Title: Generalized Linear Models with Truncated Lasso Penalty
Description: Extremely efficient procedures for fitting regularization path with l0, l1, and truncated lasso penalty for linear regression and logistic regression models. This version is a completely new version compared with our previous version, which was mainly based on R. New core algorithms are developed and are now written in C++ and highly optimized.
Author: Chunlin Li [aut],
Yu Yang [aut, cre],
Chong Wu [aut]
Maintainer: Yu Yang <yang6367@umn.edu>
Diff between glmtlp versions 2.0.0 dated 2021-10-15 and 2.0.1 dated 2021-12-17
DESCRIPTION | 14 MD5 | 96 +++--- NAMESPACE | 6 NEWS.md | 11 R/cv.glmtlp.R | 87 +++-- R/data.R | 169 ++++++++++- R/glmtlp.R | 444 +++++++++++++++-------------- R/plot_cv_glmtlp.R | 36 +- R/plot_glmtlp.R | 57 ++- R/predict.R | 65 ++-- R/predict_cv.R | 63 ++-- R/setup_lambda.R | 36 +- README.md | 224 ++++++++++----- build/vignette.rds |binary data/bin_data.rda |binary data/gau_data.rda |binary inst/doc/glmtlp.R | 8 inst/doc/glmtlp.Rmd | 75 ++--- inst/doc/glmtlp.pdf |binary man/bin_data.Rd | 10 man/cv.glmtlp.Rd | 51 ++- man/figures/README-example1-1.png |binary man/figures/README-example1-2.png |binary man/figures/README-example2-1.png |binary man/figures/README-example2-2.png |binary man/figures/README-example3-1.png |binary man/figures/README-example3-2.png |binary man/figures/README-example4-1.png |only man/figures/README-example4-2.png |only man/figures/README-example5-1.png |only man/figures/README-example5-2.png |only man/figures/README-example6-1.png |only man/figures/README-example6-2.png |only man/gau_data.Rd | 7 man/gen.binomial.data.Rd |only man/gen.gaussian.data.Rd |only man/glmtlp.Rd | 212 ++++++-------- man/plot.cv.glmtlp.Rd | 29 + man/plot.glmtlp.Rd | 41 +- man/predict.cv.glmtlp.Rd | 63 ++-- man/predict.glmtlp.Rd | 59 ++- man/setup_lambda.Rd |only src/algo.cc | 231 ++++----------- src/algo.h | 35 -- src/glmtlp.h | 118 ++++++- src/glmtlp_r_init.cc | 566 +++++++++++++++++++++++++++++++------- src/init.cc |only src/linreg_l0.cc | 119 ++++--- src/linreg_l1.cc | 120 ++------ src/linreg_tlp.cc | 77 +++-- src/logistic_l0.cc |only src/logistic_l1.cc | 73 ++-- src/logistic_tlp.cc |only src/utils.h | 8 vignettes/glmtlp.Rmd | 75 ++--- 55 files changed, 1960 insertions(+), 1325 deletions(-)
Title: Grammar Extensions to 'ggplot2'
Description: Extensions to 'ggplot2' respecting the grammar of graphics
paradigm. Geometries: geom_table(), geom_plot() and geom_grob() add insets to
plots using native data coordinates, while geom_table_npc(), geom_plot_npc()
and geom_grob_npc() do the same using "npc" coordinates through new
aesthetics "npcx" and "npcy". Statistics: select observations based on 2D
density. Positions: radial nudging away from a center point and nudging away
from a line or curve; combined stacking and nudging; combined dodging and
nudging.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Kamil Slowikowski [ctb] (<https://orcid.org/0000-0002-2843-6370>),
Michał Krassowski [ctb] (<https://orcid.org/0000-0002-9638-7785>)
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between ggpp versions 0.4.2 dated 2021-07-31 and 0.4.3 dated 2021-12-17
ggpp-0.4.2/ggpp/man/geom_text_linked.Rd |only ggpp-0.4.3/ggpp/DESCRIPTION | 21 ggpp-0.4.3/ggpp/MD5 | 72 - ggpp-0.4.3/ggpp/NAMESPACE | 19 ggpp-0.4.3/ggpp/NEWS.md | 101 + ggpp-0.4.3/ggpp/R/geom-grob.R | 267 +++- ggpp-0.4.3/ggpp/R/geom-label-linked.r |only ggpp-0.4.3/ggpp/R/geom-plot.R | 260 +++- ggpp-0.4.3/ggpp/R/geom-point-linked.r |only ggpp-0.4.3/ggpp/R/geom-table.R | 321 +++-- ggpp-0.4.3/ggpp/R/geom-text-linked.r | 446 +++---- ggpp-0.4.3/ggpp/R/position-nudge-center.R | 22 ggpp-0.4.3/ggpp/R/position-nudge-dodge.R |only ggpp-0.4.3/ggpp/R/position-nudge-dodge2.R |only ggpp-0.4.3/ggpp/R/position-nudge-jitter.R |only ggpp-0.4.3/ggpp/R/position-nudge-line.R | 29 ggpp-0.4.3/ggpp/R/position-nudge-stack.R |only ggpp-0.4.3/ggpp/R/position-nudge-to.R | 30 ggpp-0.4.3/ggpp/R/stat-dens2d-labels.r | 2 ggpp-0.4.3/ggpp/R/stat-fmt-tb.R | 4 ggpp-0.4.3/ggpp/README.md | 143 +- ggpp-0.4.3/ggpp/build/vignette.rds |binary ggpp-0.4.3/ggpp/inst/doc/grammar-extensions.R | 297 +++-- ggpp-0.4.3/ggpp/inst/doc/grammar-extensions.Rmd | 861 +++++++++------ ggpp-0.4.3/ggpp/inst/doc/grammar-extensions.html | 735 ++++++++---- ggpp-0.4.3/ggpp/man/figures/README-unnamed-chunk-1-1.png |binary ggpp-0.4.3/ggpp/man/figures/README-unnamed-chunk-2-1.png |only ggpp-0.4.3/ggpp/man/figures/README-unnamed-chunk-3-1.png |only ggpp-0.4.3/ggpp/man/geom_grob.Rd | 137 +- ggpp-0.4.3/ggpp/man/geom_plot.Rd | 136 +- ggpp-0.4.3/ggpp/man/geom_point_s.Rd |only ggpp-0.4.3/ggpp/man/geom_table.Rd | 174 +-- ggpp-0.4.3/ggpp/man/geom_text_s.Rd |only ggpp-0.4.3/ggpp/man/ggpp-ggproto.Rd | 16 ggpp-0.4.3/ggpp/man/ggpp-package.Rd | 11 ggpp-0.4.3/ggpp/man/position_dodgenudge.Rd |only ggpp-0.4.3/ggpp/man/position_jitternudge.Rd |only ggpp-0.4.3/ggpp/man/position_nudge_center.Rd | 13 ggpp-0.4.3/ggpp/man/position_nudge_line.Rd | 10 ggpp-0.4.3/ggpp/man/position_nudge_to.Rd | 13 ggpp-0.4.3/ggpp/man/position_stacknudge.Rd |only ggpp-0.4.3/ggpp/man/stat_dens2d_labels.Rd | 2 ggpp-0.4.3/ggpp/man/stat_fmt_tb.Rd | 4 ggpp-0.4.3/ggpp/vignettes/grammar-extensions.Rmd | 861 +++++++++------ 44 files changed, 3185 insertions(+), 1822 deletions(-)
Title: A Set of Common Tools for Seasonal to Decadal Verification
Description: The advanced version of package 's2dverification'. It is
intended for 'seasonal to decadal' (s2d) climate forecast verification, but
it can also be used in other kinds of forecasts or general climate analysis.
This package is specially designed for the comparison between the experimental
and observational datasets. The functionality of the included functions covers
from data retrieval, data post-processing, skill scores against observation,
to visualization. Compared to 's2dverification', 's2dv' is more compatible
with the package 'startR', able to use multiple cores for computation and
handle multi-dimensional arrays with a higher flexibility.
Author: BSC-CNS [aut, cph],
An-Chi Ho [aut, cre],
Nuria Perez-Zanon [aut],
Roberto Bilbao [ctb],
Carlos Delgado [ctb],
Llorenç Lledó [ctb],
Andrea Manrique [ctb],
Deborah Verfaillie [ctb]
Maintainer: An-Chi Ho <an.ho@bsc.es>
Diff between s2dv versions 1.0.0 dated 2021-06-16 and 1.1.0 dated 2021-12-17
DESCRIPTION | 12 +-- MD5 | 66 +++++++++--------- NAMESPACE | 6 + NEWS.md | 10 ++ R/Ano.R | 4 - R/Ano_CrossValid.R | 2 R/BrierScore.R | 2 R/CDORemap.R | 59 ++++++++++------ R/Clim.R | 4 - R/Cluster.R | 2 R/Histo2Hindcast.R | 12 +-- R/MeanDims.R | 50 ++++++++++--- R/PlotEquiMap.R | 139 +++++++++++++++++++++++--------------- R/PlotLayout.R | 14 ++- R/ProbBins.R | 2 R/REOF.R | 6 - R/RatioPredictableComponents.R |only R/RatioSDRMS.R | 7 - R/Season.R | 3 R/SignalNoiseRatio.R |only R/Smoothing.R | 5 - R/Spread.R | 14 +-- R/Utils.R | 6 - inst/doc/FAQ.md | 47 ++++++++++++ man/Ano.Rd | 4 - man/Ano_CrossValid.Rd | 2 man/CDORemap.Rd | 9 +- man/Clim.Rd | 4 - man/MeanDims.Rd | 19 +++-- man/PlotEquiMap.Rd | 19 ++++- man/PlotLayout.Rd | 4 + man/RatioPredictableComponents.Rd |only man/RatioSDRMS.Rd | 5 - man/SignalNoiseRatio.Rd |only man/Smoothing.Rd | 5 - man/Spread.Rd | 10 +- 36 files changed, 361 insertions(+), 192 deletions(-)
Title: Authenticate and Create Google APIs
Description: Create R functions that interact with OAuth2 Google APIs
<https://developers.google.com/apis-explorer/> easily,
with auto-refresh and Shiny compatibility.
Author: Mark Edmondson [aut, cre] (<https://orcid.org/0000-0002-8434-3881>),
Jennifer Bryan [ctb],
Johann deBoer [ctb],
Neal Richardson [ctb],
David Kulp [ctb],
Joe Cheng [ctb]
Maintainer: Mark Edmondson <m@sunholo.com>
Diff between googleAuthR versions 1.4.0 dated 2021-04-02 and 1.4.1 dated 2021-12-17
DESCRIPTION | 10 ++-- MD5 | 30 ++++++------- NEWS.md | 5 ++ R/service_creation.R | 66 ++++++++++++++++-------------- R/setup_wizard.R | 8 +-- README.md | 2 build/vignette.rds |binary inst/doc/advanced-building.Rmd | 4 - inst/doc/advanced-building.html | 18 +++++--- inst/doc/building.html | 14 +++++- inst/doc/google-authentication-types.html | 14 +++++- inst/doc/setup.html | 14 +++++- inst/doc/troubleshooting.Rmd | 12 ++--- inst/doc/troubleshooting.html | 28 ++++++++---- vignettes/advanced-building.Rmd | 4 - vignettes/troubleshooting.Rmd | 12 ++--- 16 files changed, 147 insertions(+), 94 deletions(-)
Title: Fast Kalman Filter
Description: This is a fast and flexible implementation of the Kalman
filter and smoother, which can deal with NAs. It is entirely written in C and relies fully on linear algebra subroutines contained in
BLAS and LAPACK. Due to the speed of the filter, the fitting of
high-dimensional linear state space models to large datasets
becomes possible. This package also contains a plot function
for the visualization of the state vector and graphical
diagnostics of the residuals.
Author: David Luethi [aut],
Philipp Erb [aut],
Simon Otziger [aut],
Daniel McDonald [aut],
Paul Smith [aut, cre] (<https://orcid.org/0000-0002-0034-3412>)
Maintainer: Paul Smith <paul@waternumbers.co.uk>
Diff between FKF versions 0.2.2 dated 2021-10-17 and 0.2.3 dated 2021-12-17
DESCRIPTION | 6 +-- MD5 | 28 +++++++------- NEWS.md | 5 ++ R/fks.R | 21 +++++------ R/plot.fks.R | 7 ++- README.md | 4 +- build/vignette.rds |binary inst/doc/FKF.R | 4 +- inst/doc/FKF.Rmd | 6 +-- inst/doc/FKF.html | 26 ++++++------- man/fks.Rd | 15 ++++--- src/fkflib.c | 87 ++++++++++++++++++++++++++++------------------ tests/testthat/test-fkf.R | 2 - tests/testthat/test-fks.R | 35 ++++++++++-------- vignettes/FKF.Rmd | 6 +-- 15 files changed, 142 insertions(+), 110 deletions(-)
Title: CRAN Task Views
Description: Infrastructure for task views to CRAN-style repositories: Querying task views and installing the associated
packages (client-side tools), generating HTML pages and storing task view information in the repository
(server-side tools).
Author: Achim Zeileis [aut, cre] (<https://orcid.org/0000-0003-0918-3766>),
Kurt Hornik [aut] (<https://orcid.org/0000-0003-4198-9911>)
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between ctv versions 0.9-0 dated 2021-12-14 and 0.9-1 dated 2021-12-17
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 9 +++++++++ R/ctv-md.R | 2 +- man/ctv-server.Rd | 2 ++ tests/read-all.R | 4 ++++ 6 files changed, 25 insertions(+), 10 deletions(-)
Title: Optimizing Consistency and Coverage in Configurational Causal
Modeling
Description: This is an add-on to the 'cna' package <https://CRAN.R-project.org/package=cna> comprising various functions for optimizing consistency and coverage scores of models of configurational comparative methods as Coincidence Analysis (CNA) and Qualitative Comparative Analysis (QCA). The function conCovOpt() calculates con-cov optima, selectMax() selects con-cov maxima among the con-cov optima, DNFbuild() can be used to build models actually reaching those optima, and findOutcomes() identifies those factor values in analyzed data that can be modeled as outcomes. For a theoretical introduction to these functions see Baumgartner and Ambuehl (2021) <doi:10.1177/0049124121995554>.
Author: Mathias Ambuehl [aut, cre, cph],
Michael Baumgartner [aut, cph]
Maintainer: Mathias Ambuehl <mathias.ambuehl@consultag.ch>
Diff between cnaOpt versions 0.4.0 dated 2021-07-08 and 0.5.0 dated 2021-12-17
cnaOpt-0.4.0/cnaOpt/man/reprodAssign.Rd |only cnaOpt-0.5.0/cnaOpt/DESCRIPTION | 12 - cnaOpt-0.5.0/cnaOpt/MD5 | 35 ++--- cnaOpt-0.5.0/cnaOpt/NAMESPACE | 2 cnaOpt-0.5.0/cnaOpt/R/RcppExports.R | 40 +++++ cnaOpt-0.5.0/cnaOpt/R/cnaOpt.R | 114 +++++++--------- cnaOpt-0.5.0/cnaOpt/R/conCovOpt.R | 39 ++--- cnaOpt-0.5.0/cnaOpt/R/conCovOpt_utils.R | 156 ++++++++++++----------- cnaOpt-0.5.0/cnaOpt/R/ereduce.R | 45 +++++- cnaOpt-0.5.0/cnaOpt/R/findOutcomes.R |only cnaOpt-0.5.0/cnaOpt/inst/NEWS | 8 + cnaOpt-0.5.0/cnaOpt/man/cnaOpt.Rd | 62 ++++++--- cnaOpt-0.5.0/cnaOpt/man/conCovOpt.Rd | 21 +-- cnaOpt-0.5.0/cnaOpt/man/conCovOpt_utils.Rd |only cnaOpt-0.5.0/cnaOpt/man/ereduce.Rd | 13 + cnaOpt-0.5.0/cnaOpt/man/selectMax.Rd | 39 ++--- cnaOpt-0.5.0/cnaOpt/src/C_iterate.cpp | 74 ++-------- cnaOpt-0.5.0/cnaOpt/src/C_iterate.h |only cnaOpt-0.5.0/cnaOpt/src/C_iterate2.cpp |only cnaOpt-0.5.0/cnaOpt/src/RcppExports.cpp | 134 ++++++++++++++++--- cnaOpt-0.5.0/cnaOpt/src/min_hitting_sets_aux.cpp | 128 ++++++++++++++---- 21 files changed, 566 insertions(+), 356 deletions(-)
Title: Gaussian Mixture Modelling for Model-Based Clustering,
Classification, and Density Estimation
Description: Gaussian finite mixture models fitted via EM algorithm for
model-based clustering, classification, and density estimation,
including Bayesian regularization, dimension reduction for
visualisation, and resampling-based inference.
Author: Chris Fraley [aut],
Adrian E. Raftery [aut] (<https://orcid.org/0000-0002-6589-301X>),
Luca Scrucca [aut, cre] (<https://orcid.org/0000-0003-3826-0484>),
Thomas Brendan Murphy [ctb] (<https://orcid.org/0000-0002-5668-7046>),
Michael Fop [ctb] (<https://orcid.org/0000-0003-3936-2757>)
Maintainer: Luca Scrucca <luca.scrucca@unipg.it>
Diff between mclust versions 5.4.8 dated 2021-11-05 and 5.4.9 dated 2021-12-17
mclust-5.4.8/mclust/data/Baudry_etal_2010_JCGS_examples.R |only mclust-5.4.8/mclust/data/EuroUnemployment.R |only mclust-5.4.8/mclust/data/GvHD.R |only mclust-5.4.8/mclust/data/acidity.R |only mclust-5.4.8/mclust/data/banknote.txt |only mclust-5.4.8/mclust/data/chevron.R |only mclust-5.4.8/mclust/data/cross.R |only mclust-5.4.8/mclust/data/diabetes.R |only mclust-5.4.8/mclust/data/thyroid.R |only mclust-5.4.8/mclust/data/wdbc.txt |only mclust-5.4.8/mclust/data/wreath.R |only mclust-5.4.9/mclust/DESCRIPTION | 8 mclust-5.4.9/mclust/MD5 | 49 + mclust-5.4.9/mclust/NAMESPACE | 8 mclust-5.4.9/mclust/NEWS.md | 5 mclust-5.4.9/mclust/R/densityMclust.R | 62 -- mclust-5.4.9/mclust/R/graphics.R | 99 +++- mclust-5.4.9/mclust/R/mbahc.R | 297 +++++------- mclust-5.4.9/mclust/R/mclust.R | 3 mclust-5.4.9/mclust/R/mclustda.R | 7 mclust-5.4.9/mclust/R/mclustdr.R | 17 mclust-5.4.9/mclust/data/Baudry_etal_2010_JCGS_examples.rda |only mclust-5.4.9/mclust/data/EuroUnemployment.rda |only mclust-5.4.9/mclust/data/GvHD.rda |only mclust-5.4.9/mclust/data/acidity.rda |only mclust-5.4.9/mclust/data/banknote.txt.gz |only mclust-5.4.9/mclust/data/chevron.rda |only mclust-5.4.9/mclust/data/cross.rda |only mclust-5.4.9/mclust/data/diabetes.rda |only mclust-5.4.9/mclust/data/thyroid.rda |only mclust-5.4.9/mclust/data/wdbc.txt.gz |only mclust-5.4.9/mclust/data/wreath.rda |only mclust-5.4.9/mclust/inst/doc/mclust.html | 20 mclust-5.4.9/mclust/man/cdfMclust.Rd | 2 mclust-5.4.9/mclust/man/crimcoords.Rd |only mclust-5.4.9/mclust/man/cvMclustDA.Rd | 4 mclust-5.4.9/mclust/man/mclust-internal.Rd | 2 37 files changed, 319 insertions(+), 264 deletions(-)
Title: 'RStudio' Addin for Network Analysis and Visualization
Description: 'RStudio' addin which provides a GUI to visualize and analyse networks.
After finishing a session, the code to produce the plot is inserted in the current script.
Alternatively, the function SNAhelperGadget() can be used directly from the console.
Additional addins include the Netreader() for reading network files, Netbuilder() to create
small networks via point and click, and the Componentlayouter() to layout networks with many components manually.
Author: David Schoch [aut, cre] (<https://orcid.org/0000-0003-2952-4812>)
Maintainer: David Schoch <david@schochastics.net>
Diff between snahelper versions 1.3.0 dated 2021-09-03 and 1.4.0 dated 2021-12-17
DESCRIPTION | 13 +++++++------ MD5 | 8 ++++---- NEWS.md | 7 ++++++- R/SNAhelper.R | 13 ++++++++++--- README.md | 1 + 5 files changed, 28 insertions(+), 14 deletions(-)
Title: Addons for the 'mclust' Package
Description: Extend the functionality of the 'mclust' package for
Gaussian finite mixture modelling by including:
density estimation for data with bounded support
(Scrucca, 2019 <doi:10.1002/bimj.201800174>);
modal clustering using MEM algorithm for Gaussian mixtures
(Scrucca, 2021 <doi:10.1002/sam.11527>).
Author: Luca Scrucca [aut, cre]
Maintainer: Luca Scrucca <luca.scrucca@unipg.it>
Diff between mclustAddons versions 0.5 dated 2021-09-29 and 0.6 dated 2021-12-17
DESCRIPTION | 8 MD5 | 26 - NAMESPACE | 4 NEWS.md | 5 R/ModalEM.R | 49 +- R/RcppExports.R | 4 R/densityMclustBounded.R | 659 +++++++++++++++++++++++---------- inst/doc/mclustAddons.html | 367 +++++++++++++++--- man/MclustMEM.Rd | 2 man/cdfDensityBounded.Rd |only man/densityMclustBounded.Rd | 2 man/densityMclustBounded.diagnostic.Rd |only src/RangePowerTransform.cpp | 10 src/RcppExports.cpp | 12 src/init.c | 2 15 files changed, 844 insertions(+), 306 deletions(-)
Title: Matrices in Data Frames
Description: Provides functions to collapse a tidy data frame into matrices in a data frame
and expand a data frame of matrices into a tidy data frame.
Author: Matthew Heun [aut, cre] (<https://orcid.org/0000-0002-7438-214X>)
Maintainer: Matthew Heun <matthew.heun@me.com>
Diff between matsindf versions 0.3.9 dated 2021-10-03 and 0.3.10 dated 2021-12-17
DESCRIPTION | 11 ++- MD5 | 32 ++++++---- NEWS.md | 18 +++++- R/collapse.R | 90 +++++++++++++++--------------- README.md | 3 - build/vignette.rds |binary inst/CITATION | 4 - inst/WORDLIST | 4 + inst/doc/iris_pca.R |only inst/doc/iris_pca.Rmd |only inst/doc/iris_pca.html |only inst/doc/matsindf.html | 4 - inst/doc/midf_apply_primer.html | 4 - man/collapse_to_matrices.Rd | 70 ++++++++++++------------ tests/testthat/test-collapse.R | 84 ++++++++++++++++++++++++++-- tests/testthat/test-expand.R | 21 +++++-- tests/testthat/test-matsindf_apply.R | 102 +++++++++++++++++++++++++---------- tests/testthat/test-utilities.R | 34 ++++------- vignettes/iris_pca.Rmd |only 19 files changed, 316 insertions(+), 165 deletions(-)
Title: Visualise and Explore the Deep Dependencies of R Packages
Description: Provides tools for exploration of R package dependencies.
The main deepdep() function allows to acquire deep dependencies of any package and plot them in an elegant way.
It also adds some popularity measures for the packages e.g. in the form of download count through the 'cranlogs' package.
Uses the CRAN metadata database <http://crandb.r-pkg.org> and Bioconductor metadata <http://bioconductor.org>.
Other data acquire functions are: get_dependencies(), get_downloads() and get_description().
The deepdep_shiny() function runs shiny application that helps to produce a nice 'deepdep' plot.
Author: Dominik Rafacz [aut, cre] (<https://orcid.org/0000-0003-0925-1909>),
Hubert Baniecki [aut],
Szymon Maksymiuk [aut],
Laura Bakala [aut],
Dirk Eddelbuettel [ctb]
Maintainer: Dominik Rafacz <dominikrafacz@gmail.com>
Diff between deepdep versions 0.3.0 dated 2021-12-09 and 0.4.0 dated 2021-12-17
deepdep-0.3.0/deepdep/tests/fixtures/deepdep-1.yml |only deepdep-0.4.0/deepdep/DESCRIPTION | 15 deepdep-0.4.0/deepdep/MD5 | 116 deepdep-0.4.0/deepdep/NAMESPACE | 71 deepdep-0.4.0/deepdep/NEWS.md | 73 deepdep-0.4.0/deepdep/R/api_utils.R | 112 deepdep-0.4.0/deepdep/R/cache_utils.R | 68 deepdep-0.4.0/deepdep/R/deepdep.R | 207 deepdep-0.4.0/deepdep/R/deepdep_shiny.R | 24 deepdep-0.4.0/deepdep/R/get_available_packages.R | 158 deepdep-0.4.0/deepdep/R/get_dependencies.R | 234 - deepdep-0.4.0/deepdep/R/get_description.R | 408 - deepdep-0.4.0/deepdep/R/get_downloads.R | 144 deepdep-0.4.0/deepdep/R/plot_deepdep.R | 481 +- deepdep-0.4.0/deepdep/R/plot_downloads.R | 241 - deepdep-0.4.0/deepdep/R/print_package_description.R | 52 deepdep-0.4.0/deepdep/R/require_packages.R |only deepdep-0.4.0/deepdep/build/vignette.rds |binary deepdep-0.4.0/deepdep/inst/WORDLIST | 40 deepdep-0.4.0/deepdep/inst/doc/deepdep-comparison.Rmd | 305 - deepdep-0.4.0/deepdep/inst/doc/deepdep-comparison.html | 599 +- deepdep-0.4.0/deepdep/inst/doc/deepdep-package.Rmd | 705 +-- deepdep-0.4.0/deepdep/inst/doc/deepdep-package.html | 807 +-- deepdep-0.4.0/deepdep/inst/shiny_app/server.R | 98 deepdep-0.4.0/deepdep/inst/shiny_app/ui.R | 98 deepdep-0.4.0/deepdep/man/deepdep.Rd | 119 deepdep-0.4.0/deepdep/man/deepdep_shiny.Rd | 22 deepdep-0.4.0/deepdep/man/get_available_packages.Rd | 86 deepdep-0.4.0/deepdep/man/get_dependencies.Rd | 106 deepdep-0.4.0/deepdep/man/get_description.Rd | 76 deepdep-0.4.0/deepdep/man/get_downloads.Rd | 56 deepdep-0.4.0/deepdep/man/plot_deepdep.Rd | 224 - deepdep-0.4.0/deepdep/man/plot_downloads.Rd | 106 deepdep-0.4.0/deepdep/man/print.available_packages.Rd | 50 deepdep-0.4.0/deepdep/man/print.deepdep.Rd | 50 deepdep-0.4.0/deepdep/man/print.package_dependencies.Rd | 48 deepdep-0.4.0/deepdep/man/print.package_description.Rd | 50 deepdep-0.4.0/deepdep/man/print.package_downloads.Rd | 50 deepdep-0.4.0/deepdep/tests/fixtures/deepdep-1.json |only deepdep-0.4.0/deepdep/tests/fixtures/deepdep-2.yml | 96 deepdep-0.4.0/deepdep/tests/fixtures/deepdep-3.yml |only deepdep-0.4.0/deepdep/tests/fixtures/plot-1.yml | 2126 +++++----- deepdep-0.4.0/deepdep/tests/fixtures/plot-2.yml | 96 deepdep-0.4.0/deepdep/tests/fixtures/plot-dnl-1.yml |only deepdep-0.4.0/deepdep/tests/spelling.R | 4 deepdep-0.4.0/deepdep/tests/testthat.R | 8 deepdep-0.4.0/deepdep/tests/testthat/setup-deepdep.R | 14 deepdep-0.4.0/deepdep/tests/testthat/test-deepdep.R | 111 deepdep-0.4.0/deepdep/tests/testthat/test-development.R | 32 deepdep-0.4.0/deepdep/tests/testthat/test-get_available_packages.R | 18 deepdep-0.4.0/deepdep/tests/testthat/test-match_dependency_type.R | 54 deepdep-0.4.0/deepdep/tests/testthat/test-plot.R | 106 deepdep-0.4.0/deepdep/tests/testthat/test-plot_downloads.R |only deepdep-0.4.0/deepdep/vignettes/deepdep-comparison.Rmd | 305 - deepdep-0.4.0/deepdep/vignettes/deepdep-package.Rmd | 705 +-- deepdep-0.4.0/deepdep/vignettes/miniCRAN-1.png |binary deepdep-0.4.0/deepdep/vignettes/plot_dependencies1-1.png |binary deepdep-0.4.0/deepdep/vignettes/plot_dependencies1-2.png |binary deepdep-0.4.0/deepdep/vignettes/plot_dependencies2-1.png |binary deepdep-0.4.0/deepdep/vignettes/plot_dependencies3-1.png |binary deepdep-0.4.0/deepdep/vignettes/plot_dependencies4-1.png |binary deepdep-0.4.0/deepdep/vignettes/plot_dependencies5-1.png |binary 62 files changed, 4917 insertions(+), 4857 deletions(-)
Title: Causal Modeling with Coincidence Analysis
Description: Provides comprehensive functionalities for causal modeling with Coincidence Analysis (CNA), which is a configurational comparative method of causal data analysis that was first introduced in Baumgartner (2009) <doi:10.1177/0049124109339369>, and generalized in Baumgartner & Ambuehl (2018) <doi:10.1017/psrm.2018.45>. CNA is designed to recover INUS-causation from data, which is particularly relevant for analyzing processes featuring conjunctural causation (component causation) and equifinality (alternative causation). CNA is currently the only method for INUS-discovery that allows for multiple effects (outcomes/endogenous factors), meaning it can analyze common-cause and causal chain structures.
Author: Mathias Ambuehl [aut, cre, cph],
Michael Baumgartner [aut, cph],
Ruedi Epple [ctb],
Veli-Pekka Parkkinen [ctb],
Alrik Thiem [ctb]
Maintainer: Mathias Ambuehl <mathias.ambuehl@consultag.ch>
Diff between cna versions 3.2.0 dated 2021-06-14 and 3.3.0 dated 2021-12-17
DESCRIPTION | 8 MD5 | 58 +- R/cna.r | 22 - R/condition.r | 6 R/configTable.R | 5 R/full.ct.R | 4 R/getCondtype.R | 2 R/randomConds.R | 152 +++++-- R/rreduce.R | 93 ++-- inst/NEWS | 5 inst/doc/cna.Rnw | 27 - inst/doc/cna.pdf |binary man/cna-package.Rd | 16 man/cna.Rd | 1049 +++++++++++++++++++++++++--------------------------- man/coherence.Rd | 98 ++-- man/condTbl.Rd | 12 man/configTable.Rd | 8 man/full.ct.Rd | 4 man/is.inus.Rd | 4 man/makeFuzzy.Rd | 112 ++--- man/minimalize.Rd | 162 ++++---- man/randomConds.Rd | 357 +++++++++-------- man/redundant.Rd | 168 ++++---- man/rreduce.Rd | 20 man/selectCases.Rd | 6 man/shortcuts.Rd | 106 ++--- man/some.Rd | 2 src/RcppExports.cpp | 9 src/asf_search.cpp | 10 vignettes/cna.Rnw | 27 - 30 files changed, 1342 insertions(+), 1210 deletions(-)
Title: Simple Features for R
Description: Support for simple features, a standardized way to
encode spatial vector data. Binds to 'GDAL' for reading and writing
data, to 'GEOS' for geometrical operations, and to 'PROJ' for
projection conversions and datum transformations. Uses by default the 's2'
package for spherical geometry operations on ellipsoidal (long/lat) coordinates.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>),
Roger Bivand [ctb] (<https://orcid.org/0000-0003-2392-6140>),
Etienne Racine [ctb],
Michael Sumner [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Kirill Müller [ctb],
Thomas Lin Pedersen [ctb],
Dan Baston [ctb],
Dewey Dunnington [ctb] (<https://orcid.org/0000-0002-9415-4582>)
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 1.0-4 dated 2021-11-14 and 1.0-5 dated 2021-12-17
DESCRIPTION | 6 ++-- MD5 | 63 ++++++++++++++++++++++---------------------- NEWS.md | 8 +++++ R/RcppExports.R | 4 +- R/bbox.R | 2 - R/cast_sfg.R | 6 +++- R/gdal_utils.R | 2 - R/init.R | 5 +-- R/read.R | 6 ++-- R/s2.R | 2 - R/sample.R | 4 ++ R/wkt.R | 9 ++---- configure | 33 +++++++++++++---------- configure.ac | 11 ++++++- inst/doc/sf1.html | 8 ++--- inst/doc/sf2.html | 6 ++-- inst/doc/sf4.html | 2 - inst/doc/sf5.html | 15 +++++----- inst/doc/sf6.Rmd | 2 - inst/doc/sf6.html | 4 +- inst/doc/sf7.Rmd | 2 - inst/doc/sf7.html | 10 +++--- inst/docker/gdal/Dockerfile | 9 ++++-- inst/docker/spcosa |only man/st_as_sfc.Rd | 3 -- man/st_as_text.Rd | 6 ++-- src/Makevars.ucrt | 21 +++++++++++++- src/RcppExports.cpp | 9 +++--- src/gdal_utils.cpp | 6 +++- src/gdal_write.cpp | 7 +--- src/stars.cpp | 13 ++++----- vignettes/sf6.Rmd | 2 - vignettes/sf7.Rmd | 2 - 33 files changed, 168 insertions(+), 120 deletions(-)
Title: Rhythmic Patterns Modeling by FMM Models
Description: Provides a collection of functions to fit and explore single, multi-component and restricted Frequency Modulated Moebius (FMM) models. 'FMM' is a nonlinear parametric regression model capable of fitting non-sinusoidal shapes in rhythmic patterns. Details about the mathematical formulation of 'FMM' models can be found in Rueda et al. (2019) <doi:10.1038/s41598-019-54569-1>.
Author: Itziar Fernandez, Alejandro Rodriguez-Collado, Yolanda Larriba, Adrian Lamela, Christian Canedo, Cristina Rueda
Maintainer: Itziar Fernandez <itziar.fernandez@uva.es>
Diff between FMM versions 0.3.0 dated 2021-07-26 and 0.3.1 dated 2021-12-17
DESCRIPTION | 14 - MD5 | 30 ++- NAMESPACE | 4 NEWS.md | 37 ---- R/fitFMM.R | 452 ++++++++++++++++++++++++------------------------- R/fitFMM_back.R | 272 +++++++++++++++--------------- R/fitFMM_restr.R | 498 ++++++++++++++++++++++++++++--------------------------- R/plotFMM.R | 339 +++++++++++++++++++------------------ README.md | 11 + build |only inst |only man/ecgData.Rd | 72 +++---- man/fitFMM.Rd | 250 +++++++++++++-------------- man/plotFMM.Rd | 167 +++++++++--------- tests |only vignettes |only 16 files changed, 1088 insertions(+), 1058 deletions(-)
Title: Methods for Closed Testing with Simes Inequality, in Particular
Hommel's Method
Description: Provides methods for closed testing using Simes local tests. In particular, calculates adjusted p-values for Hommel's multiple testing method, and provides lower confidence bounds for true discovery proportions. A robust but more conservative variant of the closed testing procedure that does not require the assumption of Simes inequality is also implemented. The methods have been described in detail in Goeman et al (2016) <arXiv:1611.06739v2>.
Author: Jelle Goeman, Rosa Meijer, Thijmen Krebs
Maintainer: Jelle Goeman <j.j.goeman@lumc.nl>
Diff between hommel versions 1.5 dated 2019-12-02 and 1.6 dated 2021-12-17
ChangeLog | 4 + DESCRIPTION | 10 ++- MD5 | 16 +++--- R/RcppExports.R | 4 - R/discoveries-function.R | 21 ++++---- man/fdp-function.Rd | 118 +++++++++++++++++++++++------------------------ man/hommel-package.Rd | 58 +++++++++++------------ src/RcppExports.cpp | 45 +++++++++-------- src/hommel.cpp | 94 ++++++++++++++++++------------------- 9 files changed, 192 insertions(+), 178 deletions(-)
More information about pcatsAPIclientR at CRAN
Permanent link
More information about BigDataStatMeth at CRAN
Permanent link
Title: Tidy Geospatial Networks
Description: Provides a tidy approach to spatial network
analysis, in the form of classes and functions that enable a seamless
interaction between the network analysis package 'tidygraph' and the
spatial analysis package 'sf'.
Author: Lucas van der Meer [aut, cre] (<https://orcid.org/0000-0001-6336-8628>),
Lorena Abad [aut] (<https://orcid.org/0000-0003-0554-734X>),
Andrea Gilardi [aut] (<https://orcid.org/0000-0002-9424-7439>),
Robin Lovelace [aut] (<https://orcid.org/0000-0001-5679-6536>)
Maintainer: Lucas van der Meer <luukvandermeer@live.nl>
Diff between sfnetworks versions 0.5.3 dated 2021-11-26 and 0.5.4 dated 2021-12-17
sfnetworks-0.5.3/sfnetworks/vignettes/join_filter.html |only sfnetworks-0.5.3/sfnetworks/vignettes/morphers.html |only sfnetworks-0.5.3/sfnetworks/vignettes/preprocess_and_clean.html |only sfnetworks-0.5.3/sfnetworks/vignettes/routing.html |only sfnetworks-0.5.3/sfnetworks/vignettes/structure.html |only sfnetworks-0.5.4/sfnetworks/DESCRIPTION | 6 sfnetworks-0.5.4/sfnetworks/MD5 | 179 sfnetworks-0.5.4/sfnetworks/NAMESPACE | 434 +- sfnetworks-0.5.4/sfnetworks/NEWS.md | 317 - sfnetworks-0.5.4/sfnetworks/R/agr.R | 216 - sfnetworks-0.5.4/sfnetworks/R/attrs.R | 388 - sfnetworks-0.5.4/sfnetworks/R/bbox.R | 136 sfnetworks-0.5.4/sfnetworks/R/blend.R | 1010 ++--- sfnetworks-0.5.4/sfnetworks/R/checks.R | 338 - sfnetworks-0.5.4/sfnetworks/R/edge.R | 598 +-- sfnetworks-0.5.4/sfnetworks/R/geom.R | 322 - sfnetworks-0.5.4/sfnetworks/R/join.R | 142 sfnetworks-0.5.4/sfnetworks/R/messages.R | 120 sfnetworks-0.5.4/sfnetworks/R/morphers.R | 1942 +++++----- sfnetworks-0.5.4/sfnetworks/R/node.R | 436 +- sfnetworks-0.5.4/sfnetworks/R/paths.R | 810 ++-- sfnetworks-0.5.4/sfnetworks/R/plot.R | 178 sfnetworks-0.5.4/sfnetworks/R/require.R | 224 - sfnetworks-0.5.4/sfnetworks/R/roxel.R | 32 sfnetworks-0.5.4/sfnetworks/R/s2.R | 18 sfnetworks-0.5.4/sfnetworks/R/sf.R | 1356 +++--- sfnetworks-0.5.4/sfnetworks/R/sfnetwork.R | 944 ++-- sfnetworks-0.5.4/sfnetworks/R/sfnetworks-package.R | 16 sfnetworks-0.5.4/sfnetworks/R/spatstat.R | 146 sfnetworks-0.5.4/sfnetworks/R/tibble.R | 152 sfnetworks-0.5.4/sfnetworks/R/tidygraph.R | 314 - sfnetworks-0.5.4/sfnetworks/R/utils.R | 740 +-- sfnetworks-0.5.4/sfnetworks/R/zzz.R | 187 sfnetworks-0.5.4/sfnetworks/README.md | 132 sfnetworks-0.5.4/sfnetworks/build/vignette.rds |binary sfnetworks-0.5.4/sfnetworks/inst/doc/sfn01_structure.R | 436 +- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn01_structure.Rmd | 741 +-- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn01_structure.html | 1682 ++++---- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn02_preprocess_clean.R | 582 +- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn02_preprocess_clean.Rmd | 828 ++-- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn02_preprocess_clean.html | 1368 +++---- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn03_join_filter.R | 512 +- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn03_join_filter.Rmd | 732 +-- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn03_join_filter.html | 1334 +++--- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn04_routing.R | 620 +-- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn04_routing.Rmd | 878 ++-- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn04_routing.html | 1208 +++--- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn05_morphers.R | 570 +- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn05_morphers.Rmd | 816 ++-- sfnetworks-0.5.4/sfnetworks/inst/doc/sfn05_morphers.html | 1452 +++---- sfnetworks-0.5.4/sfnetworks/man/as.linnet.Rd | 58 sfnetworks-0.5.4/sfnetworks/man/as_sfnetwork.Rd | 194 sfnetworks-0.5.4/sfnetworks/man/as_tibble.Rd | 104 sfnetworks-0.5.4/sfnetworks/man/autoplot.Rd | 50 sfnetworks-0.5.4/sfnetworks/man/figures/hexlogo.R | 122 sfnetworks-0.5.4/sfnetworks/man/is.sfnetwork.Rd | 52 sfnetworks-0.5.4/sfnetworks/man/node_coordinates.Rd | 126 sfnetworks-0.5.4/sfnetworks/man/plot.sfnetwork.Rd | 100 sfnetworks-0.5.4/sfnetworks/man/reexports.Rd | 36 sfnetworks-0.5.4/sfnetworks/man/roxel.Rd | 56 sfnetworks-0.5.4/sfnetworks/man/s2.Rd | 34 sfnetworks-0.5.4/sfnetworks/man/sf.Rd | 358 - sfnetworks-0.5.4/sfnetworks/man/sf_attr.Rd | 70 sfnetworks-0.5.4/sfnetworks/man/sfnetwork.Rd | 236 - sfnetworks-0.5.4/sfnetworks/man/sfnetworks-package.Rd | 66 sfnetworks-0.5.4/sfnetworks/man/spatial_edge_measures.Rd | 166 sfnetworks-0.5.4/sfnetworks/man/spatial_edge_predicates.Rd | 228 - sfnetworks-0.5.4/sfnetworks/man/spatial_morphers.Rd | 482 +- sfnetworks-0.5.4/sfnetworks/man/spatial_node_predicates.Rd | 210 - sfnetworks-0.5.4/sfnetworks/man/st_network_bbox.Rd | 120 sfnetworks-0.5.4/sfnetworks/man/st_network_blend.Rd | 212 - sfnetworks-0.5.4/sfnetworks/man/st_network_cost.Rd | 266 - sfnetworks-0.5.4/sfnetworks/man/st_network_join.Rd | 108 sfnetworks-0.5.4/sfnetworks/man/st_network_paths.Rd | 332 - sfnetworks-0.5.4/sfnetworks/tests/testthat.R | 8 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_bbox.R | 66 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_blend.R | 76 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_crs.R | 26 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_edges_nodes.R | 454 +- sfnetworks-0.5.4/sfnetworks/tests/testthat/test_geometry.R | 58 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_join.R | 134 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_morphers.R | 572 +- sfnetworks-0.5.4/sfnetworks/tests/testthat/test_paths.R | 334 - sfnetworks-0.5.4/sfnetworks/tests/testthat/test_plot.R | 44 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_sf.R | 248 - sfnetworks-0.5.4/sfnetworks/tests/testthat/test_sfnetworks.R | 118 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_spatstat.R | 36 sfnetworks-0.5.4/sfnetworks/tests/testthat/test_tidygraph.R | 42 sfnetworks-0.5.4/sfnetworks/vignettes/sfn01_structure.Rmd | 741 +-- sfnetworks-0.5.4/sfnetworks/vignettes/sfn02_preprocess_clean.Rmd | 828 ++-- sfnetworks-0.5.4/sfnetworks/vignettes/sfn03_join_filter.Rmd | 732 +-- sfnetworks-0.5.4/sfnetworks/vignettes/sfn04_routing.Rmd | 878 ++-- sfnetworks-0.5.4/sfnetworks/vignettes/sfn05_morphers.Rmd | 816 ++-- 93 files changed, 17704 insertions(+), 17885 deletions(-)
Title: RDF Library Bindings in R
Description: Provides methods to parse, query and serialize information
stored in the Resource Description Framework (RDF). RDF is described at <https://www.w3.org/TR/rdf-primer/>.
This package supports RDF by implementing an R interface to the Redland RDF C library,
described at <https://librdf.org/docs/api/index.html>. In brief, RDF provides a structured graph
consisting of Statements composed of Subject, Predicate, and Object Nodes.
Author: Matthew B. Jones [aut, cre],
Peter Slaughter [aut],
Jeroen Ooms [aut],
Carl Boettiger [aut],
Scott Chamberlain [aut],
David Beckett [cph],
University of Bristol [cph],
Regents of the University of California [cph]
Maintainer: Matthew B. Jones <jones@nceas.ucsb.edu>
Diff between redland versions 1.0.17-14 dated 2020-10-21 and 1.0.17-15 dated 2021-12-17
DESCRIPTION | 10 MD5 | 450 +++++++++--------- NEWS | 14 README.md | 1 build/vignette.rds |binary cleanup | 1 configure | 5 inst/Makefile |only inst/config.log |only inst/config.status |only inst/doc/redland_overview.html | 332 +------------ man/Query-class.Rd | 12 man/librdf_copyright_string.Rd | 2 man/librdf_copyright_string_get.Rd | 2 man/librdf_digest_final.Rd | 2 man/librdf_digest_init.Rd | 2 man/librdf_digest_to_string.Rd | 2 man/librdf_digest_update.Rd | 2 man/librdf_digest_update_string.Rd | 2 man/librdf_free_digest.Rd | 2 man/librdf_free_hash.Rd | 2 man/librdf_free_iterator.Rd | 2 man/librdf_free_model.Rd | 2 man/librdf_free_node.Rd | 2 man/librdf_free_parser.Rd | 2 man/librdf_free_query.Rd | 2 man/librdf_free_query_results.Rd | 2 man/librdf_free_serializer.Rd | 2 man/librdf_free_statement.Rd | 2 man/librdf_free_storage.Rd | 2 man/librdf_free_stream.Rd | 2 man/librdf_free_uri.Rd | 2 man/librdf_free_world.Rd | 2 man/librdf_hash_to_string.Rd | 2 man/librdf_internal_test_error.Rd | 2 man/librdf_internal_test_warning.Rd | 2 man/librdf_iterator_end.Rd | 2 man/librdf_iterator_get_context.Rd | 2 man/librdf_iterator_get_object.Rd | 2 man/librdf_iterator_next.Rd | 2 man/librdf_log_message_code.Rd | 2 man/librdf_log_message_facility.Rd | 2 man/librdf_log_message_level.Rd | 2 man/librdf_log_message_locator.Rd | 2 man/librdf_log_message_message.Rd | 2 man/librdf_model_add.Rd | 2 man/librdf_model_add_statement.Rd | 2 man/librdf_model_add_statements.Rd | 2 man/librdf_model_add_string_literal_statement.Rd | 2 man/librdf_model_add_typed_literal_statement.Rd | 2 man/librdf_model_as_stream.Rd | 2 man/librdf_model_contains_context.Rd | 2 man/librdf_model_contains_statement.Rd | 2 man/librdf_model_context_add_statement.Rd | 2 man/librdf_model_context_add_statements.Rd | 2 man/librdf_model_context_as_stream.Rd | 2 man/librdf_model_context_remove_statement.Rd | 2 man/librdf_model_context_remove_statements.Rd | 2 man/librdf_model_find_statements.Rd | 2 man/librdf_model_find_statements_in_context.Rd | 2 man/librdf_model_get_arc.Rd | 2 man/librdf_model_get_arcs.Rd | 2 man/librdf_model_get_arcs_in.Rd | 2 man/librdf_model_get_arcs_out.Rd | 2 man/librdf_model_get_contexts.Rd | 2 man/librdf_model_get_feature.Rd | 2 man/librdf_model_get_source.Rd | 2 man/librdf_model_get_sources.Rd | 2 man/librdf_model_get_target.Rd | 2 man/librdf_model_get_targets.Rd | 2 man/librdf_model_has_arc_in.Rd | 2 man/librdf_model_has_arc_out.Rd | 2 man/librdf_model_load.Rd | 2 man/librdf_model_query_execute.Rd | 2 man/librdf_model_remove_statement.Rd | 2 man/librdf_model_set_feature.Rd | 2 man/librdf_model_size.Rd | 2 man/librdf_model_sync.Rd | 2 man/librdf_model_to_string.Rd | 2 man/librdf_model_transaction_commit.Rd | 2 man/librdf_model_transaction_rollback.Rd | 2 man/librdf_model_transaction_start.Rd | 2 man/librdf_new_digest.Rd | 2 man/librdf_new_hash.Rd | 2 man/librdf_new_hash_from_array_of_strings.Rd | 2 man/librdf_new_hash_from_string.Rd | 2 man/librdf_new_model.Rd | 2 man/librdf_new_model_from_model.Rd | 2 man/librdf_new_model_with_options.Rd | 2 man/librdf_new_node.Rd | 2 man/librdf_new_node_from_blank_identifier.Rd | 2 man/librdf_new_node_from_literal.Rd | 2 man/librdf_new_node_from_node.Rd | 2 man/librdf_new_node_from_normalised_uri_string.Rd | 2 man/librdf_new_node_from_typed_literal.Rd | 2 man/librdf_new_node_from_uri.Rd | 2 man/librdf_new_node_from_uri_local_name.Rd | 2 man/librdf_new_node_from_uri_string.Rd | 2 man/librdf_new_parser.Rd | 2 man/librdf_new_query.Rd | 2 man/librdf_new_query_from_query.Rd | 2 man/librdf_new_serializer.Rd | 2 man/librdf_new_statement.Rd | 2 man/librdf_new_statement_from_nodes.Rd | 2 man/librdf_new_statement_from_statement.Rd | 2 man/librdf_new_storage.Rd | 2 man/librdf_new_storage_from_storage.Rd | 2 man/librdf_new_uri.Rd | 2 man/librdf_new_uri_from_filename.Rd | 2 man/librdf_new_uri_from_uri.Rd | 2 man/librdf_new_world.Rd | 2 man/librdf_node_equals.Rd | 2 man/librdf_node_get_blank_identifier.Rd | 2 man/librdf_node_get_li_ordinal.Rd | 2 man/librdf_node_get_literal_value.Rd | 2 man/librdf_node_get_literal_value_as_latin1.Rd | 2 man/librdf_node_get_literal_value_datatype_uri.Rd | 2 man/librdf_node_get_literal_value_is_wf_xml.Rd | 2 man/librdf_node_get_literal_value_language.Rd | 2 man/librdf_node_get_type.Rd | 2 man/librdf_node_get_uri.Rd | 2 man/librdf_node_is_blank.Rd | 2 man/librdf_node_is_literal.Rd | 2 man/librdf_node_is_resource.Rd | 2 man/librdf_parser_check_name.Rd | 2 man/librdf_parser_get_accept_header.Rd | 2 man/librdf_parser_get_feature.Rd | 2 man/librdf_parser_get_namespaces_seen_count.Rd | 2 man/librdf_parser_get_namespaces_seen_prefix.Rd | 2 man/librdf_parser_get_namespaces_seen_uri.Rd | 2 man/librdf_parser_guess_name2.Rd | 2 man/librdf_parser_parse_as_stream.Rd | 2 man/librdf_parser_parse_counted_string_as_stream.Rd | 2 man/librdf_parser_parse_counted_string_into_model.Rd | 2 man/librdf_parser_parse_into_model.Rd | 2 man/librdf_parser_parse_string_as_stream.Rd | 2 man/librdf_parser_parse_string_into_model.Rd | 2 man/librdf_parser_set_feature.Rd | 2 man/librdf_query_execute.Rd | 2 man/librdf_query_get_limit.Rd | 2 man/librdf_query_get_offset.Rd | 2 man/librdf_query_results_as_stream.Rd | 2 man/librdf_query_results_finished.Rd | 2 man/librdf_query_results_get_binding_name.Rd | 2 man/librdf_query_results_get_binding_value.Rd | 2 man/librdf_query_results_get_binding_value_by_name.Rd | 2 man/librdf_query_results_get_bindings_count.Rd | 2 man/librdf_query_results_get_boolean.Rd | 2 man/librdf_query_results_get_count.Rd | 2 man/librdf_query_results_is_bindings.Rd | 2 man/librdf_query_results_is_boolean.Rd | 2 man/librdf_query_results_is_graph.Rd | 2 man/librdf_query_results_is_syntax.Rd | 2 man/librdf_query_results_next.Rd | 2 man/librdf_query_results_to_file2.Rd | 2 man/librdf_query_results_to_string2.Rd | 2 man/librdf_query_set_limit.Rd | 2 man/librdf_query_set_offset.Rd | 2 man/librdf_serializer_check_name.Rd | 2 man/librdf_serializer_get_feature.Rd | 2 man/librdf_serializer_serialize_model_to_file.Rd | 2 man/librdf_serializer_serialize_model_to_string.Rd | 2 man/librdf_serializer_serialize_stream_to_file.Rd | 2 man/librdf_serializer_serialize_stream_to_string.Rd | 2 man/librdf_serializer_set_feature.Rd | 2 man/librdf_serializer_set_namespace.Rd | 2 man/librdf_short_copyright_string.Rd | 2 man/librdf_short_copyright_string_get.Rd | 2 man/librdf_statement_equals.Rd | 2 man/librdf_statement_get_object.Rd | 2 man/librdf_statement_get_predicate.Rd | 2 man/librdf_statement_get_subject.Rd | 2 man/librdf_statement_is_complete.Rd | 2 man/librdf_statement_match.Rd | 2 man/librdf_statement_set_object.Rd | 2 man/librdf_statement_set_predicate.Rd | 2 man/librdf_statement_set_subject.Rd | 2 man/librdf_stream_end.Rd | 2 man/librdf_stream_get_object.Rd | 2 man/librdf_stream_next.Rd | 2 man/librdf_uri_compare.Rd | 2 man/librdf_uri_equals.Rd | 2 man/librdf_uri_to_string.Rd | 2 man/librdf_version_decimal.Rd | 2 man/librdf_version_decimal_get.Rd | 2 man/librdf_version_major.Rd | 2 man/librdf_version_major_get.Rd | 2 man/librdf_version_minor.Rd | 2 man/librdf_version_minor_get.Rd | 2 man/librdf_version_release.Rd | 2 man/librdf_version_release_get.Rd | 2 man/librdf_version_string.Rd | 2 man/librdf_version_string_get.Rd | 2 man/librdf_world_get_feature.Rd | 2 man/librdf_world_open.Rd | 2 man/librdf_world_set_feature.Rd | 2 man/librdf_world_set_logger.Rd | 2 man/raptor_locator_byte.Rd | 2 man/raptor_locator_column.Rd | 2 man/raptor_locator_file.Rd | 2 man/raptor_locator_line.Rd | 2 man/raptor_locator_uri.Rd | 2 man/raptor_version_decimal.Rd | 2 man/raptor_version_decimal_get.Rd | 2 man/raptor_version_major.Rd | 2 man/raptor_version_major_get.Rd | 2 man/raptor_version_minor.Rd | 2 man/raptor_version_minor_get.Rd | 2 man/raptor_version_release.Rd | 2 man/raptor_version_release_get.Rd | 2 man/raptor_version_string.Rd | 2 man/raptor_version_string_get.Rd | 2 man/rasqal_version_decimal.Rd | 2 man/rasqal_version_decimal_get.Rd | 2 man/rasqal_version_major.Rd | 2 man/rasqal_version_major_get.Rd | 2 man/rasqal_version_minor.Rd | 2 man/rasqal_version_minor_get.Rd | 2 man/rasqal_version_release.Rd | 2 man/rasqal_version_release_get.Rd | 2 man/rasqal_version_string.Rd | 2 man/rasqal_version_string_get.Rd | 2 man/redland.Rd | 8 src/Makevars.ucrt |only src/Makevars.win | 4 tools/Makefile |only tools/NEWS |only tools/README |only tools/aclocal.m4 |only tools/config.log |only tools/config.status |only 231 files changed, 512 insertions(+), 745 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Armadillo requires a C++11 compiler.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates, Binxiang Ni, and Conrad Sanderson
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.10.7.3.0 dated 2021-11-05 and 0.10.7.5.0 dated 2021-12-17
ChangeLog | 69 ++++++++++++++++++++++++ DESCRIPTION | 8 +- MD5 | 60 +++++++++++--------- README.md | 1 build/partial.rdb |binary configure | 18 +++--- configure.ac | 2 inst/NEWS.Rd | 27 +++++++++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/RcppArmadilloAs.h | 22 +++++-- inst/include/RcppArmadilloConfig.h | 4 + inst/include/RcppArmadilloWrap.h | 11 +++ inst/include/armadillo_bits/GlueCube_bones.hpp | 4 - inst/include/armadillo_bits/Glue_bones.hpp | 6 +- inst/include/armadillo_bits/arma_version.hpp | 2 inst/include/armadillo_bits/diagmat_proxy.hpp | 2 inst/include/armadillo_bits/diskio_meat.hpp | 15 ++++- inst/include/armadillo_bits/fn_as_scalar.hpp | 21 ++----- inst/include/armadillo_bits/fn_stddev.hpp | 2 inst/include/armadillo_bits/fn_var.hpp | 2 inst/include/armadillo_bits/op_expmat_meat.hpp | 2 inst/include/armadillo_bits/op_logmat_meat.hpp | 4 + inst/include/armadillo_bits/op_pinv_meat.hpp | 39 ------------- inst/include/armadillo_bits/op_powmat_meat.hpp | 4 + inst/include/armadillo_bits/op_sqrtmat_meat.hpp | 4 + inst/include/armadillo_bits/trimat_helper.hpp | 18 ++---- inst/tinytest/cpp/fields.cpp |only inst/tinytest/cpp/fields_new.cpp |only inst/tinytest/test_fields.R |only inst/tinytest/test_fields_new.R |only inst/tinytest/test_rcpparmadillo.R | 1 src/RcppExports.cpp | 5 + 33 files changed, 230 insertions(+), 123 deletions(-)
Title: Nonnegative Integer Solutions of Linear Diophantine Equations
with Applications
Description: Routines for enumerating all existing nonnegative integer solutions of a linear Diophantine equation. The package provides routines for solving 0-1, bounded and unbounded knapsack problems; 0-1, bounded and unbounded subset sum problems; additive partitioning of natural numbers; and one-dimensional bin-packing problem.
Author: Natalya Pya Arnqvist[aut, cre],
Vassilly Voinov [aut],
Rashid Makarov [aut],
Yevgeniy Voinov [aut]
Maintainer: Natalya Pya Arnqvist <nat.pya@gmail.com>
Diff between nilde versions 1.1-4 dated 2021-02-26 and 1.1-6 dated 2021-12-17
ChangeLog | 8 ++++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/tsp_solving.r | 19 ++++++++++++++----- build/partial.rdb |binary man/tsp_solver.Rd | 5 +++-- 6 files changed, 34 insertions(+), 16 deletions(-)
Title: R Interface for the 'H2O' Scalable Machine Learning Platform
Description: R interface for 'H2O', the scalable open source machine learning
platform that offers parallelized implementations of many supervised and
unsupervised machine learning algorithms such as Generalized Linear
Models (GLM), Gradient Boosting Machines (including XGBoost), Random Forests,
Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes,
Generalized Additive Models (GAM), ANOVA GLM, Cox Proportional Hazards, K-Means, PCA, Maximum R GLM (maxrglm),
Word2Vec, as well as a fully automatic machine learning algorithm (H2O AutoML).
Author: Erin LeDell [aut, cre],
Navdeep Gill [aut],
Spencer Aiello [aut],
Anqi Fu [aut],
Arno Candel [aut],
Cliff Click [aut],
Tom Kraljevic [aut],
Tomas Nykodym [aut],
Patrick Aboyoun [aut],
Michal Kurka [aut],
Michal Malohlava [aut],
Ludi Rehak [ctb],
Eric Eckstrand [ctb],
Brandon Hill [ctb],
Sebastian Vidrio [ctb],
Surekha Jadhawani [ctb],
Amy Wang [ctb],
Raymond Peck [ctb],
Wendy Wong [ctb],
Jan Gorecki [ctb],
Matt Dowle [ctb],
Yuan Tang [ctb],
Lauren DiPerna [ctb],
Tomas Fryda [ctb],
H2O.ai [cph, fnd]
Maintainer: Erin LeDell <erin@h2o.ai>
Diff between h2o versions 3.34.0.3 dated 2021-10-09 and 3.34.0.6 dated 2021-12-17
h2o-3.34.0.3/h2o/man/h2o.result.Rd |only h2o-3.34.0.6/h2o/DESCRIPTION | 8 +- h2o-3.34.0.6/h2o/MD5 | 49 +++++++------- h2o-3.34.0.6/h2o/NAMESPACE | 3 h2o-3.34.0.6/h2o/R/anovaglm.R | 10 -- h2o-3.34.0.6/h2o/R/automl.R | 89 ++++++++++++++----------- h2o-3.34.0.6/h2o/R/communication.R | 103 +++++++++++++++++++----------- h2o-3.34.0.6/h2o/R/connection.R | 2 h2o-3.34.0.6/h2o/R/frame.R | 8 +- h2o-3.34.0.6/h2o/R/generic.R | 14 ++-- h2o-3.34.0.6/h2o/R/maxrglm.R | 3 h2o-3.34.0.6/h2o/R/models.R | 90 ++++++++++++++++++++++---- h2o-3.34.0.6/h2o/R/rulefit.R | 62 +++++++++++++++++- h2o-3.34.0.6/h2o/inst/buildnum.txt | 2 h2o-3.34.0.6/h2o/inst/java |only h2o-3.34.0.6/h2o/man/as.numeric.Rd | 3 h2o-3.34.0.6/h2o/man/h2o-package.Rd | 4 - h2o-3.34.0.6/h2o/man/h2o.api.Rd |only h2o-3.34.0.6/h2o/man/h2o.asnumeric.Rd | 4 - h2o-3.34.0.6/h2o/man/h2o.automl.Rd | 69 ++++++++++++-------- h2o-3.34.0.6/h2o/man/h2o.coef.Rd | 5 + h2o-3.34.0.6/h2o/man/h2o.coef_norm.Rd | 7 +- h2o-3.34.0.6/h2o/man/h2o.generic.Rd | 2 h2o-3.34.0.6/h2o/man/h2o.genericModel.Rd | 4 - h2o-3.34.0.6/h2o/man/h2o.import_mojo.Rd | 4 - h2o-3.34.0.6/h2o/man/h2o.predict_rules.Rd |only h2o-3.34.0.6/h2o/man/h2o.rulefit.Rd | 11 ++- h2o-3.34.0.6/h2o/man/h2o.upload_mojo.Rd | 4 - 28 files changed, 386 insertions(+), 174 deletions(-)
Title: Testing DBI Backends
Description: A helper that tests DBI back ends for conformity
to the interface.
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
RStudio [cph],
R Consortium [fnd]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between DBItest versions 1.7.1 dated 2021-07-31 and 1.7.2 dated 2021-12-17
.aspell |only DESCRIPTION | 18 - MD5 | 192 ++++++------ NAMESPACE | 1 NEWS.md | 33 ++ R/expectations.R | 36 +- R/import-testthat.R | 1 R/run.R | 14 R/s4.R | 3 R/spec-compliance-methods.R | 3 R/spec-connection-disconnect.R | 6 R/spec-connection-get-info.R | 3 R/spec-driver-connect.R | 3 R/spec-driver-constructor.R | 7 R/spec-driver-data-type.R | 7 R/spec-driver-get-info.R | 3 R/spec-getting-started.R | 3 R/spec-meta-bind-.R | 23 - R/spec-meta-bind-runner.R | 3 R/spec-meta-bind.R | 37 +- R/spec-meta-column-info.R | 138 +++----- R/spec-meta-get-info-result.R | 9 R/spec-meta-get-row-count.R | 102 ++---- R/spec-meta-get-rows-affected.R | 50 +-- R/spec-meta-get-statement.R | 34 -- R/spec-meta-has-completed.R | 67 +--- R/spec-meta-is-valid.R | 3 R/spec-result-clear-result.R | 5 R/spec-result-create-table-with-data-type.R | 12 R/spec-result-execute.R | 24 - R/spec-result-fetch.R | 181 ++++------- R/spec-result-get-query.R | 6 R/spec-result-roundtrip.R | 3 R/spec-result-send-query.R | 12 R/spec-result-send-statement.R | 54 +-- R/spec-sql-append-table.R | 280 ++++++++++++++---- R/spec-sql-create-table.R | 88 +++-- R/spec-sql-exists-table.R | 31 +- R/spec-sql-list-fields.R | 11 R/spec-sql-list-objects.R | 24 - R/spec-sql-list-tables.R | 22 - R/spec-sql-quote-identifier.R | 8 R/spec-sql-quote-literal.R | 31 +- R/spec-sql-quote-string.R | 8 R/spec-sql-read-table.R | 106 +++--- R/spec-sql-remove-table.R | 45 +- R/spec-sql-unquote-identifier.R | 6 R/spec-sql-write-table.R | 386 +++++++++++++++++-------- R/spec-transaction-begin-commit-rollback.R | 52 ++- R/spec-transaction-with-transaction.R | 5 R/tweaks.R | 4 R/utils.R | 111 +------ README.md | 2 build/vignette.rds |binary inst/doc/DBItest.R | 4 inst/doc/DBItest.Rmd | 4 inst/doc/DBItest.html | 40 +- man/DBItest-package.Rd | 5 man/spec_compliance_methods.Rd | 2 man/spec_connection_disconnect.Rd | 8 man/spec_driver_connect.Rd | 8 man/spec_driver_constructor.Rd | 8 man/spec_driver_data_type.Rd | 16 - man/spec_get_info.Rd | 22 + man/spec_getting_started.Rd | 2 man/spec_meta_bind.Rd | 67 ++-- man/spec_meta_column_info.Rd | 25 + man/spec_meta_get_row_count.Rd | 20 + man/spec_meta_get_rows_affected.Rd | 20 + man/spec_meta_get_statement.Rd | 20 + man/spec_meta_has_completed.Rd | 22 + man/spec_meta_is_valid.Rd | 12 man/spec_result_clear_result.Rd | 20 + man/spec_result_create_table_with_data_type.Rd | 12 man/spec_result_execute.Rd | 22 + man/spec_result_fetch.Rd | 22 + man/spec_result_get_query.Rd | 22 + man/spec_result_roundtrip.Rd | 12 man/spec_result_send_query.Rd | 24 + man/spec_result_send_statement.Rd | 24 + man/spec_sql_append_table.Rd | 64 +++- man/spec_sql_create_table.Rd | 30 + man/spec_sql_exists_table.Rd | 26 + man/spec_sql_list_fields.Rd | 27 + man/spec_sql_list_objects.Rd | 25 + man/spec_sql_list_tables.Rd | 25 + man/spec_sql_quote_identifier.Rd | 27 + man/spec_sql_quote_literal.Rd | 31 +- man/spec_sql_quote_string.Rd | 21 + man/spec_sql_read_table.Rd | 46 ++ man/spec_sql_remove_table.Rd | 27 + man/spec_sql_unquote_identifier.Rd | 27 + man/spec_sql_write_table.Rd | 46 ++ man/spec_transaction_begin_commit_rollback.Rd | 16 - man/spec_transaction_with_transaction.Rd | 16 - man/test_data_type.Rd | 8 man/tweaks.Rd | 6 vignettes/DBItest.Rmd | 4 98 files changed, 2089 insertions(+), 1162 deletions(-)
Title: Prediction and Clustering on the Torus by Conformal Prediction
Description: Provides various tools of for clustering multivariate angular
data on the torus. The package provides angular
adaptations of usual clustering methods such as the k-means
clustering, pairwise angular distances, which can be used as an
input for distance-based clustering algorithms, and implements
clustering based on the conformal prediction framework. Options
for the conformal scores include scores based on a kernel density
estimate, multivariate von Mises mixtures, and naive k-means clusters.
Moreover, the package provides some basic data handling tools for
angular data.
Author: Sungkyu Jung [aut, cph],
Seungki Hong [aut, cre],
Kiho Park [ctb],
Byungwon Kim [ctb]
Maintainer: Seungki Hong <skgaboja@snu.ac.kr>
Diff between ClusTorus versions 0.2.0 dated 2021-12-16 and 0.2.1 dated 2021-12-17
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/methods.R | 4 ++-- build/partial.rdb |binary inst/doc/ClusTorus.html | 2 +- 5 files changed, 10 insertions(+), 10 deletions(-)
Title: Tidy Verbs for Fast Data Manipulation
Description: A toolkit of tidy data manipulation verbs with 'data.table' as the backend.
Combining the merits of syntax elegance from 'dplyr' and computing performance from 'data.table',
'tidyfst' intends to provide users with state-of-the-art data manipulation tools with least pain.
This package is an extension of 'data.table'. While enjoying a tidy syntax,
it also wraps combinations of efficient functions to facilitate frequently-used data operations.
Author: Tian-Yuan Huang [aut, cre] (<https://orcid.org/0000-0002-3591-4203>)
Maintainer: Tian-Yuan Huang <huang.tian-yuan@qq.com>
Diff between tidyfst versions 1.0.0 dated 2021-09-08 and 1.5.0 dated 2021-12-17
DESCRIPTION | 6 MD5 | 52 +++--- NAMESPACE | 5 R/add_prop.R |only R/col_max.R | 2 R/complete.R | 4 R/mutate_dt.R | 16 + R/mutate_when.R | 4 R/on_attach.R | 2 R/pairwise.R |only R/pull_dt.R | 6 R/separate.R | 32 --- R/slice.R | 3 R/sql_join.R |only R/summarise_dt.R | 4 R/tidymat.R | 5 R/topn_dt.R | 6 R/uncount.R | 4 build/vignette.rds |binary inst/doc/benchmark.html | 53 +++--- inst/doc/chinese_tutorial.html | 333 +++++++++++------------------------------ inst/doc/example1_intro.html | 2 inst/doc/example2_join.html | 214 +++++++------------------- inst/doc/example3_reshape.html | 140 +++++------------ man/add_prop.Rd |only man/col_max.Rd | 2 man/pairwise.Rd |only man/reexports.Rd | 3 man/separate_dt.Rd | 2 man/sql_join.Rd |only 30 files changed, 309 insertions(+), 591 deletions(-)
Title: Accesses Weather Data from the Iowa Environment Mesonet
Description: Allows to get weather data from Automated Surface Observing System (ASOS) stations (airports) in the
whole world thanks to the Iowa Environment Mesonet website.
Author: Maëlle Salmon [aut, cre] (<https://orcid.org/0000-0002-2815-0399>),
Brooke Anderson [rev] (Brooke Anderson reviewed the package for
rOpenSci, see https://github.com/ropensci/onboarding/issues/39.),
CHAI Project [fnd] (The research leading to these results has received
funding from the European Research Council under the ERC Grant
Agreement number 336167– the CHAI Project),
rOpenSci [fnd] (https://ropensci.org/),
Daryl Herzmann [ctb]
Maintainer: Maëlle Salmon <maelle.salmon@yahoo.se>
Diff between riem versions 0.1.1 dated 2016-09-09 and 0.2.0 dated 2021-12-17
riem-0.1.1/riem/build |only riem-0.1.1/riem/inst |only riem-0.1.1/riem/vignettes |only riem-0.2.0/riem/DESCRIPTION | 41 ++-- riem-0.2.0/riem/MD5 | 37 ++-- riem-0.2.0/riem/NAMESPACE | 12 - riem-0.2.0/riem/NEWS.md | 28 +-- riem-0.2.0/riem/R/measures.R | 230 +++++++++++++------------ riem-0.2.0/riem/R/networks.R | 46 ++--- riem-0.2.0/riem/R/stations.R | 77 ++++---- riem-0.2.0/riem/man/riem_measures.Rd | 124 +++++++------ riem-0.2.0/riem/man/riem_networks.Rd | 39 ++-- riem-0.2.0/riem/man/riem_stations.Rd | 51 ++--- riem-0.2.0/riem/tests/fixtures |only riem-0.2.0/riem/tests/testthat.R | 8 riem-0.2.0/riem/tests/testthat/helper-riem.R |only riem-0.2.0/riem/tests/testthat/test-measures.R | 108 +++++------ riem-0.2.0/riem/tests/testthat/test-networks.R | 19 +- riem-0.2.0/riem/tests/testthat/test-stations.R | 39 ++-- 19 files changed, 460 insertions(+), 399 deletions(-)
Title: Fatty Acid Metabolic Analysis
Description: Fatty acid metabolic analysis aimed to the estimation of FA import (I), de novo synthesis (S), fractional contribution of the 13C-tracers (D0, D1, D2), elongation (E) and desaturation (Des) based on mass isotopologue data.
Author: Maribel Alcoriza-Balaguer [aut, cre],
Juan Carlos Garcia-Cañaveras [ctb],
Agustin Lahoz [ths]
Maintainer: Maribel Alcoriza-Balaguer <maribel_alcoriza@iislafe.es>
Diff between FAMetA versions 0.1.0 dated 2021-11-23 and 0.1.1 dated 2021-12-17
DESCRIPTION | 26 ++++---- MD5 | 40 ++++++------- NAMESPACE | 2 R/FAMetA.R | 2 R/internal.R | 47 +++++++--------- R/metabolicanalysis.R | 129 ++++++++++++++++++++++---------------------- R/processing.R | 42 +++++--------- data/desaturationsdb.rda |binary data/ssexamplefadata.rda |binary man/annotateFA.Rd | 1 man/curateFAannotations.Rd | 5 - man/dataCorrection.Rd | 8 +- man/desaturationAnalysis.Rd | 10 +-- man/desaturationsdb.Rd | 2 man/elongationAnalysis.Rd | 8 +- man/plotFA.Rd | 1 man/runSynthesisAnalysis.Rd | 27 ++++----- man/searchFAisotopes.Rd | 2 man/ssexamplefadata.Rd | 4 - man/summarizeResults.Rd | 12 ++-- man/synthesisAnalysis.Rd | 10 +-- 21 files changed, 182 insertions(+), 196 deletions(-)
Title: Regression Models and Utilities for Repeated Measures and Panel
Data
Description: Provides an object type and associated tools for storing and
wrangling panel data. Implements several methods for creating regression
models that take advantage of the unique aspects of
panel data. Among other capabilities, automates the "within-between"
(also known as "between-within" and "hybrid") panel regression specification
that combines the desirable aspects of both fixed effects and random effects
econometric models and fits them as multilevel models
(Allison, 2009 <doi:10.4135/9781412993869.d33>;
Bell & Jones, 2015 <doi:10.1017/psrm.2014.7>). These models can also be
estimated via generalized estimating equations
(GEE; McNeish, 2019 <doi:10.1080/00273171.2019.1602504>) and Bayesian
estimation is (optionally) supported via 'Stan'.
Supports estimation of asymmetric effects models via first differences
(Allison, 2019 <doi:10.1177/2378023119826441>) as well as a generalized
linear model extension thereof using GEE.
Author: Jacob A. Long [aut, cre] (<https://orcid.org/0000-0002-1582-6214>)
Maintainer: Jacob A. Long <jacob.long@sc.edu>
Diff between panelr versions 0.7.5 dated 2021-01-18 and 0.7.6 dated 2021-12-17
DESCRIPTION | 6 MD5 | 14 NEWS.md | 5 R/asym.R | 548 ++++++++++++------------- R/diffs.R | 1070 +++++++++++++++++++++++++------------------------- build/vignette.rds |binary inst/doc/reshape.html | 16 inst/doc/wbm.html | 76 +-- 8 files changed, 859 insertions(+), 876 deletions(-)
Title: Bayesian Inference for Multivariate Stochastic Differential
Equations
Description: Implements an MCMC sampler for the posterior distribution of arbitrary time-homogeneous multivariate stochastic differential equation (SDE) models with possibly latent components. The package provides a simple entry point to integrate user-defined models directly with the sampler's C++ code, and parallelizes large portions of the calculations when compiled with 'OpenMP'.
Author: Martin Lysy [aut, cre],
Feiyu Zhu [aut],
JunYong Tong [aut],
Trevor Kitt [ctb],
Nigel Delaney [ctb]
Maintainer: Martin Lysy <mlysy@uwaterloo.ca>
Diff between msde versions 1.0.4 dated 2019-01-15 and 1.0.5 dated 2021-12-17
msde-1.0.4/msde/R/RcppExports.R |only msde-1.0.4/msde/R/sde.is.valid.R |only msde-1.0.4/msde/inst/include/R |only msde-1.0.4/msde/inst/include/sdeInterface.h |only msde-1.0.4/msde/man/msde.Rd |only msde-1.0.4/msde/src/sdeExports.cpp |only msde-1.0.5/msde/DESCRIPTION | 19 msde-1.0.5/msde/MD5 | 122 +- msde-1.0.5/msde/NAMESPACE | 4 msde-1.0.5/msde/R/chrono.R | 5 msde-1.0.5/msde/R/mou.loglik.R | 85 - msde-1.0.5/msde/R/msde-package.R | 56 - msde-1.0.5/msde/R/mvn.hyper.check.R | 14 msde-1.0.5/msde/R/sde.diff.R | 33 msde-1.0.5/msde/R/sde.drift.R | 32 msde-1.0.5/msde/R/sde.examples.R | 46 msde-1.0.5/msde/R/sde.init.R | 51 - msde-1.0.5/msde/R/sde.loglik.R | 49 - msde-1.0.5/msde/R/sde.make.model.R | 189 +++- msde-1.0.5/msde/R/sde.post.R | 129 +- msde-1.0.5/msde/R/sde.prior.R | 45 msde-1.0.5/msde/R/sde.sim.R | 65 - msde-1.0.5/msde/R/sde.valid.R |only msde-1.0.5/msde/R/zzz.R | 6 msde-1.0.5/msde/build/vignette.rds |binary msde-1.0.5/msde/inst/doc/msde-exmodels.Rmd | 4 msde-1.0.5/msde/inst/doc/msde-exmodels.html | 60 - msde-1.0.5/msde/inst/doc/msde-quicktut.R | 32 msde-1.0.5/msde/inst/doc/msde-quicktut.Rmd | 181 ++- msde-1.0.5/msde/inst/doc/msde-quicktut.html | 1020 +++++++++++----------- msde-1.0.5/msde/inst/include/LinAlgUtils.h | 32 msde-1.0.5/msde/inst/include/MissGibbsUpdate.h | 20 msde-1.0.5/msde/inst/include/ParamVanillaUpdate.h | 7 msde-1.0.5/msde/inst/include/biouModel.h | 54 - msde-1.0.5/msde/inst/include/eouModel.h | 53 - msde-1.0.5/msde/inst/include/hestModel.h | 53 - msde-1.0.5/msde/inst/include/lotvolModel.h | 59 - msde-1.0.5/msde/inst/include/mcmcUtils.h | 122 +- msde-1.0.5/msde/inst/include/mvnPrior.h | 27 msde-1.0.5/msde/inst/include/mvnUtils.h | 121 ++ msde-1.0.5/msde/inst/include/pgnetModel.h | 47 - msde-1.0.5/msde/inst/include/rngUtils.h | 20 msde-1.0.5/msde/inst/include/sdeData.h | 75 - msde-1.0.5/msde/inst/include/sdeLogLik.h | 108 -- msde-1.0.5/msde/inst/include/sdeMCMC.h | 43 msde-1.0.5/msde/inst/include/sdePost.h | 53 - msde-1.0.5/msde/inst/include/sdeRUtils.h | 40 msde-1.0.5/msde/inst/include/sdeRobj.h |only msde-1.0.5/msde/inst/include/sdeSim.h | 23 msde-1.0.5/msde/inst/include/sdeUtils.h | 51 - msde-1.0.5/msde/inst/include/templates |only msde-1.0.5/msde/man/mou.loglik.Rd | 10 msde-1.0.5/msde/man/msde-package.Rd |only msde-1.0.5/msde/man/mvn.hyper.check.Rd | 10 msde-1.0.5/msde/man/sde.diff.Rd | 6 msde-1.0.5/msde/man/sde.examples.Rd | 12 msde-1.0.5/msde/man/sde.init.Rd | 12 msde-1.0.5/msde/man/sde.make.model.Rd | 31 msde-1.0.5/msde/man/sde.post.Rd | 51 - msde-1.0.5/msde/man/sde.prior.Rd | 5 msde-1.0.5/msde/man/sde.sim.Rd | 26 msde-1.0.5/msde/man/sde.valid.Rd | 2 msde-1.0.5/msde/src/RcppExports.cpp | 256 ----- msde-1.0.5/msde/src/exampleExports.cpp | 176 ++- msde-1.0.5/msde/vignettes/msde-exmodels.Rmd | 4 msde-1.0.5/msde/vignettes/msde-quicktut.Rmd | 181 ++- 66 files changed, 2148 insertions(+), 1889 deletions(-)
Title: Intrinsic Peak Analysis (IPA) for HRMS Data
Description: A sophisticated pipeline for processing
high-resolution LC/MS data to extract signals of organic compounds. The
package performs isotope pairing, peak detection, alignment, RT correction,
gap filling, peak annotation and visualization of extracted ion chromatograms and total ion chromatograms.
Author: Sadjad Fakouri-Baygi [cre, aut]
(<https://orcid.org/0000-0002-6864-6911>),
Dinesh Barupal [aut] (<https://orcid.org/0000-0002-9954-8628>)
Maintainer: Sadjad Fakouri-Baygi <sadjad.fakouri-baygi@mssm.edu>
Diff between IDSL.IPA versions 1.2 dated 2021-06-30 and 1.3 dated 2021-12-17
IDSL.IPA-1.2/IDSL.IPA/R/loadRData.R |only IDSL.IPA-1.2/IDSL.IPA/man/loadRData.Rd |only IDSL.IPA-1.3/IDSL.IPA/DESCRIPTION | 8 IDSL.IPA-1.3/IDSL.IPA/MD5 | 51 - IDSL.IPA-1.3/IDSL.IPA/NAMESPACE | 4 IDSL.IPA-1.3/IDSL.IPA/R/EIC_plotter.R | 266 ++++---- IDSL.IPA-1.3/IDSL.IPA/R/IPA_CompoundsAnnotation.R | 12 IDSL.IPA-1.3/IDSL.IPA/R/IPA_GapFiller.R | 35 - IDSL.IPA-1.3/IDSL.IPA/R/IPA_PeakAlignment.R | 35 - IDSL.IPA-1.3/IDSL.IPA/R/IPA_PeakAnalyzer.R | 8 IDSL.IPA-1.3/IDSL.IPA/R/IPA_PeaklistAnnotation.R | 21 IDSL.IPA-1.3/IDSL.IPA/R/IPA_TargetedAnalysis.R | 525 ++++++++--------- IDSL.IPA-1.3/IDSL.IPA/R/IPA_Workflow.R | 37 + IDSL.IPA-1.3/IDSL.IPA/R/IPA_xlsxAnalyzer.R | 29 IDSL.IPA-1.3/IDSL.IPA/R/MS_deconvoluter.R | 3 IDSL.IPA-1.3/IDSL.IPA/R/fronting_tailing_resolver.R | 1 IDSL.IPA-1.3/IDSL.IPA/R/loadRdata.R |only IDSL.IPA-1.3/IDSL.IPA/R/peak_Xcol2.R | 6 IDSL.IPA-1.3/IDSL.IPA/R/peak_alignment.R | 158 +---- IDSL.IPA-1.3/IDSL.IPA/R/reference_peaks_detector.R | 38 - IDSL.IPA-1.3/IDSL.IPA/R/xlsxAnalyzer_EIC.R | 302 +++++---- IDSL.IPA-1.3/IDSL.IPA/build |only IDSL.IPA-1.3/IDSL.IPA/inst/extdata/IPA_parameters.xlsx |binary IDSL.IPA-1.3/IDSL.IPA/man/IPA_TargetedAnalysis.Rd | 14 IDSL.IPA-1.3/IDSL.IPA/man/MS_deconvoluter.Rd | 5 IDSL.IPA-1.3/IDSL.IPA/man/der_5points_stencil.Rd | 10 IDSL.IPA-1.3/IDSL.IPA/man/loadRdata.Rd |only IDSL.IPA-1.3/IDSL.IPA/man/peak_area.Rd | 2 IDSL.IPA-1.3/IDSL.IPA/man/snr_xcms.Rd | 3 29 files changed, 800 insertions(+), 773 deletions(-)
Title: Interpreted String Literals
Description: An implementation of interpreted string literals, inspired by
Python's Literal String Interpolation
<https://www.python.org/dev/peps/pep-0498/> and Docstrings
<https://www.python.org/dev/peps/pep-0257/> and Julia's Triple-Quoted
String Literals
<https://docs.julialang.org/en/v1.3/manual/strings/#Triple-Quoted-String-Literals-1>.
Author: Jim Hester [aut] (<https://orcid.org/0000-0002-2739-7082>),
Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>),
RStudio [cph, fnd]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between glue versions 1.5.1 dated 2021-11-30 and 1.6.0 dated 2021-12-17
glue-1.5.1/glue/vignettes/crayon.html |only glue-1.5.1/glue/vignettes/releases |only glue-1.6.0/glue/DESCRIPTION | 8 +-- glue-1.6.0/glue/MD5 | 40 ++++++++--------- glue-1.6.0/glue/NEWS.md | 10 +++- glue-1.6.0/glue/R/color.R | 59 +++++++++++++++++--------- glue-1.6.0/glue/R/glue.R | 26 +++++++---- glue-1.6.0/glue/README.md | 4 - glue-1.6.0/glue/inst/doc/transformers.R | 28 ++++++------ glue-1.6.0/glue/inst/doc/transformers.html | 4 + glue-1.6.0/glue/man/glue.Rd | 18 +++++--- glue-1.6.0/glue/man/glue_col.Rd | 63 ++++++++++++++++++++-------- glue-1.6.0/glue/man/glue_safe.Rd | 6 +- glue-1.6.0/glue/man/glue_sql.Rd | 8 +-- glue-1.6.0/glue/man/trim.Rd | 2 glue-1.6.0/glue/src/glue.c | 24 ++++++++-- glue-1.6.0/glue/src/init.c | 4 - glue-1.6.0/glue/src/trim.c | 3 - glue-1.6.0/glue/tests/testthat/_snaps |only glue-1.6.0/glue/tests/testthat/test-color.R | 61 +++++++++++++++++++++++++-- glue-1.6.0/glue/tests/testthat/test-glue.R | 16 +++++++ glue-1.6.0/glue/tests/testthat/test-trim.R | 11 ++++ 22 files changed, 280 insertions(+), 115 deletions(-)
Title: Cross-Validation for Change-Point Regression
Description: Implements the cross-validation methodology from Pein and Shah (2021) <arXiv:2112.03220>. Can be customised by providing different cross-validation criteria, estimators for the change-point locations and local parameters, and freely chosen folds. Pre-implemented estimators and criteria are available. It also includes our own implementation of the COPPS procedure <doi:10.1214/19-AOS1814>.
Author: Pein Florian [aut, cre]
Maintainer: Pein Florian <f.pein@lancaster.ac.uk>
Diff between crossvalidationCP versions 1.0-0 dated 2021-12-06 and 1.0-1 dated 2021-12-17
ChangeLog |only DESCRIPTION | 8 +-- MD5 | 25 +++++----- man/COPPS.Rd | 2 man/VfoldCV.Rd | 2 man/convertSingleParam.Rd | 2 man/criteria.Rd | 2 man/crossvalidationCP-package.Rd | 2 man/crossvalidationCP.Rd | 2 man/estimators.Rd | 2 tests/testthat/test-COPPS.R | 36 +++++++-------- tests/testthat/test-criteria.R | 16 +++--- tests/testthat/test-crossvalidationCP.R | 74 ++++++++++++++++---------------- tests/testthat/test-estimator.R | 4 - 14 files changed, 89 insertions(+), 88 deletions(-)
More information about crossvalidationCP at CRAN
Permanent link
Title: Storage Management in 'Azure'
Description: Manage storage in Microsoft's 'Azure' cloud: <https://azure.microsoft.com/en-us/product-categories/storage/>. On the admin side, 'AzureStor' includes features to create, modify and delete storage accounts. On the client side, it includes an interface to blob storage, file storage, and 'Azure Data Lake Storage Gen2': upload and download files and blobs; list containers and files/blobs; create containers; and so on. Authenticated access to storage is supported, via either a shared access key or a shared access signature (SAS). Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureStor versions 3.5.2 dated 2021-10-30 and 3.6.0 dated 2021-12-17
DESCRIPTION | 6 ++--- MD5 | 39 ++++++++++++++++++---------------- NAMESPACE | 7 ++++++ NEWS.md | 7 ++++++ R/AzureStor.R | 2 - R/add_methods.R | 8 ++---- R/adls_client_funcs.R | 15 +++++++++++++ R/blob_client_funcs.R | 31 ++++++++++++++++++++++++++- R/blob_copyurl.R | 16 ++++++++++--- R/client_generics.R | 25 +++++++++++++++++++++ R/file_client_funcs.R | 15 +++++++++++++ R/storage_utils.R | 4 +-- man/adls.Rd | 5 ++++ man/blob.Rd | 15 ++++++++++--- man/create_storage_account.Rd | 6 +---- man/file.Rd | 5 ++++ man/generics.Rd | 14 ++++++++++++ tests/testthat/test02e_blobdirexist.R |only tests/testthat/test03b_filedeldir.R | 3 +- tests/testthat/test03c_filedirexist.R |only tests/testthat/test04c_adlsdirexist.R |only tests/testthat/test05_generics.R | 16 +++++++++++++ 22 files changed, 197 insertions(+), 42 deletions(-)
Title: Evaluation of Algorithm Collections Using Item Response Theory
Description: An evaluation framework for algorithm portfolios using Item Response
Theory (IRT). We use continuous and polytomous IRT models to evaluate algorithms and introduce
algorithm characteristics such as stability, effectiveness and anomalousness
(Kandanaarachchi, Smith-Miles 2020) <doi:10.13140/RG.2.2.11363.09760>.
Author: Sevvandi Kandanaarachchi [aut, cre]
(<https://orcid.org/0000-0002-0337-0395>)
Maintainer: Sevvandi Kandanaarachchi <sevvandik@gmail.com>
Diff between airt versions 0.2.0 dated 2020-11-23 and 0.2.1 dated 2021-12-17
DESCRIPTION | 10 - MD5 | 37 ++--- NAMESPACE | 13 + R/classification_cts-data.R | 2 R/classification_poly-data.R | 2 R/latent_trait.R | 82 ++++++++--- R/latent_trait_bak.R |only R/utils.R | 2 README.md | 91 +++++++----- build/vignette.rds |binary inst/doc/airt.R | 74 ++++++---- inst/doc/airt.Rmd | 48 +++++- inst/doc/airt.html | 270 ++++++++++++++++++++++--------------- man/classification_cts.Rd | 2 man/classification_poly.Rd | 2 man/figures/README-ctsirtfit-1.png |binary man/figures/README-latent4-1.png |binary man/figures/README-latent4-2.png |only man/figures/README-latent4-3.png |only man/latent_trait_analysis.Rd | 8 - vignettes/airt.Rmd | 48 +++++- 21 files changed, 459 insertions(+), 232 deletions(-)