeon [aut],
Jaewoong Heo [aut],
Youngsun Park [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.5.8 dated 2024-09-20 and 1.5.9 dated 2024-10-17
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 4 ++++ R/FilePsInput.R | 4 ++-- R/FileRepeatedInput.R | 2 +- R/FileSurveyInput.R | 2 +- R/line.R | 35 ++++++++++++++++++----------------- inst/doc/jsmodule.html | 4 ++-- 8 files changed, 39 insertions(+), 34 deletions(-)
Title: Analysis of Spatial Stratified Heterogeneity
Description: Analyzing spatial factors and exploring spatial associations based on the concept of spatial
stratified heterogeneity, and also takes into account local spatial dependencies, spatial
interpretability, potential spatial interactions, and robust spatial stratification. Additionally,
it supports geographical detector models established in academic literature.
Author: Wenbo Lv [aut, cre, cph] ,
Yangyang Lei [aut] ,
Fangmei Liu [aut] ,
Wufan Zhao [aut] ,
Yongze Song [aut] ,
Jianwu Yan [aut]
Maintainer: Wenbo Lv <lyu.geosocial@gmail.com>
Diff between gdverse versions 1.1.0 dated 2024-10-10 and 1.1-1 dated 2024-10-17
gdverse-1.1-1/gdverse/DESCRIPTION | 25 gdverse-1.1-1/gdverse/MD5 | 69 - gdverse-1.1-1/gdverse/NAMESPACE | 1 gdverse-1.1-1/gdverse/NEWS.md | 6 gdverse-1.1-1/gdverse/R/gd.R | 2 gdverse-1.1-1/gdverse/R/geodetector.R | 4 gdverse-1.1-1/gdverse/R/idsa.R | 426 +++--- gdverse-1.1-1/gdverse/R/lesh.R | 4 gdverse-1.1-1/gdverse/R/loess_optscale.R | 78 - gdverse-1.1-1/gdverse/R/pid_idsa.R | 500 +++---- gdverse-1.1-1/gdverse/R/psd_pseudop.R | 320 ++-- gdverse-1.1-1/gdverse/R/psd_spade.R | 410 +++--- gdverse-1.1-1/gdverse/R/rid.R | 256 +-- gdverse-1.1-1/gdverse/R/utils_helper.R | 32 gdverse-1.1-1/gdverse/R/zzz.R | 1 gdverse-1.1-1/gdverse/README.md | 12 gdverse-1.1-1/gdverse/inst/doc/idsa.Rmd | 232 +-- gdverse-1.1-1/gdverse/inst/doc/rgdrid.Rmd | 210 +-- gdverse-1.1-1/gdverse/inst/doc/sesu.Rmd | 1270 +++++++++---------- gdverse-1.1-1/gdverse/inst/doc/shegd.Rmd | 36 gdverse-1.1-1/gdverse/inst/doc/shegd.html | 36 gdverse-1.1-1/gdverse/inst/doc/spade.Rmd | 444 +++--- gdverse-1.1-1/gdverse/man/all2int.Rd | 2 gdverse-1.1-1/gdverse/man/factor_detector.Rd | 4 gdverse-1.1-1/gdverse/man/figures/logo.png |binary gdverse-1.1-1/gdverse/man/gd.Rd | 2 gdverse-1.1-1/gdverse/man/generate_subsets.Rd | 5 gdverse-1.1-1/gdverse/man/inverse_distance_weight.Rd | 2 gdverse-1.1-1/gdverse/vignettes/idsa.Rmd | 232 +-- gdverse-1.1-1/gdverse/vignettes/rgdrid.Rmd | 210 +-- gdverse-1.1-1/gdverse/vignettes/sesu.Rmd | 1270 +++++++++---------- gdverse-1.1-1/gdverse/vignettes/sesu.Rmd.orig | 158 +- gdverse-1.1-1/gdverse/vignettes/shegd.Rmd | 36 gdverse-1.1-1/gdverse/vignettes/spade.Rmd | 444 +++--- gdverse-1.1.0/gdverse/inst/WORDLIST |only gdverse-1.1.0/gdverse/inst/python/__pycache__ |only gdverse-1.1.0/gdverse/man/rescale_vector.Rd |only 37 files changed, 3361 insertions(+), 3378 deletions(-)
Title: Make Fake Data
Description: Make fake data that looks realistic, supporting addresses,
person names, dates,
times, colors, coordinates, currencies, digital object identifiers
('DOIs'), jobs, phone numbers, 'DNA' sequences, doubles and integers
from distributions and within a range.
Author: Roel M. Hogervorst [cre, aut] ,
Scott Chamberlain [aut] ,
Kyle Voytovich [aut],
Martin Pedersen [ctb],
Brooke Anderson [rev] ,
Tristan Mahr [rev] ,
rOpenSci [fnd]
Maintainer: Roel M. Hogervorst <hogervorst.rm@gmail.com>
Diff between charlatan versions 0.5.1 dated 2023-09-13 and 0.6.1 dated 2024-10-17
charlatan-0.5.1/charlatan/R/phone-number-provider-all.R |only charlatan-0.5.1/charlatan/R/phonenumbers-provider.R |only charlatan-0.5.1/charlatan/inst/examples/address-provider-en_US.R |only charlatan-0.6.1/charlatan/DESCRIPTION | 69 charlatan-0.6.1/charlatan/MD5 | 558 +- charlatan-0.6.1/charlatan/NAMESPACE | 123 charlatan-0.6.1/charlatan/NEWS.md | 58 charlatan-0.6.1/charlatan/R/address-provider-en_GB.R | 657 +-- charlatan-0.6.1/charlatan/R/address-provider-en_NZ.R | 678 +-- charlatan-0.6.1/charlatan/R/address-provider-en_US.R | 670 +-- charlatan-0.6.1/charlatan/R/address-provider-nl_NL.R | 230 - charlatan-0.6.1/charlatan/R/address-provider.R | 268 - charlatan-0.6.1/charlatan/R/available_locales.R | 40 charlatan-0.6.1/charlatan/R/available_providers.R |only charlatan-0.6.1/charlatan/R/base-provider.R | 90 charlatan-0.6.1/charlatan/R/charlatan-package.R | 8 charlatan-0.6.1/charlatan/R/charlatan_settings.R | 4 charlatan-0.6.1/charlatan/R/color-provider-en_US.R | 315 - charlatan-0.6.1/charlatan/R/color-provider-uk_UA.R | 657 +-- charlatan-0.6.1/charlatan/R/color-provider.R | 73 charlatan-0.6.1/charlatan/R/color.R | 43 charlatan-0.6.1/charlatan/R/company-provider-bg_BG.R | 70 charlatan-0.6.1/charlatan/R/company-provider-cs_CZ.R | 35 charlatan-0.6.1/charlatan/R/company-provider-de_DE.R | 42 charlatan-0.6.1/charlatan/R/company-provider-en_US.R | 213 charlatan-0.6.1/charlatan/R/company-provider-es_MX.R | 805 +-- charlatan-0.6.1/charlatan/R/company-provider-fa_IR.R | 2133 +++++----- charlatan-0.6.1/charlatan/R/company-provider-fr_FR.R | 146 charlatan-0.6.1/charlatan/R/company-provider-hr_HR.R | 36 charlatan-0.6.1/charlatan/R/company-provider-it_IT.R | 364 - charlatan-0.6.1/charlatan/R/company-provider.R | 157 charlatan-0.6.1/charlatan/R/company.R | 12 charlatan-0.6.1/charlatan/R/coordinate-provider.R | 2 charlatan-0.6.1/charlatan/R/credit_card-provider.R | 5 charlatan-0.6.1/charlatan/R/credit_card.R | 4 charlatan-0.6.1/charlatan/R/currency-provider.R | 5 charlatan-0.6.1/charlatan/R/currency.R | 2 charlatan-0.6.1/charlatan/R/datetime-provider.R | 23 charlatan-0.6.1/charlatan/R/doi-provider.R | 5 charlatan-0.6.1/charlatan/R/element-provider.R | 201 charlatan-0.6.1/charlatan/R/elements.R | 8 charlatan-0.6.1/charlatan/R/file-provider.R | 63 charlatan-0.6.1/charlatan/R/fraudster.R | 229 - charlatan-0.6.1/charlatan/R/generate.R | 3 charlatan-0.6.1/charlatan/R/internet-provider-bg_BG.R | 26 charlatan-0.6.1/charlatan/R/internet-provider-cs_CZ.R | 25 charlatan-0.6.1/charlatan/R/internet-provider-de_DE.R | 24 charlatan-0.6.1/charlatan/R/internet-provider-en_AU.R | 20 charlatan-0.6.1/charlatan/R/internet-provider-en_NZ.R | 23 charlatan-0.6.1/charlatan/R/internet-provider-en_US.R |only charlatan-0.6.1/charlatan/R/internet-provider-fa_IR.R | 24 charlatan-0.6.1/charlatan/R/internet-provider-fr_FR.R | 25 charlatan-0.6.1/charlatan/R/internet-provider-hr_HR.R | 24 charlatan-0.6.1/charlatan/R/internet-provider.R | 307 - 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Title: Mixture fMRI Clustering Analysis
Description: Utilizing model-based clustering (unsupervised)
for functional magnetic resonance imaging (fMRI) data.
The developed methods (Chen and Maitra (2023) <doi:10.1002/hbm.26425>)
include 2D and 3D clustering analyses
(for p-values with voxel locations) and
segmentation analyses (for p-values alone) for fMRI data where p-values
indicate significant level of activation responding to stimulate
of interesting. The analyses are mainly identifying active
voxel/signal associated with normal brain behaviors.
Analysis pipelines (R scripts) utilizing this package
(see examples in 'inst/workflow/') is also implemented with high
performance techniques.
Author: Wei-Chen Chen [aut, cre],
Ranjan Maitra [aut],
Dan Nettleton [aut, ctb],
Pierre Lafaye De Micheaux [aut, ctb] ,
Jonathan L Marchini [aut, ctb]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between MixfMRI versions 0.1-3 dated 2023-09-04 and 0.1-4 dated 2024-10-17
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/utility.r | 4 ++-- inst/CITATION | 6 ++++-- man/00_MixfMRI-package.Rd | 3 ++- man/u4_cba_cor.Rd | 3 ++- src/spatial.c | 22 +++++++++++----------- 8 files changed, 36 insertions(+), 28 deletions(-)