Title: Project Environments
Description: A dependency management toolkit for R. Using 'renv', you can create
and manage project-local R libraries, save the state of these libraries to
a 'lockfile', and later restore your library as required. Together, these
tools can help make your projects more isolated, portable, and reproducible.
Author: Kevin Ushey [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between renv versions 0.16.0 dated 2022-09-29 and 0.17.0 dated 2023-03-01
renv-0.16.0/renv/R/timecache.R |only renv-0.16.0/renv/inst/repos/src/contrib/renv_0.16.0.tar.gz |only renv-0.16.0/renv/inst/resources/scripts-repos-cache.R |only renv-0.16.0/renv/tests/testthat/test-file-backed.R |only renv-0.16.0/renv/tests/testthat/test-timecache.R |only renv-0.17.0/renv/DESCRIPTION | 12 renv-0.17.0/renv/LICENSE | 2 renv-0.17.0/renv/MD5 | 271 +++++----- renv-0.17.0/renv/NEWS.md | 93 +++ renv-0.17.0/renv/R/activate.R | 12 renv-0.17.0/renv/R/available-packages.R | 208 ++++--- renv-0.17.0/renv/R/base64.R | 28 - renv-0.17.0/renv/R/bioconductor.R | 21 renv-0.17.0/renv/R/bootstrap.R | 20 renv-0.17.0/renv/R/cache.R | 8 renv-0.17.0/renv/R/config.R | 10 renv-0.17.0/renv/R/consent.R | 4 renv-0.17.0/renv/R/dependencies.R | 22 renv-0.17.0/renv/R/description.R | 60 +- renv-0.17.0/renv/R/diagnostics.R | 2 renv-0.17.0/renv/R/difftime.R | 14 renv-0.17.0/renv/R/dots.R | 20 renv-0.17.0/renv/R/download.R | 28 - renv-0.17.0/renv/R/envvar.R | 2 renv-0.17.0/renv/R/exports.R | 4 renv-0.17.0/renv/R/extsoft.R | 6 renv-0.17.0/renv/R/filebacked.R | 23 renv-0.17.0/renv/R/files.R | 27 renv-0.17.0/renv/R/globals.R | 4 renv-0.17.0/renv/R/hydrate.R | 137 ++++- renv-0.17.0/renv/R/imbue.R | 25 renv-0.17.0/renv/R/index.R |only renv-0.17.0/renv/R/infrastructure.R | 6 renv-0.17.0/renv/R/init.R | 28 - 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renv-0.17.0/renv/R/scope.R | 7 renv-0.17.0/renv/R/skip.R | 4 renv-0.17.0/renv/R/snapshot-auto.R | 17 renv-0.17.0/renv/R/snapshot.R | 174 ++++-- renv-0.17.0/renv/R/status.R | 53 + renv-0.17.0/renv/R/template.R | 4 renv-0.17.0/renv/R/tests.R | 29 - renv-0.17.0/renv/R/update.R | 31 - renv-0.17.0/renv/R/upgrade.R | 4 renv-0.17.0/renv/R/use-python.R | 6 renv-0.17.0/renv/R/use.R | 30 + renv-0.17.0/renv/R/utils-map.R | 8 renv-0.17.0/renv/R/utils.R | 106 ++- renv-0.17.0/renv/R/vendor.R |only renv-0.17.0/renv/R/zzz.R | 44 + renv-0.17.0/renv/build/vignette.rds |binary renv-0.17.0/renv/inst/doc/bioconductor.html | 14 renv-0.17.0/renv/inst/doc/cellar.html | 2 renv-0.17.0/renv/inst/doc/docker.html | 2 renv-0.17.0/renv/inst/doc/faq.html | 26 renv-0.17.0/renv/inst/doc/lockfile.html | 2 renv-0.17.0/renv/inst/doc/mran.html | 10 renv-0.17.0/renv/inst/doc/profiles.html | 2 renv-0.17.0/renv/inst/doc/renv.Rmd | 21 renv-0.17.0/renv/inst/doc/renv.html | 51 - renv-0.17.0/renv/inst/doc/rsconnect.Rmd | 2 renv-0.17.0/renv/inst/doc/rsconnect.html | 2 renv-0.17.0/renv/inst/doc/use.html | 26 renv-0.17.0/renv/inst/repos/src/contrib/PACKAGES | 4 renv-0.17.0/renv/inst/repos/src/contrib/PACKAGES.gz |binary renv-0.17.0/renv/inst/repos/src/contrib/PACKAGES.rds |binary renv-0.17.0/renv/inst/repos/src/contrib/renv_0.17.0.tar.gz |only renv-0.17.0/renv/inst/resources/WELCOME | 20 renv-0.17.0/renv/inst/resources/activate.R | 44 + renv-0.17.0/renv/inst/resources/vendor |only renv-0.17.0/renv/man/activate.Rd | 2 renv-0.17.0/renv/man/config.Rd | 8 renv-0.17.0/renv/man/dependencies.Rd | 13 renv-0.17.0/renv/man/hydrate.Rd | 14 renv-0.17.0/renv/man/install.Rd | 11 renv-0.17.0/renv/man/paths.Rd | 25 renv-0.17.0/renv/man/renv-package.Rd | 2 renv-0.17.0/renv/man/status.Rd | 13 renv-0.17.0/renv/man/use.Rd | 6 renv-0.17.0/renv/man/vendor.Rd |only renv-0.17.0/renv/tests/testthat/packages/breakfast/DESCRIPTION | 2 renv-0.17.0/renv/tests/testthat/test-authentication.R | 18 renv-0.17.0/renv/tests/testthat/test-available-packages.R | 44 + renv-0.17.0/renv/tests/testthat/test-download.R | 23 renv-0.17.0/renv/tests/testthat/test-embedding.R |only renv-0.17.0/renv/tests/testthat/test-filebacked.R |only renv-0.17.0/renv/tests/testthat/test-files.R | 1 renv-0.17.0/renv/tests/testthat/test-global.R |only renv-0.17.0/renv/tests/testthat/test-index.R |only renv-0.17.0/renv/tests/testthat/test-init.R | 53 + renv-0.17.0/renv/tests/testthat/test-install.R | 15 renv-0.17.0/renv/tests/testthat/test-json.R | 20 renv-0.17.0/renv/tests/testthat/test-lockfile.R | 27 renv-0.17.0/renv/tests/testthat/test-memoize.R |only renv-0.17.0/renv/tests/testthat/test-profile.R | 2 renv-0.17.0/renv/tests/testthat/test-python.R | 8 renv-0.17.0/renv/tests/testthat/test-r.R | 5 renv-0.17.0/renv/tests/testthat/test-remotes.R | 87 +-- renv-0.17.0/renv/tests/testthat/test-repos.R | 7 renv-0.17.0/renv/tests/testthat/test-snapshot.R | 13 renv-0.17.0/renv/tests/testthat/test-update.R | 18 renv-0.17.0/renv/tests/testthat/test-utils.R | 25 renv-0.17.0/renv/vignettes/renv.Rmd | 21 renv-0.17.0/renv/vignettes/rsconnect.Rmd | 2 145 files changed, 2138 insertions(+), 1041 deletions(-)
Title: Draw Histograms and Restricted Cubic Splines (RCS)
Description: You can use this function to easily draw a combined histogram and restricted cubic spline.
The function draws the graph through 'ggplot2'. RCS fitting requires the use of the rcs() function of the 'rms' package.
Can fit cox regression, logistic regression. This method was described by Per Kragh (2003) <doi:10.1002/sim.1497>.
Author: Qiang LIU [aut, cre]
Maintainer: Qiang LIU <dege857@163.com>
Diff between ggrcs versions 0.2.7 dated 2022-12-14 and 0.2.8 dated 2023-03-01
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/ggrcs.R | 23 +++++++++++++++-------- 3 files changed, 21 insertions(+), 14 deletions(-)
Title: Generating Funky Heatmaps for Data Frames
Description: Allows generating heatmap-like visualisations for benchmark data
frames. Funky heatmaps can be fine-tuned by providing annotations of the
columns and rows, which allows assigning multiple palettes or geometries
or grouping rows and columns together in categories.
Saelens et al. (2019) <doi:10.1038/s41587-019-0071-9>.
Author: Robrecht Cannoodt [aut, cre] ,
Wouter Saelens [aut]
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between funkyheatmap versions 0.2.0 dated 2023-01-13 and 0.3.0 dated 2023-03-01
funkyheatmap-0.2.0/funkyheatmap/R/rounded_rectangle.R |only funkyheatmap-0.3.0/funkyheatmap/DESCRIPTION | 13 funkyheatmap-0.3.0/funkyheatmap/MD5 | 34 funkyheatmap-0.3.0/funkyheatmap/NAMESPACE | 2 funkyheatmap-0.3.0/funkyheatmap/NEWS.md | 17 funkyheatmap-0.3.0/funkyheatmap/R/calculate_geom_positions.R |only funkyheatmap-0.3.0/funkyheatmap/R/compose_ggplot.R |only funkyheatmap-0.3.0/funkyheatmap/R/funky_heatmap.R | 988 ---------- funkyheatmap-0.3.0/funkyheatmap/R/funkyheatmap-package.R | 1 funkyheatmap-0.3.0/funkyheatmap/R/geom_rounded_rect.R |only funkyheatmap-0.3.0/funkyheatmap/R/scale_minmax.R |only funkyheatmap-0.3.0/funkyheatmap/R/score_to_funky_rectangle.R | 56 funkyheatmap-0.3.0/funkyheatmap/build/partial.rdb |binary funkyheatmap-0.3.0/funkyheatmap/build/vignette.rds |binary funkyheatmap-0.3.0/funkyheatmap/inst/CITATION | 72 funkyheatmap-0.3.0/funkyheatmap/inst/doc/dynbenchmark.html | 14 funkyheatmap-0.3.0/funkyheatmap/inst/doc/mtcars.html | 4 funkyheatmap-0.3.0/funkyheatmap/man/figures/README-heatmap1-1.png |binary funkyheatmap-0.3.0/funkyheatmap/man/figures/README-heatmap2-1.png |binary funkyheatmap-0.3.0/funkyheatmap/man/funky_heatmap.Rd | 10 funkyheatmap-0.3.0/funkyheatmap/man/geom_rounded_rect.Rd |only 21 files changed, 161 insertions(+), 1050 deletions(-)
Title: Feature Importance for Dynamic Processes
Description: Calculating feature importance scores from trajectories using the random forests algorithm and more. Saelens and Cannoodt et
al. (2019) <doi:10.1038/s41587-019-0071-9>.
Author: Robrecht Cannoodt [aut, cre] ,
Wouter Saelens [aut]
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between dynfeature versions 1.0.0 dated 2021-06-14 and 1.0.1 dated 2023-03-01
DESCRIPTION | 13 +++-- LICENSE |only MD5 | 27 +++++----- NAMESPACE | 12 +++- NEWS.md | 4 + R/calculate_branch_feature_importance.R | 13 ++--- R/calculate_branching_point_feature_importance.R | 13 ++--- R/calculate_cell_feature_importance.R | 2 R/calculate_milestone_feature_importance.R | 4 - R/calculate_overall_feature_importance.R | 1 R/calculate_waypoint_feature_importance.R | 4 - R/fi_methods.R | 2 R/package.R | 8 +-- README.md | 56 ++++++--------------- inst/CITATION | 59 ++++++++++++++++++----- 15 files changed, 120 insertions(+), 98 deletions(-)
Title: Functions for University of Auckland Course STATS 201/208 Data
Analysis
Description: A set of functions used in teaching STATS 201/208 Data Analysis at
the University of Auckland. The functions are designed to make parts of R more
accessible to a large undergraduate population who are mostly not statistics
majors.
Author: Brant Deppa [aut] ,
James Curran [aut, cre] ,
Rachel Fewster [ctb],
Russell Millar [ctb],
Ben Stevenson [ctb],
Andrew Balemi [ctb],
Chris Wild [ctb],
Sophie Jones [ctb],
Dineika Chandra [ctr],
Brendan McArdle [ctr]
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between s20x versions 3.1-35 dated 2023-02-21 and 3.1-36 dated 2023-03-01
DESCRIPTION | 60 LICENSE | 678 ++-- MD5 | 310 - NAMESPACE | 116 R/autocor.plot.R | 64 R/boxqq.r | 158 R/ciReg.R | 86 R/cooks20x.R | 110 R/crossFactors.R | 122 R/crosstabs.R | 148 R/displayPairs.R | 156 R/eovcheck.R | 450 +- R/estimateContrasts.R | 96 R/estimateContrasts1.R | 90 R/estimateContrasts2.R | 94 R/freq1way.r | 246 - R/getVersion.R | 32 R/interactionPlots.R | 380 +- R/layout20x.R | 48 R/levene.test.R | 132 R/multipleComp.R | 110 R/normcheck.R | 476 +- R/onewayPlot.R | 512 +-- R/pairs20x.R | 104 R/predict20x.R | 176 - R/predictCount.R | 114 R/predictGLM.R | 166 - R/propslsd.new.R | 116 R/residPlot.R | 122 R/rowdistr.r | 500 +-- R/rr.r | 24 R/s20x-package.R | 26 R/skewness.r | 50 R/src-package.R | 1588 +++++----- R/stripqq.r | 154 R/summary1way.R | 200 - R/summary2way.R | 914 ++--- R/summaryStats.R | 388 +- R/trendscatter.R | 218 - demo/00Index | 88 demo/cs1.r | 16 demo/cs10.r | 14 demo/cs11.r | 16 demo/cs12.r | 26 demo/cs13.r | 40 demo/cs14.r | 24 demo/cs15.r | 30 demo/cs16.r | 44 demo/cs17.r | 32 demo/cs18.r | 24 demo/cs19.r | 30 demo/cs2.r | 14 demo/cs20.r | 36 demo/cs21.r | 42 demo/cs22.r | 22 demo/cs23.r | 66 demo/cs24.r | 36 demo/cs25.r | 90 demo/cs26.r | 38 demo/cs27.r | 36 demo/cs28.r | 18 demo/cs29.r | 22 demo/cs3.r | 10 demo/cs30.r | 20 demo/cs31.r | 18 demo/cs32.r | 22 demo/cs33.r | 20 demo/cs34.r | 28 demo/cs35.r | 16 demo/cs36.r | 26 demo/cs37.r | 24 demo/cs38.r | 30 demo/cs39.r | 30 demo/cs4.r | 10 demo/cs40.r | 20 demo/cs41.r | 24 demo/cs42.r | 22 demo/cs43.r | 20 demo/cs5.r | 12 demo/cs6.r | 18 demo/cs7.r | 24 demo/cs8.r | 34 demo/cs9.r | 14 inst/rmarkdown/templates/STATS20x_Assignment/skeleton/skeleton.Rmd | 46 inst/rmarkdown/templates/STATS20x_Assignment/template.yaml | 6 man/airpass.df.Rd | 28 man/apples.df.Rd | 66 man/arousal.df.Rd | 40 man/autocorPlot.Rd | 72 man/beer.df.Rd | 28 man/body.df.Rd | 40 man/books.df.Rd | 46 man/boxqq.Rd | 88 man/bursary.df.Rd | 36 man/butterfat.df.Rd | 62 man/camplake.df.Rd | 34 man/chalk.df.Rd | 36 man/ciReg.Rd | 68 man/computer.df.Rd | 38 man/cooks20x.Rd | 104 man/course.df.Rd | 58 man/course2way.df.Rd | 38 man/crossFactors.Rd | 122 man/crosstabs.Rd | 74 man/diamonds.df.Rd | 32 man/displayPairs.Rd | 43 man/eovcheck.Rd | 218 - man/estimateContrasts.Rd | 122 man/fire.df.Rd | 32 man/freq1way.Rd | 128 man/fruitfly.df.Rd | 64 man/getVersion.Rd | 38 man/house.df.Rd | 32 man/incomes.df.Rd | 22 man/interactionPlots.Rd | 270 - man/lakemary.df.Rd | 30 man/larain.df.Rd | 26 man/layout20x.Rd | 66 man/levene.test.Rd | 80 man/mazda.df.Rd | 32 man/mening.df.Rd | 30 man/mergers.df.Rd | 24 man/modelcheck.Rd | 92 man/mozart.df.Rd | 34 man/multipleComp.Rd | 78 man/nail.df.Rd | 34 man/normcheck.Rd | 250 - man/onewayPlot.Rd | 228 - man/oysters.df.Rd | 40 man/pairs20x.Rd | 68 man/peru.df.Rd | 40 man/predict20x.Rd | 126 man/predictCount.Rd | 76 man/predictGLM.Rd | 76 man/propslsd.new.Rd | 52 man/rain.df.Rd | 40 man/residPlot.Rd | 80 man/rowdistr.Rd | 142 man/rr.Rd | 24 man/s0x.Rd | 24 man/seeds.df.Rd | 40 man/sheep.df.Rd | 30 man/skewness.Rd | 60 man/skulls.df.Rd | 62 man/snapper.df.Rd | 46 man/soyabean.df.Rd | 40 man/stripqq.Rd | 80 man/summary1way.Rd | 126 man/summary2way.Rd | 192 - man/summaryStats.Rd | 214 - man/teach.df.Rd | 38 man/technitron.df.Rd | 44 man/thyroid.df.Rd | 42 man/toothpaste.df.Rd | 38 man/trendscatter.Rd | 164 - man/zoo.df.Rd | 48 156 files changed, 8005 insertions(+), 7962 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>) 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: Shawn Garbett [cre, ctb] ,
Benjamin Nutter [ctb, aut],
Stephen Lane [ctb],
Will Beasley [ctb],
Jeffrey Horner [aut],
Will Gray [ctb],
Jeremy Stephens [ctb],
Marcus Lehr [ctb]
Maintainer: Shawn Garbett <shawn.garbett@vumc.org>
Diff between redcapAPI versions 2.3.3 dated 2023-01-26 and 2.4.0 dated 2023-03-01
DESCRIPTION | 10 - MD5 | 28 ++- NEWS | 4 R/exportRecords.R | 3 R/exportRecords_offline.R | 3 R/exportReports.R | 3 R/fieldToVar.R | 200 +++++++++++++++------------- README.md | 7 inst/extdata |only man/fieldToVar.Rd | 13 + tests/testthat/helper-REDCapQACredentials.R |only tests/testthat/test-allocationTable.R | 55 +++---- tests/testthat/test-exportArms.R | 23 --- tests/testthat/test-exportRecords.R | 24 --- tests/testthat/test-fieldToVar.R |only tests/testthat/test-redcapConnection.R | 33 ---- 16 files changed, 198 insertions(+), 208 deletions(-)
Title: R Interface to Google Charts
Description: R interface to Google's chart tools, allowing users
to create interactive charts based on data frames. Charts
are displayed locally via the R HTTP help server. A modern
browser with an Internet connection is required. The data
remains local and is not uploaded to Google.
Author: Markus Gesmann [aut, cre],
Diego de Castillo [aut],
Joe Cheng [ctb],
Ashley Baldry [ctb],
Durey Ingenieria [ctb]
Maintainer: Markus Gesmann <markus.gesmann@googlemail.com>
Diff between googleVis versions 0.7.0 dated 2022-05-10 and 0.7.1 dated 2023-03-01
DESCRIPTION | 10 MD5 | 26 - NEWS.md | 5 R/zzz.R | 10 README.md | 2 build/googleVis.pdf |binary build/vignette.rds |binary data/Cats.RData |binary demo/googleVis.R | 4 inst/CITATION | 31 - inst/doc/googleVis_examples.R | 4 inst/doc/googleVis_examples.html | 681 +++++++++++++++++++-------------------- inst/doc/googleVis_intro.html | 617 +++++++++++++++++------------------ vignettes/googleVis.bib | 4 14 files changed, 696 insertions(+), 698 deletions(-)
Title: Interface to 'D4Science' 'StorageHub' API
Description: Provides an interface to 'D4Science' 'StorageHub' API (<https://dev.d4science.org/>). Allows to get user profile, and perform
actions over the 'StorageHub' (workspace) including creation of folders, files management (upload/update/deletion/sharing), and listing of
stored resources.
Author: Emmanuel Blondel [aut, cre]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between d4storagehub4R versions 0.4-2 dated 2022-11-29 and 0.4-3 dated 2023-03-01
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/StoragehubManager.R | 12 ++++++++++-- README.md | 6 +++--- 5 files changed, 27 insertions(+), 13 deletions(-)
More information about d4storagehub4R at CRAN
Permanent link
Title: Discrete Nonlinear Filtering for Stochastic Volatility Models
Description: Generates simulated paths from various financial stochastic volatility models
with jumps and applies the discrete nonlinear filter (DNF) of Kitagawa (1987) <doi:10.1080/01621459.1987.10478534> to
compute likelihood evaluations, filtering distribution estimates, and maximum likelihood parameter estimates.
The algorithm is implemented following the work of Bégin and Boudreault (2021) <doi:10.1080/10618600.2020.1840995>.
Author: Louis Arsenault-Mahjoubi [aut, cre],
Jean-Francois Begin [aut],
Mathieu Boudreault [aut]
Maintainer: Louis Arsenault-Mahjoubi <larsenau@sfu.ca>
Diff between SVDNF versions 0.1.3 dated 2023-01-14 and 0.1.4 dated 2023-03-01
DESCRIPTION | 6 - MD5 | 8 +- R/DNFOptim.R | 199 ++++++++++++++++++++++++++++++++++++++++++++++++++- man/DNFOptim.Rd | 12 ++- src/CppFunctions.cpp | 2 5 files changed, 214 insertions(+), 13 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 5.1 dated 2022-10-18 and 5.2 dated 2023-03-01
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Title: Representing and Inferring Single-Cell Trajectories
Description: Provides functionality to infer trajectories from single-cell data,
represent them into a common format, and adapt them. Other biological information
can also be added, such as cellular grouping, RNA velocity and annotation.
Saelens et al. (2019) <doi:10.1038/s41587-019-0071-9>.
Author: Robrecht Cannoodt [aut, cre] ,
Wouter Saelens [aut]
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between dynwrap versions 1.2.2 dated 2021-03-23 and 1.2.3 dated 2023-03-01
DESCRIPTION | 11 ++-- MD5 | 32 ++++++------- NEWS.md | 6 ++ R/method_get_ti_methods.R | 14 +++++- R/method_infer_trajectory.R | 2 README.md | 29 ++++++------ build/vignette.rds |binary inst/CITATION | 61 +++++++++++++++++++++----- inst/doc/create_ti_method_container.Rmd | 2 inst/doc/create_ti_method_container.html | 69 ++++++++++++++++-------------- inst/doc/create_ti_method_definition.html | 19 ++++++-- inst/doc/create_ti_method_r.html | 19 ++++++-- inst/doc/create_ti_method_wrappers.html | 67 ++++++++++++++++------------- man/get_ti_methods.Rd | 3 - man/infer_trajectories.Rd | 2 man/trajectory_type_dag.Rd | 2 vignettes/create_ti_method_container.Rmd | 2 17 files changed, 214 insertions(+), 126 deletions(-)
Title: Data Quality in Epidemiological Research
Description: Data quality assessments guided by a
'data quality framework introduced by Schmidt and colleagues, 2021'
<doi:10.1186/s12874-021-01252-7> target the
data quality dimensions integrity, completeness, consistency, and
accuracy. The scope of applicable functions rests on the
availability of extensive metadata which can be provided in
spreadsheet tables. Either standardized (e.g. as 'html5' reports) or
individually tailored reports can be generated. For an introduction
into the specification of corresponding metadata, please refer to the
'package website'
<https://dataquality.ship-med.uni-greifswald.de/Annotation_of_Metadata.html>.
Author: University Medicine Greifswald [cph],
Elisa Kasbohm [aut] ,
Joany Marino [aut] ,
Adrian Richter [aut] ,
Carsten Oliver Schmidt [aut] ,
Stephan Struckmann [aut, cre] ,
German Research Foundation [fnd],
National Research Data Infrastructure for Person [...truncated...]
Maintainer: Stephan Struckmann <stephan.struckmann@uni-greifswald.de>
Diff between dataquieR versions 1.0.13 dated 2022-11-16 and 2.0.0 dated 2023-03-01
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Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 5.1 dated 2022-10-18 and 5.2 dated 2023-03-01
IsoplotR-5.1/IsoplotR/R/ludwig2d.R |only IsoplotR-5.2/IsoplotR/DESCRIPTION | 8 IsoplotR-5.2/IsoplotR/MD5 | 106 +- IsoplotR-5.2/IsoplotR/NAMESPACE | 4 IsoplotR-5.2/IsoplotR/NEWS.md |only IsoplotR-5.2/IsoplotR/R/ArAr.R | 4 IsoplotR-5.2/IsoplotR/R/KCa.R | 2 IsoplotR-5.2/IsoplotR/R/LuHf.R | 2 IsoplotR-5.2/IsoplotR/R/PD.R | 4 IsoplotR-5.2/IsoplotR/R/PbPb.R | 6 IsoplotR-5.2/IsoplotR/R/RbSr.R | 2 IsoplotR-5.2/IsoplotR/R/ReOs.R | 2 IsoplotR-5.2/IsoplotR/R/SmNd.R | 2 IsoplotR-5.2/IsoplotR/R/ThPb.R | 2 IsoplotR-5.2/IsoplotR/R/ThU.R | 10 IsoplotR-5.2/IsoplotR/R/UPb.R | 33 IsoplotR-5.2/IsoplotR/R/UThHe.R | 4 IsoplotR-5.2/IsoplotR/R/age.R | 30 IsoplotR-5.2/IsoplotR/R/bayes.R |only IsoplotR-5.2/IsoplotR/R/ci.R | 74 + IsoplotR-5.2/IsoplotR/R/classes.R | 22 IsoplotR-5.2/IsoplotR/R/colourramp.R |only IsoplotR-5.2/IsoplotR/R/commonPb.R | 4 IsoplotR-5.2/IsoplotR/R/concordia.R | 286 ++++-- IsoplotR-5.2/IsoplotR/R/discordia.R | 134 +-- IsoplotR-5.2/IsoplotR/R/diseq.R | 329 ++++--- IsoplotR-5.2/IsoplotR/R/evolution.R | 10 IsoplotR-5.2/IsoplotR/R/fissiontracks.R | 8 IsoplotR-5.2/IsoplotR/R/io.R | 2 IsoplotR-5.2/IsoplotR/R/isochron.R | 329 ++++--- IsoplotR-5.2/IsoplotR/R/json.R | 10 IsoplotR-5.2/IsoplotR/R/kde.R | 2 IsoplotR-5.2/IsoplotR/R/ludwig.R | 1368 ++++++++++++++++++-------------- IsoplotR-5.2/IsoplotR/R/mds.R | 128 ++ IsoplotR-5.2/IsoplotR/R/nearPD.R | 1 IsoplotR-5.2/IsoplotR/R/peakfit.R | 40 IsoplotR-5.2/IsoplotR/R/radialplot.R | 31 IsoplotR-5.2/IsoplotR/R/regression.R | 207 ++-- IsoplotR-5.2/IsoplotR/R/titterington.R | 52 + IsoplotR-5.2/IsoplotR/R/tls.R |only IsoplotR-5.2/IsoplotR/R/toolbox.R | 149 ++- IsoplotR-5.2/IsoplotR/R/york.R | 37 IsoplotR-5.2/IsoplotR/README.md | 2 IsoplotR-5.2/IsoplotR/data/examples.rda |binary IsoplotR-5.2/IsoplotR/inst/CITATION | 20 IsoplotR-5.2/IsoplotR/inst/diseq.csv | 20 IsoplotR-5.2/IsoplotR/man/age.Rd | 24 IsoplotR-5.2/IsoplotR/man/concordia.Rd | 2 IsoplotR-5.2/IsoplotR/man/diseq.Rd | 67 - IsoplotR-5.2/IsoplotR/man/diss.Rd |only IsoplotR-5.2/IsoplotR/man/evolution.Rd | 2 IsoplotR-5.2/IsoplotR/man/isochron.Rd | 60 - IsoplotR-5.2/IsoplotR/man/ludwig.Rd | 73 + IsoplotR-5.2/IsoplotR/man/mclean.Rd | 25 IsoplotR-5.2/IsoplotR/man/mds.Rd | 15 IsoplotR-5.2/IsoplotR/man/peakfit.Rd | 26 IsoplotR-5.2/IsoplotR/man/radialplot.Rd | 26 57 files changed, 2299 insertions(+), 1507 deletions(-)
Title: DBI Package for the DuckDB Database Management System
Description: The DuckDB project is an embedded analytical data
management system with support for the Structured Query Language (SQL). This package includes all of
DuckDB and a R Database Interface (DBI) connector.
Author: Hannes Muehleisen [aut, cre] ,
Mark Raasveldt [aut] ,
Stichting DuckDB Foundation [cph],
Apache Software Foundation [cph],
PostgreSQL Global Development Group [cph],
The Regents of the University of California [cph],
Cameron Desrochers [cph],
Victor Z [...truncated...]
Maintainer: Hannes Muehleisen <hannes@cwi.nl>
Diff between duckdb versions 0.7.0 dated 2023-02-14 and 0.7.1-1 dated 2023-03-01
duckdb-0.7.0/duckdb/src/duckdb/src/include/duckdb/function/create_database_extension.hpp |only duckdb-0.7.0/duckdb/src/duckdb/src/include/duckdb/main/extension_functions.hpp |only duckdb-0.7.1-1/duckdb/DESCRIPTION | 6 duckdb-0.7.1-1/duckdb/MD5 | 350 duckdb-0.7.1-1/duckdb/R/Driver.R | 5 duckdb-0.7.1-1/duckdb/R/cpp11.R | 8 duckdb-0.7.1-1/duckdb/R/sql.R |only duckdb-0.7.1-1/duckdb/R/substrait.R | 11 duckdb-0.7.1-1/duckdb/inst/include/cpp11/external_pointer.hpp | 4 duckdb-0.7.1-1/duckdb/man/duckdb_get_substrait.Rd | 4 duckdb-0.7.1-1/duckdb/man/duckdb_get_substrait_json.Rd | 4 duckdb-0.7.1-1/duckdb/src/cpp11.cpp | 16 duckdb-0.7.1-1/duckdb/src/duckdb/extension/parquet/column_reader.cpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/extension/parquet/include/column_reader.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/extension/parquet/parquet-extension.cpp | 11 duckdb-0.7.1-1/duckdb/src/duckdb/src/catalog/catalog.cpp | 75 duckdb-0.7.1-1/duckdb/src/duckdb/src/catalog/catalog_entry/index_catalog_entry.cpp | 15 duckdb-0.7.1-1/duckdb/src/duckdb/src/catalog/catalog_entry/schema_catalog_entry.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/catalog/catalog_set.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/catalog/default/default_functions.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/catalog/default/default_views.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/bind_helpers.cpp | 55 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/enums/logical_operator_type.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/enums/physical_operator_type.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/enums/statement_type.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/file_system.cpp | 28 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/hive_partitioning.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/local_file_system.cpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/operator/cast_operators.cpp | 22 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/printer.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/string_util.cpp | 12 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/types.cpp | 48 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/types/partitioned_column_data.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/types/time.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/common/types/timestamp.cpp | 39 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/column_binding_resolver.cpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/art.cpp | 184 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/art_key.cpp | 36 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/leaf.cpp | 15 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/node.cpp | 40 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/node16.cpp | 13 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/node256.cpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/node4.cpp | 11 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/node48.cpp | 13 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/index/art/prefix.cpp | 5 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/aggregate/physical_window.cpp | 33 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/helper/physical_reset.cpp | 10 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/helper/physical_set.cpp | 10 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/join/physical_iejoin.cpp | 16 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/persistent/base_csv_reader.cpp | 17 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/persistent/buffered_csv_reader.cpp | 26 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/persistent/parallel_csv_reader.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/schema/physical_detach.cpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/operator/schema/physical_drop.cpp | 5 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/physical_operator.cpp | 12 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/physical_plan/plan_simple.cpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/execution/physical_plan_generator.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/pragma/pragma_queries.cpp | 49 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/scalar/generic/current_setting.cpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/scalar/list/array_slice.cpp | 5 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/scalar/map/map.cpp | 90 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/scalar/string/like.cpp | 9 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/table/read_csv.cpp | 25 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/table/system/duckdb_temporary_files.cpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/function/table/system_functions.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/table/table_scan.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/function/table/version/pragma_version.cpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/catalog/catalog.hpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/catalog/catalog_entry/duck_index_entry.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/catalog/catalog_entry/index_catalog_entry.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/bind_helpers.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/enums/logical_operator_type.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/enums/physical_operator_type.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/enums/statement_type.hpp | 5 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/enums/wal_type.hpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/exception.hpp | 10 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/file_system.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/hive_partitioning.hpp | 10 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/radix_partitioning.hpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/string_util.hpp | 9 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/common/types/timestamp.hpp | 6 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/execution/index/art/art.hpp | 78 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/execution/index/art/art_key.hpp | 19 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/execution/operator/persistent/base_csv_reader.hpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/execution/operator/persistent/buffered_csv_reader.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/execution/operator/persistent/csv_reader_options.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/execution/operator/schema/physical_detach.hpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/function/scalar/string_functions.hpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/function/table/system_functions.hpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/main/client_data.hpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/main/config.hpp | 5 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/main/extension_entries.hpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/main/extension_helper.hpp | 12 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/main/settings.hpp | 9 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parallel/pipeline_executor.hpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/parsed_data/create_database_info.hpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/parsed_data/detach_info.hpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/query_node/select_node.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/sql_statement.hpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/statement/copy_statement.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/statement/detach_statement.hpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/statement/list.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/statement/select_statement.hpp | 6 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/tableref/subqueryref.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/tokens.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/parser/transformer.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/planner/binder.hpp | 4 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/planner/expression_binder/index_binder.hpp | 13 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/planner/operator/logical_execute.hpp | 6 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/planner/operator/logical_show.hpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/storage/buffer_manager.hpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/storage/data_table.hpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/storage/index.hpp | 83 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/storage/storage_extension.hpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/storage/table/update_segment.hpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/include/duckdb/storage/write_ahead_log.hpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/client_context.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/config.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/database.cpp | 19 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/extension/extension_alias.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/extension/extension_helper.cpp | 15 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/extension/extension_install.cpp | 76 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/extension/extension_load.cpp | 75 duckdb-0.7.1-1/duckdb/src/duckdb/src/main/settings/settings.cpp | 16 duckdb-0.7.1-1/duckdb/src/duckdb/src/optimizer/statistics/operator/propagate_join.cpp | 8 duckdb-0.7.1-1/duckdb/src/duckdb/src/parallel/pipeline_executor.cpp | 56 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/parsed_data/create_index_info.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/statement/copy_statement.cpp | 15 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/statement/delete_statement.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/statement/detach_statement.cpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/statement/insert_statement.cpp | 9 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/statement/update_statement.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/transform/expression/transform_case.cpp | 6 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/transform/statement/transform_create_database.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/transform/statement/transform_detach.cpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/parser/transformer.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/bind_context.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/expression/bind_aggregate_expression.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/statement/bind_copy.cpp | 21 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/statement/bind_create.cpp | 30 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/statement/bind_create_table.cpp | 13 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/statement/bind_detach.cpp |only duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/statement/bind_drop.cpp | 33 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/statement/bind_insert.cpp | 23 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/binder/tableref/bind_joinref.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/expression_binder/index_binder.cpp | 33 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/expression_binder/lateral_binder.cpp | 26 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/logical_operator.cpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/src/planner/planner.cpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/buffer_manager.cpp | 131 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/compression/bitpacking.cpp | 23 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/data_table.cpp | 69 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/index.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/local_storage.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/storage_info.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/table/column_data.cpp | 6 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/table/update_segment.cpp | 15 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/table_index_list.cpp | 3 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/wal_replay.cpp | 68 duckdb-0.7.1-1/duckdb/src/duckdb/src/storage/write_ahead_log.cpp | 22 duckdb-0.7.1-1/duckdb/src/duckdb/src/transaction/commit_state.cpp | 7 duckdb-0.7.1-1/duckdb/src/duckdb/third_party/concurrentqueue/blockingconcurrentqueue.h | 4 duckdb-0.7.1-1/duckdb/src/duckdb/third_party/fmt/include/fmt/core.h | 3 duckdb-0.7.1-1/duckdb/src/duckdb/third_party/libpg_query/include/nodes/nodes.hpp | 1 duckdb-0.7.1-1/duckdb/src/duckdb/third_party/libpg_query/include/nodes/parsenodes.hpp | 14 duckdb-0.7.1-1/duckdb/src/duckdb/third_party/libpg_query/include/parser/gram.hpp | 1536 duckdb-0.7.1-1/duckdb/src/duckdb/third_party/libpg_query/src_backend_parser_gram.cpp |34589 +++++----- duckdb-0.7.1-1/duckdb/src/duckdb/third_party/thrift/thrift/Thrift.h | 3 duckdb-0.7.1-1/duckdb/src/duckdb/ub_src_execution_operator_schema.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/ub_src_function_table_system.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/ub_src_parser_statement.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/ub_src_parser_transform_statement.cpp | 2 duckdb-0.7.1-1/duckdb/src/duckdb/ub_src_planner_binder_statement.cpp | 2 duckdb-0.7.1-1/duckdb/src/include/rapi.hpp | 2 duckdb-0.7.1-1/duckdb/src/relational.cpp | 74 duckdb-0.7.1-1/duckdb/src/reltoaltrep.cpp | 3 duckdb-0.7.1-1/duckdb/src/statement.cpp | 15 duckdb-0.7.1-1/duckdb/src/utils.cpp | 5 duckdb-0.7.1-1/duckdb/tests/testthat/_snaps/types.md | 32 duckdb-0.7.1-1/duckdb/tests/testthat/test_relational.R | 12 duckdb-0.7.1-1/duckdb/tests/testthat/test_types.R | 3 182 files changed, 19719 insertions(+), 19235 deletions(-)
Title: A Basic Set of Functions for Compositional Data Analysis
Description: A minimum set of functions to perform compositional data analysis
using the log-ratio approach introduced by John Aitchison (1982). Main functions
have been implemented in c++ for better performance.
Author: Marc Comas-Cufi [aut, cre]
Maintainer: Marc Comas-Cufi <mcomas@imae.udg.edu>
Diff between coda.base versions 0.5.2 dated 2022-07-18 and 0.5.4.3 dated 2023-03-01
DESCRIPTION | 12 - MD5 | 71 ++++++--- NAMESPACE | 11 + NEWS | 4 R/basis.R | 73 +++++---- R/coda.base.R | 3 R/data.R | 296 +++++++++++++++++++++++++++++++++++++++ R/dendrogram.R | 8 - R/dendrogram_adapted.R |only R/utils.R | 52 ++++++ build/vignette.rds |binary data/alimentation.RData |only data/arctic_lake.RData |binary data/blood_mn.RData |only data/bmi_activity.RData |only data/eurostat_employment.RData |only data/foraminiferals.RData |only data/house_expend.RData |only data/household_budget.RData |binary data/mammals_milk.RData |only data/milk_cows.RData |only data/montana.RData |only data/petrafm.RData |only data/pollen.RData |only data/pottery.RData |binary data/serprot.RData |only data/statistitian_time.RData |only data/waste.RData |only data/weibo_hotels.RData |only inst/doc/coordinates.R | 29 ++- inst/doc/coordinates.Rmd | 30 ++- inst/doc/coordinates.html | 208 +++++++++++++++------------ inst/doc/features.html | 128 ++++++++-------- inst/doc/principal_balances.html | 152 ++++++++++---------- man/alimentation.Rd |only man/blood_mn.Rd |only man/bmi_activity.Rd |only man/coda.base.Rd | 2 man/eurostat_employment.Rd |only man/foraminiferals.Rd |only man/house_expend.Rd |only man/mammals_milk.Rd |only man/milk_cows.Rd |only man/montana.Rd |only man/petrafm.Rd |only man/pollen.Rd |only man/sbp_basis.Rd | 55 +++---- man/serprot.Rd |only man/statistitian_time.Rd |only man/waste.Rd |only man/weibo_hotels.Rd |only vignettes/coordinates.Rmd | 30 ++- 52 files changed, 820 insertions(+), 344 deletions(-)
Title: Amend, Augment and Aid Analysis of John Snow's Cholera Map
Description: Amends errors, augments data and aids analysis of John Snow's map
of the 1854 London cholera outbreak.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between cholera versions 0.7.9 dated 2021-10-11 and 0.8.0 dated 2023-03-01
cholera-0.7.9/cholera/NEWS |only cholera-0.7.9/cholera/data/fatalities.RData |only cholera-0.7.9/cholera/data/fatalities.unstacked.RData |only cholera-0.7.9/cholera/data/ortho.proj.RData |only cholera-0.7.9/cholera/data/ortho.proj.pump.RData |only cholera-0.7.9/cholera/data/ortho.proj.pump.vestry.RData |only cholera-0.7.9/cholera/data/pumps.RData |only cholera-0.7.9/cholera/data/pumps.vestry.RData |only cholera-0.7.9/cholera/data/roads.RData |only cholera-0.7.9/cholera/man/classifierAudit.Rd |only cholera-0.7.9/cholera/man/distanceTime.Rd |only cholera-0.7.9/cholera/man/isoVertices.Rd |only cholera-0.7.9/cholera/man/orthogonalProjection.Rd |only cholera-0.7.9/cholera/man/pearsonResiduals.Rd |only cholera-0.7.9/cholera/man/plot.classifier_audit.Rd |only cholera-0.7.9/cholera/man/plot.iso.Rd |only cholera-0.7.9/cholera/man/print.classifier_audit.Rd |only cholera-0.7.9/cholera/man/withinRadius.Rd |only cholera-0.8.0/cholera/DESCRIPTION | 17 cholera-0.8.0/cholera/MD5 | 292 ++- cholera-0.8.0/cholera/NAMESPACE | 35 cholera-0.8.0/cholera/R/addCase.R | 76 cholera-0.8.0/cholera/R/addEuclideanPath.R | 19 cholera-0.8.0/cholera/R/addNeighborhoodWalking.R | 849 +++++----- cholera-0.8.0/cholera/R/addPump.R | 31 cholera-0.8.0/cholera/R/addVoronoi.R | 78 cholera-0.8.0/cholera/R/addWalkingPath.R | 19 cholera-0.8.0/cholera/R/caseDistance.R |only cholera-0.8.0/cholera/R/cholera.R | 3 cholera-0.8.0/cholera/R/classifierAudit.R | 57 cholera-0.8.0/cholera/R/data.R | 144 + cholera-0.8.0/cholera/R/distanceTime.R | 37 cholera-0.8.0/cholera/R/euclidean.R | 49 cholera-0.8.0/cholera/R/euclideanPath.R | 23 cholera-0.8.0/cholera/R/isoVertices.R | 4 cholera-0.8.0/cholera/R/landmarkData.R | 4 cholera-0.8.0/cholera/R/latlongAddress.R |only cholera-0.8.0/cholera/R/latlongAuxilliaryFunctions.R |only cholera-0.8.0/cholera/R/latlongCoordinates.R |only cholera-0.8.0/cholera/R/latlongEmbed.R |only cholera-0.8.0/cholera/R/latlongFatalities.R |only cholera-0.8.0/cholera/R/latlongFrame.R |only cholera-0.8.0/cholera/R/latlongLandmarks.R |only cholera-0.8.0/cholera/R/latlongNearestPump.R |only cholera-0.8.0/cholera/R/latlongNeighborhoodData.R |only cholera-0.8.0/cholera/R/latlongNeighborhoodVoronoi.R |only cholera-0.8.0/cholera/R/latlongNeighborhoodWalking.R |only cholera-0.8.0/cholera/R/latlongOrthoAddress.R |only cholera-0.8.0/cholera/R/latlongOrthoPump.R |only cholera-0.8.0/cholera/R/latlongPumps.R |only cholera-0.8.0/cholera/R/latlongRoads.R |only cholera-0.8.0/cholera/R/latlongVoronoi.R |only cholera-0.8.0/cholera/R/latlongWalkingPath.R |only cholera-0.8.0/cholera/R/multiCore.R | 12 cholera-0.8.0/cholera/R/nearestPump.R | 28 cholera-0.8.0/cholera/R/neighborhoodData.R | 28 cholera-0.8.0/cholera/R/orientationPlot.R |only cholera-0.8.0/cholera/R/orthoProjPumpPDF.R |only cholera-0.8.0/cholera/R/orthogonalProjection.R | 2 cholera-0.8.0/cholera/R/orthogonalSegment.R |only cholera-0.8.0/cholera/R/partitionAddresses.R |only cholera-0.8.0/cholera/R/partitionFatalities.R |only cholera-0.8.0/cholera/R/partitionOrthoAddresses.R |only cholera-0.8.0/cholera/R/partitionRoads.R |only cholera-0.8.0/cholera/R/pearlString.R | 1 cholera-0.8.0/cholera/R/pearsonResiduals.R | 5 cholera-0.8.0/cholera/R/pointOverlap.R |only cholera-0.8.0/cholera/R/pointOverlapRoad.R |only cholera-0.8.0/cholera/R/profile2D.R | 16 cholera-0.8.0/cholera/R/profile3D.R | 29 cholera-0.8.0/cholera/R/pumpData.R | 4 cholera-0.8.0/cholera/R/pumpFatalities.R |only cholera-0.8.0/cholera/R/pumpLocator.R | 2 cholera-0.8.0/cholera/R/pumpTokens.R | 8 cholera-0.8.0/cholera/R/rectangleFilter.R |only cholera-0.8.0/cholera/R/roadPointDistance.R |only cholera-0.8.0/cholera/R/roadSegmentFix.R |only cholera-0.8.0/cholera/R/roadSegments.R | 13 cholera-0.8.0/cholera/R/segmentLocator.R | 24 cholera-0.8.0/cholera/R/selectPump.R |only cholera-0.8.0/cholera/R/simulateFatalities.R | 14 cholera-0.8.0/cholera/R/snowMap.R | 55 cholera-0.8.0/cholera/R/streetHighlight.R | 8 cholera-0.8.0/cholera/R/streetNameLocator.R | 10 cholera-0.8.0/cholera/R/streetNumberLocator.R | 8 cholera-0.8.0/cholera/R/tanakaContourPlot.R |only cholera-0.8.0/cholera/R/thresholdFatalties.R |only cholera-0.8.0/cholera/R/timeSeries.R | 4 cholera-0.8.0/cholera/R/unitMeter.R | 12 cholera-0.8.0/cholera/R/unstack.R | 141 - cholera-0.8.0/cholera/R/unstackAuxiliaryFunctions.R | 8 cholera-0.8.0/cholera/R/voronoi.R | 13 cholera-0.8.0/cholera/R/voronoiPolygons.R | 26 cholera-0.8.0/cholera/R/walking.R | 72 cholera-0.8.0/cholera/R/walkingAuxiliaryFunctions.R | 6 cholera-0.8.0/cholera/R/walkingPath.R | 314 ++- cholera-0.8.0/cholera/R/withinRadius.R | 2 cholera-0.8.0/cholera/README.md | 113 - cholera-0.8.0/cholera/build/vignette.rds |binary cholera-0.8.0/cholera/data/fatalities.address.rda |binary cholera-0.8.0/cholera/data/fatalities.rda |only cholera-0.8.0/cholera/data/fatalities.unstacked.rda |only cholera-0.8.0/cholera/data/frame.data.rda |only cholera-0.8.0/cholera/data/frame.sample.rda |only cholera-0.8.0/cholera/data/landmarks.rda |binary cholera-0.8.0/cholera/data/latlong.ortho.addr.rda |only cholera-0.8.0/cholera/data/latlong.ortho.pump.rda |only cholera-0.8.0/cholera/data/latlong.ortho.pump.vestry.rda |only cholera-0.8.0/cholera/data/ortho.proj.pump.rda |only cholera-0.8.0/cholera/data/ortho.proj.pump.vestry.rda |only cholera-0.8.0/cholera/data/ortho.proj.rda |only cholera-0.8.0/cholera/data/pumps.rda |only cholera-0.8.0/cholera/data/pumps.vestry.rda |only cholera-0.8.0/cholera/data/rd.sample.rda |only cholera-0.8.0/cholera/data/rectangle.filter.rda |only cholera-0.8.0/cholera/data/roads.rda |only cholera-0.8.0/cholera/data/voronoi.polygons.rda |only cholera-0.8.0/cholera/data/voronoi.polygons.vestry.rda |only cholera-0.8.0/cholera/inst/doc/duplicate.missing.cases.Rmd | 2 cholera-0.8.0/cholera/inst/doc/duplicate.missing.cases.html | 371 +++- cholera-0.8.0/cholera/inst/doc/kernel.density.html | 342 +++- cholera-0.8.0/cholera/inst/doc/parallelization.html | 311 +++ cholera-0.8.0/cholera/inst/doc/roads.Rmd | 4 cholera-0.8.0/cholera/inst/doc/roads.html | 417 +++- cholera-0.8.0/cholera/inst/doc/tiles.polygons.html | 352 +++- cholera-0.8.0/cholera/inst/doc/time.series.html | 345 +++- cholera-0.8.0/cholera/inst/doc/unstacking.bars.R | 4 cholera-0.8.0/cholera/inst/doc/unstacking.bars.Rmd | 6 cholera-0.8.0/cholera/inst/doc/unstacking.bars.html | 487 ++++- cholera-0.8.0/cholera/man/addCase.Rd | 13 cholera-0.8.0/cholera/man/addFrame.Rd | 6 cholera-0.8.0/cholera/man/addIndexCase.Rd | 3 cholera-0.8.0/cholera/man/addNeighborhoodWalking.Rd | 4 cholera-0.8.0/cholera/man/addPump.Rd | 4 cholera-0.8.0/cholera/man/addRoads.Rd | 4 cholera-0.8.0/cholera/man/addVoronoi.Rd | 7 cholera-0.8.0/cholera/man/caseDistance.Rd |only cholera-0.8.0/cholera/man/cholera-package.Rd | 3 cholera-0.8.0/cholera/man/fatalities.Rd | 2 cholera-0.8.0/cholera/man/fatalities.address.Rd | 2 cholera-0.8.0/cholera/man/fatalities.unstacked.Rd | 2 cholera-0.8.0/cholera/man/figures/README-latlong-1.png |only cholera-0.8.0/cholera/man/figures/README-latlong_voronoi-1.png |only cholera-0.8.0/cholera/man/figures/README-latlong_walking-1.png |only cholera-0.8.0/cholera/man/figures/README-latlong_walking_path-1.png |only cholera-0.8.0/cholera/man/frame.data.Rd |only cholera-0.8.0/cholera/man/frame.sample.Rd |only cholera-0.8.0/cholera/man/landmarks.Rd | 4 cholera-0.8.0/cholera/man/latlong.ortho.addr.Rd |only cholera-0.8.0/cholera/man/latlong.ortho.pump.Rd |only cholera-0.8.0/cholera/man/latlong.ortho.pump.vestry.Rd |only cholera-0.8.0/cholera/man/latlongAddress.Rd |only cholera-0.8.0/cholera/man/latlongFatalities.Rd |only cholera-0.8.0/cholera/man/latlongLandmarks.Rd |only cholera-0.8.0/cholera/man/latlongNearestPump.Rd |only cholera-0.8.0/cholera/man/latlongNeighborhoodData.Rd |only cholera-0.8.0/cholera/man/latlongNeighborhoodVoronoi.Rd |only cholera-0.8.0/cholera/man/latlongNeighborhoodWalking.Rd |only cholera-0.8.0/cholera/man/latlongPumps.Rd |only cholera-0.8.0/cholera/man/latlongRoads.Rd |only cholera-0.8.0/cholera/man/latlongVoronoi.Rd |only cholera-0.8.0/cholera/man/latlongWalkingPath.Rd |only cholera-0.8.0/cholera/man/mapRange.Rd | 5 cholera-0.8.0/cholera/man/nearestPump.Rd | 2 cholera-0.8.0/cholera/man/ortho.proj.pump.Rd | 4 cholera-0.8.0/cholera/man/ortho.proj.pump.vestry.Rd | 4 cholera-0.8.0/cholera/man/plot.euclidean.Rd | 5 cholera-0.8.0/cholera/man/plot.euclidean_path.Rd | 3 cholera-0.8.0/cholera/man/plot.latlongNeighborhoodVoronoi.Rd |only cholera-0.8.0/cholera/man/plot.latlong_neighborhood_data.Rd |only cholera-0.8.0/cholera/man/plot.latlong_walking.Rd |only cholera-0.8.0/cholera/man/plot.latlong_walking_path.Rd |only cholera-0.8.0/cholera/man/plot.oxfordWeather.Rd | 3 cholera-0.8.0/cholera/man/plot.povertyLondon.Rd | 3 cholera-0.8.0/cholera/man/plot.walking.Rd | 5 cholera-0.8.0/cholera/man/plot.walking_path.Rd | 6 cholera-0.8.0/cholera/man/print.latlongNeighborhoodVoronoi.Rd |only cholera-0.8.0/cholera/man/print.latlong_walking_path.Rd |only cholera-0.8.0/cholera/man/pumpFatalities.Rd |only cholera-0.8.0/cholera/man/pumps.Rd | 2 cholera-0.8.0/cholera/man/pumps.vestry.Rd | 2 cholera-0.8.0/cholera/man/rd.sample.Rd |only cholera-0.8.0/cholera/man/rectangle.filter.Rd |only cholera-0.8.0/cholera/man/roadSegmentFix.Rd |only cholera-0.8.0/cholera/man/roadSegments.Rd | 5 cholera-0.8.0/cholera/man/roads.Rd | 2 cholera-0.8.0/cholera/man/segmentLocator.Rd | 5 cholera-0.8.0/cholera/man/snowMap.Rd | 5 cholera-0.8.0/cholera/man/streetHighlight.Rd | 6 cholera-0.8.0/cholera/man/unitMeter.Rd | 4 cholera-0.8.0/cholera/man/unstackFatalities.Rd | 5 cholera-0.8.0/cholera/man/voronoi.polygons.Rd |only cholera-0.8.0/cholera/man/voronoi.polygons.vestry.Rd |only cholera-0.8.0/cholera/man/voronoiPolygons.Rd | 4 cholera-0.8.0/cholera/man/walkingPath.Rd | 5 cholera-0.8.0/cholera/vignettes/duplicate.missing.cases.Rmd | 2 cholera-0.8.0/cholera/vignettes/roads.Rmd | 4 cholera-0.8.0/cholera/vignettes/unstacking.bars.Rmd | 6 198 files changed, 3841 insertions(+), 1666 deletions(-)
Title: Bayesian Latent Variable Analysis
Description: Fit a variety of Bayesian latent variable models, including confirmatory
factor analysis, structural equation models, and latent growth curve models. References: Merkle & Rosseel (2018) <doi:10.18637/jss.v085.i04>; Merkle et al. (2021) <doi:10.18637/jss.v100.i06>.
Author: Edgar Merkle [aut, cre] ,
Yves Rosseel [aut],
Ben Goodrich [aut],
Mauricio Garnier-Villarreal [ctb]
,
Terrence D. Jorgensen [ctb] ,
Huub Hoofs [ctb] ,
Rens van de Schoot [ctb] ,
Andrew Johnson [ctb] ,
Matthew Emery [ctb]
Maintainer: Edgar Merkle <merklee@missouri.edu>
Diff between blavaan versions 0.4-6 dated 2023-02-11 and 0.4-7 dated 2023-03-01
DESCRIPTION | 16 +++++++------- MD5 | 32 ++++++++++++++-------------- NAMESPACE | 7 ++++-- NEWS.md | 15 ++++++++++++- R/blav_cond_utils.R | 2 - R/blav_object_methods.R | 12 ++-------- R/blav_predict.R | 4 +-- R/blavaan.R | 4 +-- R/ctr_bayes_fit.R | 4 +-- R/lvgqs.R | 6 +++-- R/postpred.R | 6 +++-- inst/testdata/sysdata.rda |binary inst/tinytest/tests.blavaan.R | 1 inst/tinytest/tests.blavaanobject-methods.R | 1 src/Makevars | 2 - src/Makevars.win | 2 - src/stan_files/stanmarg.stan | 6 ++--- 17 files changed, 68 insertions(+), 52 deletions(-)
Title: Identification of Cell Types and Inference of Lineage Trees from
Single-Cell RNA-Seq Data
Description: Application of 'RaceID' allows inference of cell types and prediction of lineage trees by he StemID2 algorithm. Herman, J.S., Sagar, Grün D. (2018) <DOI:10.1038/nmeth.4662>.
Author: Dominic Gruen <dominic.gruen@gmail.com>
Maintainer: Dominic Gruen <dominic.gruen@gmail.com>
Diff between RaceID versions 0.2.8 dated 2022-11-16 and 0.2.9 dated 2023-03-01
DESCRIPTION | 9 +++--- MD5 | 18 ++++++------- R/RaceID.R | 7 +++-- R/VarID_functions.R | 41 +++++++++++++++++++++---------- inst/doc/RaceID.Rmd | 66 ++++++++++++++++++++++++++++++++++---------------- inst/doc/RaceID.html | 47 ++++++++++++++++++----------------- man/plotsymbolsmap.Rd | 5 +++ man/pruneKnn.Rd | 9 ++++++ src/Makevars | 2 - vignettes/RaceID.Rmd | 66 ++++++++++++++++++++++++++++++++++---------------- 10 files changed, 175 insertions(+), 95 deletions(-)
Title: Datasets for Spatial Analysis
Description: Diverse spatial datasets for demonstrating, benchmarking and teaching spatial data analysis.
It includes R data of class sf (defined by the package 'sf'), Spatial ('sp'), and nb ('spdep').
Unlike other spatial data packages such as 'rnaturalearth' and 'maps',
it also contains data stored in a range of file formats including GeoJSON, ESRI Shapefile and GeoPackage.
Some of the datasets are designed to illustrate specific analysis techniques.
cycle_hire() and cycle_hire_osm(), for example, is designed to illustrate point pattern analysis techniques.
Author: Roger Bivand [aut] ,
Jakub Nowosad [aut, cre] ,
Robin Lovelace [aut] ,
Angelos Mimis [ctb],
Mark Monmonier [ctb] ,
Greg Snow [ctb]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between spData versions 2.2.1 dated 2022-11-15 and 2.2.2 dated 2023-03-01
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/nc.sids.R | 10 +++++----- man/nc.sids.Rd | 10 +++++----- 4 files changed, 17 insertions(+), 17 deletions(-)
Title: Custom Components for Shiny Applications
Description: Provides useful UI components and input widgets for 'Shiny'
applications. The offered components allow to apply non-standard
operations and view to your 'Shiny' application, but also help to
overcome common performance issues.
Author: Krystian Igras [cre, aut],
Adam Forys [ctb],
Stephane Laurent [ctb],
Craig Dennis [cph] ,
Daniel Eden [cph]
Maintainer: Krystian Igras <krystian8207@gmail.com>
Diff between shinyGizmo versions 0.4.1 dated 2023-02-24 and 0.4.2 dated 2023-03-01
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ README.md | 4 ++-- inst/www/valuebutton.js | 2 +- 5 files changed, 14 insertions(+), 10 deletions(-)
Title: Efficient Phylogenetics on Large Trees
Description: Efficient phylogenetic analyses on massive phylogenies comprising up to millions of tips. Functions include pruning, rerooting, calculation of most-recent common ancestors, calculating distances from the tree root and calculating pairwise distances. Calculation of phylogenetic signal and mean trait depth (trait conservatism), ancestral state reconstruction and hidden character prediction of discrete characters, simulating and fitting models of trait evolution, fitting and simulating diversification models, dating trees, comparing trees, and reading/writing trees in Newick format. Citation: Louca, Stilianos and Doebeli, Michael (2017) <doi:10.1093/bioinformatics/btx701>.
Author: Stilianos Louca
Maintainer: Stilianos Louca <louca@zoology.ubc.ca>
Diff between castor versions 1.7.6 dated 2022-12-14 and 1.7.8 dated 2023-03-01
DESCRIPTION | 9 ++--- MD5 | 32 ++++++++++---------- NAMESPACE | 1 R/RcppExports.R | 4 ++ R/asr_empirical_probabilities.R | 2 - R/asr_mk_model.R | 3 - R/extract_deep_frame.R |only R/fit_musse.R | 2 - R/get_tips_for_mrcas.R | 2 - R/root_at_midpoint.R | 4 +- R/root_in_edge.R | 4 +- man/extract_deep_frame.Rd |only man/find_nearest_tips.Rd | 4 +- man/fit_musse.Rd | 4 +- man/get_subtree_at_node.Rd | 2 - man/root_in_edge.Rd | 4 +- src/RcppExports.cpp | 16 ++++++++++ src/phylogenetics_cpp_routines.cpp | 59 +++++++++++++++++++++++++++++++++++++ 18 files changed, 117 insertions(+), 35 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-01-31 0.14.5
2020-04-20 0.14.3
2020-01-25 0.14.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-04 0.2.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-05 2.6.20
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-02 0.2.5
Title: Spatial Regression Analysis
Description: A collection of all the estimation functions for spatial cross-sectional models (on lattice/areal data using spatial weights matrices) contained up to now in 'spdep'. These model fitting functions include maximum likelihood methods for cross-sectional models proposed by 'Cliff' and 'Ord' (1973, ISBN:0850860369) and (1981, ISBN:0850860814), fitting methods initially described by 'Ord' (1975) <doi:10.1080/01621459.1975.10480272>. The models are further described by 'Anselin' (1988) <doi:10.1007/978-94-015-7799-1>. Spatial two stage least squares and spatial general method of moment models initially proposed by 'Kelejian' and 'Prucha' (1998) <doi:10.1023/A:1007707430416> and (1999) <doi:10.1111/1468-2354.00027> are provided. Impact methods and MCMC fitting methods proposed by 'LeSage' and 'Pace' (2009) <doi:10.1201/9781420064254> are implemented for the family of cross-sectional spatial regression models. Methods for fitting the log determinant term in maximu [...truncated...]
Author: Roger Bivand [cre, aut] ,
Gianfranco Piras [aut],
Luc Anselin [ctb],
Andrew Bernat [ctb],
Eric Blankmeyer [ctb],
Yongwan Chun [ctb],
Virgilio Gomez-Rubio [ctb],
Daniel Griffith [ctb],
Martin Gubri [ctb],
Rein Halbersma [ctb],
James LeSage [ctb],
Ange [...truncated...]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between spatialreg versions 1.2-6 dated 2022-10-07 and 1.2-8 dated 2023-03-01
DESCRIPTION | 12 +-- MD5 | 30 +++++---- NEWS.md | 6 + R/ML_models.R | 51 ++++++++++----- R/SLX_WX.R | 20 ++++-- R/predict.sarlm.R | 131 +++++++++++++++++++++++------------------ build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 63 ++++++++----------- inst/doc/SpatialFiltering.html | 15 +--- inst/doc/nb_igraph.html | 24 ++----- inst/doc/sids_models.html | 17 +---- inst/tinytest |only man/SLX.Rd | 4 - man/lagmess.Rd | 6 - tests |only 16 files changed, 200 insertions(+), 179 deletions(-)
Title: The Flexible Spatial Scan Statistic
Description: Functions for the detection of spatial clusters using the flexible
spatial scan statistic developed by Tango and Takahashi (2005) <doi:10.1186/1476-072X-4-11>.
This package implements a wrapper for the C routine used in the FleXScan 3.1.2
<https://sites.google.com/site/flexscansoftware/home> developed by Takahashi,
Yokoyama, and Tango. For details, see Otani et al. (2021) <doi:10.18637/jss.v099.i13>.
Author: Takahiro Otani,
Kunihiko Takahashi
Maintainer: Takahiro Otani <otani@med.nagoya-cu.ac.jp>
Diff between rflexscan versions 1.0.0 dated 2021-10-21 and 1.1.0 dated 2023-03-01
DESCRIPTION | 12 MD5 | 16 NAMESPACE | 2 NEWS.md | 43 - R/RcppExports.R | 44 - R/flexscan.R | 1424 +++++++++++++++++++++++++++--------------------------- man/choropleth.Rd | 4 man/rflexscan.Rd | 10 src/flscan312.cpp | 490 +++++++++++++----- 9 files changed, 1165 insertions(+), 880 deletions(-)
Title: Exploring 'COVID'-19 Statistics
Description: Provides easy-to-use programming API to access real time and historical data of 'COVID'-19 cases, vaccine and therapeutics data, and a Shiny app to help users exploring the data. Fetching data using API provided by <https://disease.sh> .
Author: Guangchuang Yu [cre, aut, cph]
,
Tianzhi Wu [aut],
Erqiang Hu [ctb],
Patrick Tung [ctb],
Xijin Ge [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between nCov2019 versions 0.4.5 dated 2021-06-10 and 0.4.6 dated 2023-03-01
DESCRIPTION | 8 MD5 | 20 R/plot.R | 6 R/query.R | 14 build/vignette.rds |binary inst/CITATION | 14 inst/doc/nCov2019.R | 18 inst/doc/nCov2019.Rmd | 30 inst/doc/nCov2019.html | 1816 +++++++++++++++++++++++++++++++++++++++++++++---- inst/shinyapp/app.R | 70 - vignettes/nCov2019.Rmd | 30 11 files changed, 1775 insertions(+), 251 deletions(-)
Title: Let Data Talk
Description: Methods and tools for creating a model set and estimating and evaluating the explanation or prediction power of its members.
'SUR' modelling (for parameter estimation), 'logit'/'probit' modelling (for binary classification), and 'VARMA' modelling (for time-series forecasting) are implemented.
Evaluations are both in-sample and out-of-sample.
It can be used for stepwise regression analysis <https://en.wikipedia.org/wiki/Stepwise_regression>,
automatic model selection and model averaging (Claeskens and Hjort (2008, ISBN:1139471805, 9781139471800)),
calculating benchmarks, and doing sensitivity analysis (Leamer (1983) <https://www.jstor.org/stable/1803924> proposal).
Author: Ramin Mojab [aut, cre],
Michael Hutt [cph] ,
Stephen Becker [cph] by Ciyou Zhu . L-BFGS-B Version 3.0 is an
algorithmic update from 2011, with coding changes by J. L. Morales),
Math.NET [cph]
Maintainer: Ramin Mojab <rmojab63@gmail.com>
Diff between ldt versions 0.1.4.0 dated 2023-01-26 and 0.2.0.0 dated 2023-03-01
ldt-0.1.4.0/ldt/man/GetAuc.Rd |only ldt-0.1.4.0/ldt/src/cost_matrix.cpp |only ldt-0.1.4.0/ldt/src/lapacke.h |only ldt-0.1.4.0/ldt/src/lapacke_mangling.h |only ldt-0.1.4.0/ldt/src/v_import_export.cpp |only ldt-0.2.0.0/ldt/DESCRIPTION | 16 - ldt-0.2.0.0/ldt/MD5 | 127 ++++++------ ldt-0.2.0.0/ldt/NAMESPACE | 3 ldt-0.2.0.0/ldt/R/RcppExports.R | 76 +++++-- ldt-0.2.0.0/ldt/R/helpers.R | 61 +++++ ldt-0.2.0.0/ldt/inst/COPYRIGHTS/README.md | 3 ldt-0.2.0.0/ldt/inst/doc/dc_default.R | 26 +- ldt-0.2.0.0/ldt/inst/doc/dc_default.Rmd | 30 +- ldt-0.2.0.0/ldt/inst/doc/dc_default.html | 27 +- ldt-0.2.0.0/ldt/inst/doc/dc_fraud.R | 4 ldt-0.2.0.0/ldt/inst/doc/dc_fraud.Rmd | 4 ldt-0.2.0.0/ldt/inst/doc/dc_fraud.html | 4 ldt-0.2.0.0/ldt/inst/doc/sur_growth.R | 6 ldt-0.2.0.0/ldt/inst/doc/sur_growth.Rmd | 8 ldt-0.2.0.0/ldt/inst/doc/sur_growth.html | 30 +- ldt-0.2.0.0/ldt/inst/doc/sur_simulation.R | 8 ldt-0.2.0.0/ldt/inst/doc/sur_simulation.Rmd | 8 ldt-0.2.0.0/ldt/inst/doc/sur_simulation.html | 8 ldt-0.2.0.0/ldt/inst/doc/varma_pcp.R | 6 ldt-0.2.0.0/ldt/inst/doc/varma_pcp.Rmd | 6 ldt-0.2.0.0/ldt/inst/doc/varma_pcp.html | 6 ldt-0.2.0.0/ldt/man/DcEstim.Rd | 3 ldt-0.2.0.0/ldt/man/DcSearch.Rd | 9 ldt-0.2.0.0/ldt/man/GetMeasureOptions.Rd | 4 ldt-0.2.0.0/ldt/man/GetRoc.Rd |only ldt-0.2.0.0/ldt/man/GetRocOptions.Rd |only ldt-0.2.0.0/ldt/man/RemoveNaStrategies.Rd | 14 + ldt-0.2.0.0/ldt/src/Makevars | 2 ldt-0.2.0.0/ldt/src/RcppExports.cpp | 47 +++- ldt-0.2.0.0/ldt/src/auc.cpp | 194 ++---------------- ldt-0.2.0.0/ldt/src/discrete_choice.h | 40 ++- ldt-0.2.0.0/ldt/src/discrete_choice_extended.cpp | 44 ++-- ldt-0.2.0.0/ldt/src/discrete_choice_modelset.cpp | 64 +++--- ldt-0.2.0.0/ldt/src/discrete_choice_sim.cpp | 69 +++--- ldt-0.2.0.0/ldt/src/distance.cpp | 2 ldt-0.2.0.0/ldt/src/frequency_cost.cpp |only ldt-0.2.0.0/ldt/src/functionx.h | 18 + ldt-0.2.0.0/ldt/src/helpers.h | 26 +- ldt-0.2.0.0/ldt/src/matrix_la.cpp | 34 +-- ldt-0.2.0.0/ldt/src/r_dc.cpp | 153 ++++++++++---- ldt-0.2.0.0/ldt/src/r_ldt.cpp | 57 +++-- ldt-0.2.0.0/ldt/src/r_ldt.h | 72 ++++--- ldt-0.2.0.0/ldt/src/r_options.cpp | 141 ++++++++++--- ldt-0.2.0.0/ldt/src/r_statistics.cpp | 188 ++++++++++++------ ldt-0.2.0.0/ldt/src/r_sur.cpp | 103 +++++++--- ldt-0.2.0.0/ldt/src/r_varma.cpp | 131 ++++++++---- ldt-0.2.0.0/ldt/src/roc.cpp |only ldt-0.2.0.0/ldt/src/scoring.cpp | 4 ldt-0.2.0.0/ldt/src/scoring.h | 154 ++++++++------- ldt-0.2.0.0/ldt/src/searchers.h | 2 ldt-0.2.0.0/ldt/src/summary.cpp | 16 - ldt-0.2.0.0/ldt/src/variable.cpp | 2 ldt-0.2.0.0/ldt/src/varma.h | 16 - ldt-0.2.0.0/ldt/src/varma_sizes.cpp | 2 ldt-0.2.0.0/ldt/tests/testthat/test-r_dc.R | 215 ++++++++++----------- ldt-0.2.0.0/ldt/tests/testthat/test-r_generics.R | 8 ldt-0.2.0.0/ldt/tests/testthat/test-r_statistics.R | 36 ++- ldt-0.2.0.0/ldt/tests/testthat/test-r_sur.R | 94 ++++----- ldt-0.2.0.0/ldt/tests/testthat/test-r_varma.R | 124 ++++++------ ldt-0.2.0.0/ldt/vignettes/dc_default.Rmd | 30 +- ldt-0.2.0.0/ldt/vignettes/dc_fraud.Rmd | 4 ldt-0.2.0.0/ldt/vignettes/sur_growth.Rmd | 8 ldt-0.2.0.0/ldt/vignettes/sur_simulation.Rmd | 8 ldt-0.2.0.0/ldt/vignettes/varma_pcp.Rmd | 6 69 files changed, 1506 insertions(+), 1105 deletions(-)
Title: Gene Analysis Toolkit
Description: An analysis toolkit focused on genes. It mainly includes five
features (search, convert, analysis, plot, and export).
The user just needs to input feature id ('entrez', 'symbol', 'ensembl' or
'uniprot') to retrieve feature information and 'PubMed'<https://pubmed.ncbi.nlm.nih.gov/> records,
to convert id types, to easily handle gene enrichment analysis and publication-level figures,
to plot group interaction and export results as sheets in one 'excel'
file to easily share and communicate with others.
Author: Yunze Liu [aut, cre]
Maintainer: Yunze Liu <jieandze1314@gmail.com>
Diff between genekitr versions 1.1.0 dated 2023-01-19 and 1.1.3 dated 2023-03-01
DESCRIPTION | 17 ++++++------ MD5 | 16 ++++++----- NAMESPACE | 3 ++ R/genInfo.R | 78 +++++++++++++++++++++++++++++++++++++++++++-------------- R/getGEO.R |only R/plotEnrich.R | 2 - R/transID.R | 4 -- R/utilities.R | 6 ++-- README.md | 4 +- man/getGEO.Rd |only 10 files changed, 89 insertions(+), 41 deletions(-)
Title: Force Measurement Analyses
Description: For cleaning and analysis of graphs, such as animal closing force
measurements.
'forceR' was initially written and optimized to deal with insect bite force
measurements, but can be used for any time series. Includes a full workflow
to load, plot and crop data, correct amplifier and baseline drifts,
identify individual peak shapes (bites), rescale (normalize) peak curves,
and find best polynomial fits to describe and analyze force curve shapes.
Author: Peter T. Ruehr [aut, cre] ,
Alexander Blanke [ctb]
Maintainer: Peter T. Ruehr <peter.ruehr@gmail.com>
Diff between forceR versions 1.0.18 dated 2023-02-27 and 1.0.20 dated 2023-03-01
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NEWS.md | 13 ++++++++++++- R/peak_finding.R | 14 +++++++------- R/plotting.R | 4 ++-- README.md | 4 ++-- inst/doc/forceR.html | 4 ++-- man/find_strongest_peaks.Rd | 14 +++++++------- man/plot_peaks.Rd | 4 ++-- 9 files changed, 47 insertions(+), 36 deletions(-)
Title: Easily Scrape and Process AFL Data
Description: An easy package for scraping and processing Australia Rules Football (AFL)
data. 'fitzRoy' provides a range of functions for accessing publicly available data
from 'AFL Tables' <https://afltables.com/afl/afl_index.html>, 'Footy Wire' <https://www.footywire.com> and
'The Squiggle' <https://squiggle.com.au>. Further functions allow for easy processing,
cleaning and transformation of this data into formats that can be used for analysis.
Author: James Day [cre, aut],
Robert Nguyen [aut],
Matthew Erbs [ctb],
Oscar Lane [aut],
Jason Zivkovic [ctb],
Jacob Holden [ctb]
Maintainer: James Day <jamesthomasday@gmail.com>
Diff between fitzRoy versions 1.2.0 dated 2022-09-28 and 1.3.0 dated 2023-03-01
fitzRoy-1.2.0/fitzRoy/tests/testthat/test-fetch-player-stats-legacy.R |only fitzRoy-1.3.0/fitzRoy/DESCRIPTION | 17 - fitzRoy-1.3.0/fitzRoy/MD5 | 153 +++++----- fitzRoy-1.3.0/fitzRoy/NAMESPACE | 16 - fitzRoy-1.3.0/fitzRoy/R/FitzRoy-package.R | 5 fitzRoy-1.3.0/fitzRoy/R/fetch-betting-odds.R | 16 - fitzRoy-1.3.0/fitzRoy/R/fetch-fixture.R | 17 - fitzRoy-1.3.0/fitzRoy/R/fetch-ladder.R | 46 +-- fitzRoy-1.3.0/fitzRoy/R/fetch-player-details.R | 5 fitzRoy-1.3.0/fitzRoy/R/fetch-player-stats.R | 28 + fitzRoy-1.3.0/fitzRoy/R/fetch-results.R | 17 - fitzRoy-1.3.0/fitzRoy/R/fetch-squiggle-data.R | 41 -- fitzRoy-1.3.0/fitzRoy/R/fetch_lineup.R | 24 + fitzRoy-1.3.0/fitzRoy/R/helper-aflcoaches.R | 2 fitzRoy-1.3.0/fitzRoy/R/helpers-afl.R | 19 - fitzRoy-1.3.0/fitzRoy/R/helpers-afltables-playerdetails.R | 26 + fitzRoy-1.3.0/fitzRoy/R/helpers-afltables-playerstats.R | 47 +-- fitzRoy-1.3.0/fitzRoy/R/helpers-afltables.R | 6 fitzRoy-1.3.0/fitzRoy/R/helpers-footywire-playerdetails.R | 4 fitzRoy-1.3.0/fitzRoy/R/helpers-footywire.R | 55 ++- fitzRoy-1.3.0/fitzRoy/R/womens_stats.R | 62 ++-- fitzRoy-1.3.0/fitzRoy/R/z-afltables-player.R | 29 - fitzRoy-1.3.0/fitzRoy/R/z_afl_fixture.R | 23 - fitzRoy-1.3.0/fitzRoy/R/z_afltables-basic.R | 24 - fitzRoy-1.3.0/fitzRoy/R/z_aflw-player_stats.R | 30 - fitzRoy-1.3.0/fitzRoy/R/z_footywire-calcs.R | 101 +++--- fitzRoy-1.3.0/fitzRoy/R/z_footywire-results.R | 47 +-- fitzRoy-1.3.0/fitzRoy/R/z_fryziggafl-player-stats.R | 31 -- fitzRoy-1.3.0/fitzRoy/R/z_return-ladder.R | 30 - fitzRoy-1.3.0/fitzRoy/R/z_score-progression.R | 18 - fitzRoy-1.3.0/fitzRoy/build/vignette.rds |binary fitzRoy-1.3.0/fitzRoy/inst/WORDLIST | 41 ++ fitzRoy-1.3.0/fitzRoy/inst/doc/aflca-coaches-votes.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/docker-support.Rmd | 2 fitzRoy-1.3.0/fitzRoy/inst/doc/docker-support.html | 128 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/elo-ratings-example.Rmd | 2 fitzRoy-1.3.0/fitzRoy/inst/doc/elo-ratings-example.html | 134 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/fitzRoy.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/main-fetch-functions.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/player-details.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/using-fryzigg-stats.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/using-squiggle-api.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/inst/doc/womens-stats.html | 124 ++++---- fitzRoy-1.3.0/fitzRoy/man/fetch_player_stats.Rd | 4 fitzRoy-1.3.0/fitzRoy/man/fetch_squiggle_data.Rd | 3 fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-archived.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-defunct.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-deprecated.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-experimental.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-maturing.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-questioning.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-stable.svg |only fitzRoy-1.3.0/fitzRoy/man/figures/lifecycle-superseded.svg |only fitzRoy-1.3.0/fitzRoy/man/fitzRoy-package.Rd | 2 fitzRoy-1.3.0/fitzRoy/man/get_afl_fixture.Rd | 21 - fitzRoy-1.3.0/fitzRoy/man/get_afltables_stats.Rd | 22 - fitzRoy-1.3.0/fitzRoy/man/get_aflw_cookie.Rd | 16 - fitzRoy-1.3.0/fitzRoy/man/get_aflw_match_data.Rd | 23 - fitzRoy-1.3.0/fitzRoy/man/get_aflw_player_stats.Rd | 25 - fitzRoy-1.3.0/fitzRoy/man/get_fixture.Rd | 22 - fitzRoy-1.3.0/fitzRoy/man/get_footywire_betting_odds.Rd | 22 - fitzRoy-1.3.0/fitzRoy/man/get_footywire_match_ids.Rd |only fitzRoy-1.3.0/fitzRoy/man/get_footywire_match_results.Rd | 22 - fitzRoy-1.3.0/fitzRoy/man/get_footywire_stats.Rd | 22 - fitzRoy-1.3.0/fitzRoy/man/get_fryzigg_stats.Rd | 25 - fitzRoy-1.3.0/fitzRoy/man/get_match_results.Rd | 18 - fitzRoy-1.3.0/fitzRoy/man/get_score_progression_raw.Rd | 15 fitzRoy-1.3.0/fitzRoy/man/get_squiggle_data.Rd | 39 -- fitzRoy-1.3.0/fitzRoy/man/return_ladder.Rd | 27 - fitzRoy-1.3.0/fitzRoy/man/update_footywire_stats.Rd | 18 - fitzRoy-1.3.0/fitzRoy/tests/spelling.R | 9 fitzRoy-1.3.0/fitzRoy/tests/testthat.R | 10 fitzRoy-1.3.0/fitzRoy/tests/testthat/_snaps |only fitzRoy-1.3.0/fitzRoy/tests/testthat/test-deprecated-functions.R |only fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch-betting-odds.R | 30 + fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch-fixture.R | 13 fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch-ladder.R | 10 fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch-player-details.R | 42 ++ fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch-player-stats.R | 27 + fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch-results.R | 16 - fitzRoy-1.3.0/fitzRoy/tests/testthat/test-fetch_lineup.R | 22 + fitzRoy-1.3.0/fitzRoy/vignettes/docker-support.Rmd | 2 fitzRoy-1.3.0/fitzRoy/vignettes/elo-ratings-example.Rmd | 2 83 files changed, 1395 insertions(+), 1248 deletions(-)
Title: Tool Suite to Investigate Other Packages
Description: Helps investigating other packages during code review by looking
at their dependencies.
Author: Maarten van Kessel [aut, cre]
Maintainer: Maarten van Kessel <m.l.vankessel@erasmusmc.nl>
Diff between DependencyReviewer versions 1.2.0 dated 2023-02-21 and 1.2.1 dated 2023-03-01
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- inst/doc/Documentation.pdf |binary 3 files changed, 6 insertions(+), 6 deletions(-)
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