Title: Dynamic Survey Sampling Solutions
Description: A robust solution employing both systematic and PPS
(Probability Proportional to Size) sampling methods, ensuring a
methodical and representative selection of data. Seamlessly allocate
predetermined allocations to smaller levels. Kish, L. (1965)
<https://books.google.co.id/books?id=xiZmAAAAIAAJ>.
Author: Choerul Afifanto [aut, cre, cph]
Maintainer: Choerul Afifanto <choerulafifanto@gmail.com>
Diff between samplingin versions 1.0.6 dated 2024-02-22 and 1.0.7 dated 2024-03-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 10 ++++++++++ R/samplingin.R | 28 ++++++++++++++++++---------- 4 files changed, 34 insertions(+), 16 deletions(-)
Title: Visualizations of Paired Comparisons
Description: Convert a logical vector or a vector of
p-values or a correlation, difference, or distance
matrix into a display identifying the pairs for
which the differences were not significantly
different. Designed for use in conjunction with
the output of functions like TukeyHSD, dist{stats},
simint, simtest, csimint, csimtest{multcomp},
friedmanmc, kruskalmc{pgirmess}.
Author: Spencer Graves, Hans-Peter Piepho and Luciano Selzer with
help from Sundar Dorai-Raj
Maintainer: Luciano Selzer <luciano.selzer@gmail.com>
Diff between multcompView versions 0.1-9 dated 2023-04-09 and 0.1-10 dated 2024-03-07
DESCRIPTION | 8 +++---- MD5 | 50 ++++++++++++++++++++++---------------------- R/extract_p.R | 2 - R/multcompBoxplot.R | 2 - R/multcompLetters.R | 12 +++++----- R/multcompTs.R | 8 +++---- R/multcompView-package.R | 2 - R/plot.multcompLetters.R | 4 +-- R/plot.multcompTs.R | 4 +-- R/plotBoxes.R | 12 ---------- R/plotLetters.R | 11 --------- R/plotTs.R | 9 ------- R/vec2mat.R | 3 -- R/vec2mat2.R | 2 - man/extract_p.Rd | 2 - man/multcompBoxplot.Rd | 2 - man/multcompLetters.Rd | 12 +++++----- man/multcompTs.Rd | 8 +++---- man/multcompView-package.Rd | 2 - man/plot.multcompLetters.Rd | 4 +-- man/plot.multcompTs.Rd | 4 +-- man/plotBoxes.Rd | 17 -------------- man/plotLetters.Rd | 16 -------------- man/plotTs.Rd | 12 ---------- man/vec2mat.Rd | 3 -- man/vec2mat2.Rd | 2 - 26 files changed, 71 insertions(+), 142 deletions(-)
Title: Kalman Filter
Description: 'Rcpp' implementation of the multivariate Kalman filter for state space models that can handle missing values and exogenous data in the observation and state equations. There is also a function to handle time varying parameters.
Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" <doi:10.7551/mitpress/6444.001.0001><http://econ.korea.ac.kr/~cjkim/>.
Author: Alex Hubbard [aut, cre]
Maintainer: Alex Hubbard <hubbard.alex@gmail.com>
Diff between kalmanfilter versions 2.1.0 dated 2024-02-14 and 2.1.1 dated 2024-03-07
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/kalman_filter.R | 6 +++--- inst/doc/kalmanfilter_vignette.html | 4 ++-- 5 files changed, 19 insertions(+), 13 deletions(-)
Title: General Bivariate Copula Theory and Many Utility Functions
Description: Extensive functions for bivariate copula (bicopula) computations and related operations
for bicopula theory. The lower, upper, product, and select other bicopula are implemented along
with operations including the diagonal, survival copula, dual of a copula, co-copula, and
numerical bicopula density. Level sets, horizontal and vertical sections are supported. Numerical
derivatives and inverses of a bicopula are provided through which simulation is implemented.
Bicopula composition, convex combination, asymmetry extension, and products also are provided.
Support extends to the Kendall Function as well as the Lmoments thereof. Kendall Tau,
Spearman Rho and Footrule, Gini Gamma, Blomqvist Beta, Hoeffding Phi, Schweizer-
Wolff Sigma, tail dependency, tail order, skewness, and bivariate Lmoments are implemented, and
positive/negative quadrant dependency, left (right) increasing (decreasing) are available.
Other features include Kullback-Leibler Divergence, Vuong Procedure, spectral measure, [...truncated...]
Author: William Asquith
Maintainer: William Asquith <william.asquith@ttu.edu>
Diff between copBasic versions 2.2.3 dated 2024-01-09 and 2.2.4 dated 2024-03-07
copBasic-2.2.3/copBasic/inst/empcop_Evu.R |only copBasic-2.2.4/copBasic/DESCRIPTION | 8 ++++---- copBasic-2.2.4/copBasic/MD5 | 21 +++++++++++---------- copBasic-2.2.4/copBasic/NAMESPACE | 1 + copBasic-2.2.4/copBasic/NEWS | 9 +++++++++ copBasic-2.2.4/copBasic/R/RAYcop.R |only copBasic-2.2.4/copBasic/R/simCOP.R | 1 + copBasic-2.2.4/copBasic/inst/OtherTest.R | 1 + copBasic-2.2.4/copBasic/man/RAYcop.Rd |only copBasic-2.2.4/copBasic/man/breveCOP.Rd | 10 ++++++---- copBasic-2.2.4/copBasic/man/composite2COP.Rd | 3 ++- copBasic-2.2.4/copBasic/man/copBasic-package.Rd | 1 + copBasic-2.2.4/copBasic/man/prod2COP.Rd | 7 ++++++- 13 files changed, 42 insertions(+), 20 deletions(-)
Title: Identify Global Objects in R Expressions
Description: Identifies global ("unknown" or "free") objects in R expressions
by code inspection using various strategies (ordered, liberal, or
conservative). The objective of this package is to make it as simple as
possible to identify global objects for the purpose of exporting them in
parallel, distributed compute environments.
Author: Henrik Bengtsson [aut, cre, cph],
Davis Vaughan [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between globals versions 0.16.2 dated 2022-11-21 and 0.16.3 dated 2024-03-07
DESCRIPTION | 8 ++-- MD5 | 19 +++++----- NEWS.md | 13 +++++++ R/cleanup.R | 3 - R/globalsByName.R |only R/globalsOf.R | 91 -------------------------------------------------- man/globalsByName.Rd | 55 +++++++++++++++++++++++++++++- man/globalsOf.Rd | 2 - tests/cleanup.R | 25 +++++++++++++ tests/dotdotdot.R | 12 +++--- tests/globalsByName.R | 11 ++++++ 11 files changed, 125 insertions(+), 114 deletions(-)
Title: Analyze and Visualize FAST-Generated Data
Description: R 'shiny' app to perform data analysis and visualization for the
Fully Automated Senescence Test (FAST) workflow.
Author: Francesco Neri [aut, cre, cph]
Maintainer: Francesco Neri <f.francesconeri@gmail.com>
Diff between FAST.R versions 0.2.0 dated 2024-03-06 and 0.2.1 dated 2024-03-07
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 42 +++++++++++++++++++++++------------------- R/generate_single_cell_df.R | 4 ++-- 4 files changed, 31 insertions(+), 27 deletions(-)
Title: Extracting and Visualizing Paleobiodiversity
Description: Contains various tools for conveniently downloading and editing taxon-specific datasets from the Paleobiology Database <https://paleobiodb.org>, extracting information on abundance, temporal distribution of subtaxa and taxonomic diversity through deep time, and visualizing these data in relation to phylogeny and stratigraphy.
Author: Darius Nau [aut, cre]
Maintainer: Darius Nau <dariusnau@gmx.at>
Diff between paleoDiv versions 0.2.0 dated 2024-03-07 and 0.2.2 dated 2024-03-07
DESCRIPTION | 6 MD5 | 42 +++--- NEWS.md | 8 + R/data.R | 2 R/paleoDiv.R | 130 +++++++++--------- data/archosauria.rda |binary inst/doc/Paleobiodiversity_analysis.R | 32 +++- inst/doc/Paleobiodiversity_analysis.Rmd | 60 +++++--- inst/doc/Paleobiodiversity_analysis.html | 213 +++++++++++++++++-------------- man/ab.gg.Rd | 6 man/abdistr_.Rd | 6 man/archosauria.Rd | 2 man/convert.sptab.Rd | 2 man/div.gg.Rd | 2 man/mk.sptab.Rd | 4 man/occ.cleanup.Rd | 4 man/pdb.Rd | 13 + man/pdb.diff.Rd | 6 man/pdb.union.Rd | 5 man/redraw.phylo.Rd | 2 man/stax.sel.Rd | 8 - vignettes/Paleobiodiversity_analysis.Rmd | 60 +++++--- 22 files changed, 358 insertions(+), 255 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-08-26 0.2.1
2016-08-25 0.2
2015-12-28 0.1.1434
2015-12-07 0.1.1431
2015-11-09 0.1.1402
Title: Exploratory Web Apps for Analyzing Clinical Trials Data
Description: A 'shiny' based interactive exploration framework for
analyzing clinical trials data. 'teal' currently provides a dynamic
filtering facility and different data viewers. 'teal' 'shiny'
applications are built using standard 'shiny' modules.
Author: Dawid Kaledkowski [aut, cre] ,
Pawel Rucki [aut],
Aleksander Chlebowski [aut] ,
Andre Verissimo [aut] ,
Kartikeya Kirar [aut],
Vedha Viyash [aut],
Marcin Kosinski [aut],
Adrian Waddell [aut],
Chendi Liao [rev],
Dony Unardi [rev],
Nikolas Burkoff [aut [...truncated...]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal versions 0.15.1 dated 2024-02-22 and 0.15.2 dated 2024-03-07
teal-0.15.1/teal/man/resolve_modules_datanames.Rd |only teal-0.15.2/teal/DESCRIPTION | 8 teal-0.15.2/teal/MD5 | 49 +-- teal-0.15.2/teal/NEWS.md | 5 teal-0.15.2/teal/R/get_rcode_utils.R | 3 teal-0.15.2/teal/R/init.R | 1 teal-0.15.2/teal/R/module_teal.R | 51 --- teal-0.15.2/teal/R/modules.R | 6 teal-0.15.2/teal/R/tdata.R | 2 teal-0.15.2/teal/R/teal_reporter.R | 8 teal-0.15.2/teal/R/teal_slices.R | 2 teal-0.15.2/teal/R/utils.R | 131 ++++++---- teal-0.15.2/teal/R/validate_inputs.R | 10 teal-0.15.2/teal/R/zzz.R | 6 teal-0.15.2/teal/inst/doc/bootstrap-themes-in-teal.R | 9 teal-0.15.2/teal/inst/doc/bootstrap-themes-in-teal.Rmd | 12 teal-0.15.2/teal/inst/doc/bootstrap-themes-in-teal.html | 2 teal-0.15.2/teal/inst/doc/including-data-in-teal-applications.html | 6 teal-0.15.2/teal/man/init.Rd | 1 teal-0.15.2/teal/man/modules_datasets.Rd |only teal-0.15.2/teal/man/validate_inputs.Rd | 10 teal-0.15.2/teal/tests/testthat/setup-options.R |only teal-0.15.2/teal/tests/testthat/test-module_teal_with_splash.R | 2 teal-0.15.2/teal/tests/testthat/test-modules.R | 2 teal-0.15.2/teal/tests/testthat/test-teal_data_module-eval_code.R | 4 teal-0.15.2/teal/tests/testthat/test-utils.R | 57 ++++ teal-0.15.2/teal/vignettes/bootstrap-themes-in-teal.Rmd | 12 27 files changed, 250 insertions(+), 149 deletions(-)
Title: Simulate Data from a DAG and Associated Node Information
Description: Simulate complex data from a given directed acyclic graph and information about each individual node.
Root nodes are simply sampled from the specified distribution. Child Nodes are simulated according to
one of many implemented regressions, such as logistic regression, linear
regression, poisson regression and more. Also includes a comprehensive framework for discrete-time
simulation, which can generate even more complex longitudinal data.
Author: Robin Denz [aut, cre],
Katharina Meiszl [aut]
Maintainer: Robin Denz <robin.denz@rub.de>
Diff between simDAG versions 0.1.0 dated 2023-08-28 and 0.1.1 dated 2024-03-07
simDAG-0.1.0/simDAG/R/sim_from_DAG.r |only simDAG-0.1.0/simDAG/man/figures/Thumbs.db |only simDAG-0.1.0/simDAG/man/figures/example_DAG.png |only simDAG-0.1.0/simDAG/man/sim_from_DAG.Rd |only simDAG-0.1.0/simDAG/tests/testthat/test_node_conditional_distr.R |only simDAG-0.1.1/simDAG/DESCRIPTION | 9 simDAG-0.1.1/simDAG/MD5 | 83 +- simDAG-0.1.1/simDAG/NAMESPACE | 1 simDAG-0.1.1/simDAG/NEWS.md | 20 simDAG-0.1.1/simDAG/R/dag.r | 16 simDAG-0.1.1/simDAG/R/dag2matrix.r | 2 simDAG-0.1.1/simDAG/R/input_checks.r | 29 simDAG-0.1.1/simDAG/R/node.r | 95 +- simDAG-0.1.1/simDAG/R/node_time_to_event.r | 3 simDAG-0.1.1/simDAG/R/sim2long.r | 10 simDAG-0.1.1/simDAG/R/sim_discrete_time.r | 21 simDAG-0.1.1/simDAG/R/sim_from_dag.r |only simDAG-0.1.1/simDAG/R/sim_n_datasets.r |only simDAG-0.1.1/simDAG/README.md | 174 ++-- simDAG-0.1.1/simDAG/inst/doc/v_covid_example.R | 3 simDAG-0.1.1/simDAG/inst/doc/v_covid_example.Rmd | 32 simDAG-0.1.1/simDAG/inst/doc/v_covid_example.html | 362 +++++---- simDAG-0.1.1/simDAG/inst/doc/v_sim_discrete_time.R | 5 simDAG-0.1.1/simDAG/inst/doc/v_sim_discrete_time.Rmd | 37 simDAG-0.1.1/simDAG/inst/doc/v_sim_discrete_time.html | 354 ++++----- simDAG-0.1.1/simDAG/inst/doc/v_sim_from_dag.R | 3 simDAG-0.1.1/simDAG/inst/doc/v_sim_from_dag.Rmd | 33 simDAG-0.1.1/simDAG/inst/doc/v_sim_from_dag.html | 379 +++++----- simDAG-0.1.1/simDAG/man/dag2matrix.Rd | 21 simDAG-0.1.1/simDAG/man/figures/example_dag.png |only simDAG-0.1.1/simDAG/man/node.Rd | 7 simDAG-0.1.1/simDAG/man/simDAG.Rd | 2 simDAG-0.1.1/simDAG/man/sim_discrete_time.Rd | 2 simDAG-0.1.1/simDAG/man/sim_from_dag.Rd |only simDAG-0.1.1/simDAG/man/sim_n_datasets.Rd |only simDAG-0.1.1/simDAG/tests/testthat/_snaps/DAG.node_S3.md | 4 simDAG-0.1.1/simDAG/tests/testthat/test_DAG.node_S3.r | 5 simDAG-0.1.1/simDAG/tests/testthat/test_add_node.r | 9 simDAG-0.1.1/simDAG/tests/testthat/test_dag2matrix.r | 11 simDAG-0.1.1/simDAG/tests/testthat/test_input_checks_node.r | 6 simDAG-0.1.1/simDAG/tests/testthat/test_input_checks_sim_n_datasets.r |only simDAG-0.1.1/simDAG/tests/testthat/test_node.r | 69 + simDAG-0.1.1/simDAG/tests/testthat/test_node_conditional_distr.r |only simDAG-0.1.1/simDAG/tests/testthat/test_sim_discrete_time.r | 47 + simDAG-0.1.1/simDAG/tests/testthat/test_sim_from_dag.r | 38 + simDAG-0.1.1/simDAG/tests/testthat/test_sim_n_datasets.r |only simDAG-0.1.1/simDAG/vignettes/v_covid_example.Rmd | 32 simDAG-0.1.1/simDAG/vignettes/v_sim_discrete_time.Rmd | 37 simDAG-0.1.1/simDAG/vignettes/v_sim_from_dag.Rmd | 33 49 files changed, 1184 insertions(+), 810 deletions(-)
Title: Read in a 'Praat' 'TextGrid' File
Description: 'Praat' <https://www.fon.hum.uva.nl/praat/> is a widely
used tool for manipulating, annotating and analyzing speech and
acoustic data. It stores annotation data in a format called a
'TextGrid'. This package provides a way to read these
files into R.
Author: Tristan Mahr [aut, cre]
Maintainer: Tristan Mahr <tristan.mahr@wisc.edu>
Diff between readtextgrid versions 0.1.1 dated 2020-02-17 and 0.1.2 dated 2024-03-07
readtextgrid-0.1.1/readtextgrid/R/utils-pipe.R |only readtextgrid-0.1.1/readtextgrid/inst/parsing-tests.R |only readtextgrid-0.1.1/readtextgrid/man/figures/example-tg-image.png |only readtextgrid-0.1.1/readtextgrid/man/pipe.Rd |only readtextgrid-0.1.2/readtextgrid/DESCRIPTION | 19 readtextgrid-0.1.2/readtextgrid/MD5 | 21 readtextgrid-0.1.2/readtextgrid/NAMESPACE | 4 readtextgrid-0.1.2/readtextgrid/NEWS.md | 7 readtextgrid-0.1.2/readtextgrid/R/readtextgrid.R | 83 ++- readtextgrid-0.1.2/readtextgrid/README.md | 242 ++++++---- readtextgrid-0.1.2/readtextgrid/inst/utf_16_be.TextGrid |only readtextgrid-0.1.2/readtextgrid/man/example_textgrid.Rd | 51 +- readtextgrid-0.1.2/readtextgrid/man/read_textgrid.Rd | 65 +- readtextgrid-0.1.2/readtextgrid/tests/testthat/test-read-textgrid.R | 22 14 files changed, 313 insertions(+), 201 deletions(-)
Title: An User-Friendly R 'shiny' Application for Multi-Omics Data
Integration and Analysis
Description: A 'shiny' application, which allows you to perform single- and
multi-omics analyses using your own omics datasets. After the upload
of the omics datasets and a metadata file, single-omics is performed
for feature selection and dataset reduction. These datasets are used
for pairwise- and multi-omics analyses, where automatic tuning is
done to identify correlations between the datasets - the end goal
of the recommended 'Holomics' workflow.
Methods used in the package were implemented in the package 'mixomics'
by Florian Rohart,Benoît Gautier,Amrit Singh,Kim-Anh Lê Cao (2017) <doi:10.1371/journal.pcbi.1005752>
and are described there in further detail.
Author: Katharina Munk [aut, cre],
Eva M. Molin [aut, ctb],
Guenter Brader [ctb],
Lisa Ziemba [ctb],
AIT Austrian Institute of Technology GmbH [cph]
Maintainer: Katharina Munk <katharinamunk@yahoo.de>
Diff between Holomics versions 1.0.0 dated 2023-08-21 and 1.1.0 dated 2024-03-07
DESCRIPTION | 16 ++++++------ MD5 | 24 +++++++++--------- NEWS.md | 22 +++++++++++++---- R/mod_Upload.R | 2 - README.md | 26 +++++++++++++------- inst/CITATION | 22 ++++++++++------- inst/app/www/01-home.md | 4 ++- inst/app/www/about.md | 6 ++-- inst/app/www/css/theme.css | 21 ++++++++++++++++ inst/doc/Holomics.R | 2 - inst/doc/Holomics.Rmd | 26 +++++++++++++++++--- inst/doc/Holomics.html | 58 +++++++++++++++++++++++++++------------------ vignettes/Holomics.Rmd | 26 +++++++++++++++++--- 13 files changed, 177 insertions(+), 78 deletions(-)
Title: Model-Agnostic Interpretations with Forward Marginal Effects
Description: Create local, regional, and global explanations for any machine learning model with forward marginal effects. You provide a model and data, and 'fmeffects' computes feature effects. The package is based on the theory in: C. A. Scholbeck, G. Casalicchio, C. Molnar, B. Bischl, and C. Heumann (2022) <arXiv:2201.08837>.
Author: Holger Loewe [cre, aut],
Christian Scholbeck [aut],
Christian Heumann [rev],
Bernd Bischl [rev],
Giuseppe Casalicchio [rev]
Maintainer: Holger Loewe <hbj.loewe@gmail.com>
Diff between fmeffects versions 0.1.1 dated 2023-09-26 and 0.1.2 dated 2024-03-07
DESCRIPTION | 9 MD5 | 16 - R/FMEPlot.R | 4 R/PredictorParsnip.R | 4 R/ame.R | 16 - build/vignette.rds |binary inst/doc/fme_theory.html | 208 +++++++++++++------ inst/doc/fmeffects.html | 514 +++++++++++++++++++++++++++-------------------- man/fmeffects-package.Rd | 1 9 files changed, 467 insertions(+), 305 deletions(-)
Title: Variance Component Analysis
Description: ANOVA and REML estimation of linear mixed models is implemented, once following
Searle et al. (1991, ANOVA for unbalanced data), once making use of the 'lme4' package.
The primary objective of this package is to perform a variance component analysis (VCA)
according to CLSI EP05-A3 guideline "Evaluation of Precision of Quantitative Measurement
Procedures" (2014). There are plotting methods for visualization of an experimental design,
plotting random effects and residuals. For ANOVA type estimation two methods for computing
ANOVA mean squares are implemented (SWEEP and quadratic forms). The covariance matrix of
variance components can be derived, which is used in estimating confidence intervals. Linear
hypotheses of fixed effects and LS means can be computed. LS means can be computed at specific
values of covariables and with custom weighting schemes for factor variables. See ?VCA for a
more comprehensive description of the features.
Author: Andre Schuetzenmeister [aut, cre], Florian Dufey [aut]
Maintainer: Andre Schuetzenmeister <andre.schuetzenmeister@roche.com>
Diff between VCA versions 1.5.0 dated 2024-01-18 and 1.5.1 dated 2024-03-07
DESCRIPTION | 8 ++-- MD5 | 24 ++++++------- R/model_check.R | 2 - R/utils.R | 14 +++++-- data/LSMeans_Data.RData |binary inst/ChangeLog.txt | 7 +++ man/VCA-Package.Rd | 4 +- man/lsmeans.Rd | 2 - man/summarize.VCA.Rd | 10 +++-- tests/RunAllTests.R | 2 + tests/runit/UnitTests/runit.VCAinference.R | 2 - tests/runit/UnitTests/runit.anovaVCA.R | 34 +++++++++++-------- tests/runit/UnitTests/runit.misc.R | 51 +++++++++++++++++++++++++++++ 13 files changed, 117 insertions(+), 43 deletions(-)
Title: Fast Time Series Modeling for Seasonal Series with Exogenous
Variables
Description: An implementation of sparsity-ranked lasso and related methods
for time series data. This methodology is especially useful for
large time series with exogenous features and/or complex
seasonality. Originally described in Peterson and Cavanaugh
(2022) <doi:10.1007/s10182-021-00431-7> in the context of variable
selection with interactions and/or polynomials, ranked sparsity is
a philosophy with methods useful for variable selection in the
presence of prior informational asymmetry. This situation exists for time
series data with complex seasonality, as shown in Peterson and Cavanaugh
(2023+) <doi:10.48550/arXiv.2211.01492>, which also describes this package
in greater detail. The sparsity-ranked penalization methods for Time Series
implemented in 'fastTS' can fit large/complex/high-frequency time series
quickly, even with a high-dimensional exogenous feature set. The method is
considerably faster than its competitors, while often producing more
accurate predictions. Also inclu [...truncated...]
Author: Ryan Andrew Peterson [aut, cre, cph]
Maintainer: Ryan Andrew Peterson <ryan.a.peterson@cuanschutz.edu>
Diff between fastTS versions 0.1.2 dated 2024-02-07 and 1.0.0 dated 2024-03-07
DESCRIPTION | 15 MD5 | 47 +- NAMESPACE | 4 NEWS.md | 14 R/fastTS.R | 174 ++++++++-- R/helpers.R | 49 ++- R/prediction.R | 231 ++++++++++---- README.md | 32 +- build/vignette.rds |binary inst/doc/case_studies.R | 3 inst/doc/case_studies.Rmd | 5 inst/doc/case_studies.html | 362 +++++++++++++--------- inst/doc/forecasting.R |only inst/doc/forecasting.Rmd |only inst/doc/forecasting.html |only inst/doc/hourly_er_visits.R | 8 inst/doc/hourly_er_visits.Rmd | 14 inst/doc/hourly_er_visits.html | 605 ++++++++++++++++++-------------------- man/fastTS.Rd | 69 +++- man/penalty_scaler.Rd |only man/predict.fastTS.Rd | 44 +- tests/testthat/Rplots.pdf |binary tests/testthat/test-fastTS.R | 155 +++++++++ tests/testthat/test-predictions.R | 230 +++++++++----- vignettes/case_studies.Rmd | 5 vignettes/forecasting.Rmd |only vignettes/hourly_er_visits.Rmd | 14 27 files changed, 1343 insertions(+), 737 deletions(-)
Title: Tools and Plots for Multi-Well Plates
Description: Collection of functions for working with multi-well microtitre
plates, mainly 96, 384 and 1536 well plates.
Author: Scott Warchal [aut, cre]
Maintainer: Scott Warchal <scott.warchal@gmail.com>
Diff between platetools versions 0.1.5 dated 2021-06-03 and 0.1.7 dated 2024-03-07
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/bhit_map.R | 4 +++- R/hit_map.R | 4 +++- R/med_smooth.R | 28 ++++++++++++++++++++++++---- man/b_score.Rd | 6 +++++- man/med_smooth.Rd | 5 ++++- tests/testthat/test-plot_wrapper.R | 7 ++----- 8 files changed, 51 insertions(+), 23 deletions(-)
Title: R6-Based ML Learners for 'mlexperiments'
Description: Enhances 'mlexperiments'
<https://CRAN.R-project.org/package=mlexperiments> with additional
machine learning ('ML') learners. The package provides R6-based
learners for the following algorithms: 'glmnet'
<https://CRAN.R-project.org/package=glmnet>, 'ranger'
<https://CRAN.R-project.org/package=ranger>, 'xgboost'
<https://CRAN.R-project.org/package=xgboost>, and 'lightgbm'
<https://CRAN.R-project.org/package=lightgbm>. These can be used
directly with the 'mlexperiments' R package.
Author: Lorenz A. Kapsner [cre, aut, cph]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between mllrnrs versions 0.0.2 dated 2023-07-18 and 0.0.3 dated 2024-03-07
DESCRIPTION | 14 MD5 | 122 +- NAMESPACE | 18 R/learner_glmnet.R | 614 +++++----- R/learner_lightgbm.R | 18 R/learner_ranger.R | 708 ++++++------ R/learner_xgboost.R | 620 +++++----- R/zzz.R | 58 - build/vignette.rds |binary inst/doc/mllrnrs_glmnet_binary.R | 2 inst/doc/mllrnrs_glmnet_binary.Rmd | 880 +++++++-------- inst/doc/mllrnrs_glmnet_multiclass.R | 2 inst/doc/mllrnrs_glmnet_multiclass.Rmd | 868 +++++++-------- inst/doc/mllrnrs_glmnet_regression.R | 2 inst/doc/mllrnrs_glmnet_regression.Rmd | 870 +++++++-------- inst/doc/mllrnrs_lightgbm_binary.R | 2 inst/doc/mllrnrs_lightgbm_binary.Rmd | 1484 ++++++++++++------------- inst/doc/mllrnrs_lightgbm_multiclass.R | 2 inst/doc/mllrnrs_lightgbm_multiclass.Rmd | 1714 +++++++++++++++--------------- inst/doc/mllrnrs_lightgbm_regression.R | 2 inst/doc/mllrnrs_lightgbm_regression.Rmd | 1188 ++++++++++---------- inst/doc/mllrnrs_ranger_binary.R | 2 inst/doc/mllrnrs_ranger_binary.Rmd | 1000 ++++++++--------- inst/doc/mllrnrs_ranger_multiclass.R | 2 inst/doc/mllrnrs_ranger_multiclass.Rmd | 1010 ++++++++--------- inst/doc/mllrnrs_ranger_regression.R | 2 inst/doc/mllrnrs_ranger_regression.Rmd | 1002 ++++++++--------- inst/doc/mllrnrs_xgboost_binary.R | 2 inst/doc/mllrnrs_xgboost_binary.Rmd | 884 +++++++-------- inst/doc/mllrnrs_xgboost_multiclass.R | 2 inst/doc/mllrnrs_xgboost_multiclass.Rmd | 922 ++++++++-------- inst/doc/mllrnrs_xgboost_regression.R | 2 inst/doc/mllrnrs_xgboost_regression.Rmd | 886 +++++++-------- man/LearnerGlmnet.Rd | 296 ++--- man/LearnerLightgbm.Rd | 342 ++--- man/LearnerRanger.Rd | 298 ++--- man/LearnerXgboost.Rd | 340 ++--- tests/testthat.R | 24 tests/testthat/test-glmnet_binary.R | 288 ++--- tests/testthat/test-glmnet_multiclass.R | 206 +-- tests/testthat/test-glmnet_regression.R | 300 ++--- tests/testthat/test-lightgbm_binary.R | 228 +-- tests/testthat/test-lightgbm_regression.R | 314 ++--- tests/testthat/test-lints.R | 26 tests/testthat/test-ranger_binary.R | 214 +-- tests/testthat/test-ranger_multiclass.R | 210 +-- tests/testthat/test-ranger_regression.R | 284 ++-- tests/testthat/test-xgboost_binary.R | 224 +-- tests/testthat/test-xgboost_multiclass.R | 226 +-- tests/testthat/test-xgboost_regression.R | 308 ++--- vignettes/mllrnrs_glmnet_binary.Rmd | 880 +++++++-------- vignettes/mllrnrs_glmnet_multiclass.Rmd | 868 +++++++-------- vignettes/mllrnrs_glmnet_regression.Rmd | 870 +++++++-------- vignettes/mllrnrs_lightgbm_binary.Rmd | 1484 ++++++++++++------------- vignettes/mllrnrs_lightgbm_multiclass.Rmd | 1714 +++++++++++++++--------------- vignettes/mllrnrs_lightgbm_regression.Rmd | 1188 ++++++++++---------- vignettes/mllrnrs_ranger_binary.Rmd | 1000 ++++++++--------- vignettes/mllrnrs_ranger_multiclass.Rmd | 1010 ++++++++--------- vignettes/mllrnrs_ranger_regression.Rmd | 1002 ++++++++--------- vignettes/mllrnrs_xgboost_binary.Rmd | 884 +++++++-------- vignettes/mllrnrs_xgboost_multiclass.Rmd | 922 ++++++++-------- vignettes/mllrnrs_xgboost_regression.Rmd | 886 +++++++-------- 62 files changed, 15867 insertions(+), 15873 deletions(-)
Title: Libraries, Data Dictionaries, and a Data Step for R
Description: Contains a set of functions to create data libraries,
generate data dictionaries, and simulate a data step.
The libname() function will load a directory of data into
a library in one line of code. The dictionary() function
will generate data dictionaries for individual
data frames or an entire library. And the datestep() function
will perform row-by-row data processing.
Author: David J. Bosak
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between libr versions 1.3.0 dated 2024-02-11 and 1.3.1 dated 2024-03-07
DESCRIPTION | 8 MD5 | 11 NEWS.md | 3 R/datastep.R | 26 man/libr.Rd | 1 tests/testthat/programs |only tests/testthat/test-datastep.R | 1120 +++++++++++++++++++++-------------------- 7 files changed, 621 insertions(+), 548 deletions(-)
Title: A Stochastic Cellular Automaton Engine
Description: An engine for stochastic cellular automata. It provides a high-level
interface to declare a model, which can then be simulated by various backends
(Genin et al. (2023) <doi:10.1101/2023.11.08.566206>).
Author: Alexandre Genin [aut, cre] ,
Guillaume Dupont [aut],
Daniel Valencia [aut],
Mauro Zucconi [aut],
M. Isidora Avila-Thieme [aut],
Sergio A. Navarrete [aut],
Evie A. Wieters [aut]
Maintainer: Alexandre Genin <a.a.h.genin@uu.nl>
Diff between chouca versions 0.0.999 dated 2024-02-29 and 0.1.99 dated 2024-03-07
DESCRIPTION | 27 ++++- MD5 | 27 ++--- NEWS | 18 +++ R/ca_library.R | 36 ++++--- R/camodel_methods.R | 2 R/chouca-package.R | 9 - R/run.R | 5 - build/partial.rdb |only inst/common.h | 2 inst/doc/chouca-package.html | 178 +++++++++++++++++++------------------- man/ca_library.Rd | 10 +- man/chouca.Rd | 9 - man/run_camodel.Rd | 5 - src/cpp_engine.cpp | 5 - tests/testthat/test-correctness.R | 37 +++++++ 15 files changed, 216 insertions(+), 154 deletions(-)
Title: Statistical Methods for Auditing
Description: Provides statistical methods for auditing as implemented in JASP
for Audit (Derks et al., 2021 <doi:10.21105/joss.02733>). First, the package
makes it easy for an auditor to plan a statistical sample, select the sample
from the population, and evaluate the misstatement in the sample compliant
with international auditing standards. Second, the package provides
statistical methods for auditing data, including tests of digit
distributions and repeated values. Finally, the package includes methods for
auditing algorithms on the aspect of fairness and bias. Next to classical
statistical methodology, the package implements Bayesian equivalents of
these methods whose statistical underpinnings are described in Derks et al.
(2021) <doi:10.1111/ijau.12240>, Derks et al. (2021)
<doi:10.31234/osf.io/kzqp5>, and Derks et al. (2022)
<doi:10.31234/osf.io/8nf3e>.
Author: Koen Derks [aut, cre]
Maintainer: Koen Derks <k.derks@nyenrode.nl>
Diff between jfa versions 0.7.0 dated 2023-10-04 and 0.7.1 dated 2024-03-07
jfa-0.7.0/jfa/R/report.R |only jfa-0.7.0/jfa/inst/doc/algorithm-auditing.R |only jfa-0.7.0/jfa/inst/doc/algorithm-auditing.Rmd |only jfa-0.7.0/jfa/inst/doc/algorithm-auditing.html |only jfa-0.7.0/jfa/inst/doc/audit-sampling.R |only jfa-0.7.0/jfa/inst/doc/audit-sampling.Rmd |only jfa-0.7.0/jfa/inst/doc/audit-sampling.html |only jfa-0.7.0/jfa/inst/doc/bayesian-sampling-workflow.R |only jfa-0.7.0/jfa/inst/doc/bayesian-sampling-workflow.Rmd |only jfa-0.7.0/jfa/inst/doc/bayesian-sampling-workflow.html |only jfa-0.7.0/jfa/inst/doc/creating-prior.R |only jfa-0.7.0/jfa/inst/doc/creating-prior.Rmd |only jfa-0.7.0/jfa/inst/doc/creating-prior.html |only jfa-0.7.0/jfa/inst/doc/data-auditing.R |only jfa-0.7.0/jfa/inst/doc/data-auditing.Rmd |only jfa-0.7.0/jfa/inst/doc/data-auditing.html |only jfa-0.7.0/jfa/inst/doc/digit-analysis.R |only jfa-0.7.0/jfa/inst/doc/digit-analysis.Rmd |only jfa-0.7.0/jfa/inst/doc/digit-analysis.html |only jfa-0.7.0/jfa/inst/doc/jfa.R |only jfa-0.7.0/jfa/inst/doc/model-fairness.R |only jfa-0.7.0/jfa/inst/doc/model-fairness.Rmd |only jfa-0.7.0/jfa/inst/doc/model-fairness.html |only jfa-0.7.0/jfa/inst/doc/sample-evaluation.R |only jfa-0.7.0/jfa/inst/doc/sample-evaluation.Rmd |only jfa-0.7.0/jfa/inst/doc/sample-evaluation.html |only jfa-0.7.0/jfa/inst/doc/sample-planning.R |only jfa-0.7.0/jfa/inst/doc/sample-planning.Rmd |only jfa-0.7.0/jfa/inst/doc/sample-planning.html |only jfa-0.7.0/jfa/inst/doc/sample-selection.R |only jfa-0.7.0/jfa/inst/doc/sample-selection.Rmd |only jfa-0.7.0/jfa/inst/doc/sample-selection.html |only jfa-0.7.0/jfa/inst/doc/sampling-workflow.R |only jfa-0.7.0/jfa/inst/doc/sampling-workflow.Rmd |only jfa-0.7.0/jfa/inst/doc/sampling-workflow.html |only jfa-0.7.0/jfa/inst/rmd |only jfa-0.7.0/jfa/man/report.Rd |only jfa-0.7.0/jfa/tests/testthat/test-other.R |only jfa-0.7.0/jfa/vignettes/algorithm-auditing.Rmd |only jfa-0.7.0/jfa/vignettes/audit-sampling.Rmd |only jfa-0.7.0/jfa/vignettes/bayesian-sampling-workflow.Rmd |only jfa-0.7.0/jfa/vignettes/cellSampling.png |only jfa-0.7.0/jfa/vignettes/cheatsheet.png |only jfa-0.7.0/jfa/vignettes/creating-prior.Rmd |only jfa-0.7.0/jfa/vignettes/data-auditing.Rmd |only jfa-0.7.0/jfa/vignettes/digit-analysis.Rmd |only jfa-0.7.0/jfa/vignettes/evaluation.png |only jfa-0.7.0/jfa/vignettes/fairness-tree.png |only jfa-0.7.0/jfa/vignettes/fixedIntervalSampling.png |only jfa-0.7.0/jfa/vignettes/jfaBanner.png |only jfa-0.7.0/jfa/vignettes/model-fairness.Rmd |only jfa-0.7.0/jfa/vignettes/planning.png |only jfa-0.7.0/jfa/vignettes/randomSampling.png |only jfa-0.7.0/jfa/vignettes/sample-evaluation.Rmd |only jfa-0.7.0/jfa/vignettes/sample-planning.Rmd |only jfa-0.7.0/jfa/vignettes/sample-selection.Rmd |only jfa-0.7.0/jfa/vignettes/sampling-workflow.Rmd |only jfa-0.7.0/jfa/vignettes/selection.png |only jfa-0.7.0/jfa/vignettes/workflow.png |only jfa-0.7.1/jfa/DESCRIPTION | 14 jfa-0.7.1/jfa/MD5 | 154 -- jfa-0.7.1/jfa/NAMESPACE | 1 jfa-0.7.1/jfa/NEWS.md | 20 jfa-0.7.1/jfa/R/accounts-data.R |only jfa-0.7.1/jfa/R/allowances-data.R | 2 jfa-0.7.1/jfa/R/auditPrior.R | 1 jfa-0.7.1/jfa/R/digit_test.R | 15 jfa-0.7.1/jfa/R/evaluation.R | 116 + jfa-0.7.1/jfa/R/jfa-internal.R | 469 ++++++ jfa-0.7.1/jfa/R/jfa-methods.R | 246 ++- jfa-0.7.1/jfa/R/methods.R | 10 jfa-0.7.1/jfa/R/model_fairness.R | 33 jfa-0.7.1/jfa/R/planning.R | 85 - jfa-0.7.1/jfa/R/selection.R | 15 jfa-0.7.1/jfa/R/stanmodels.R | 4 jfa-0.7.1/jfa/README.md | 32 jfa-0.7.1/jfa/build/partial.rdb |binary jfa-0.7.1/jfa/build/vignette.rds |binary jfa-0.7.1/jfa/data/accounts.RData |only jfa-0.7.1/jfa/inst/CITATION | 4 jfa-0.7.1/jfa/inst/doc/jfa.Rmd | 156 -- jfa-0.7.1/jfa/inst/doc/jfa.html | 361 ----- jfa-0.7.1/jfa/inst/stan/beta_zero_one.stan |only jfa-0.7.1/jfa/inst/stan/poisson_zero.stan |only jfa-0.7.1/jfa/inst/stan/pp_error.stan | 4 jfa-0.7.1/jfa/inst/stan/pp_taint.stan | 4 jfa-0.7.1/jfa/man/accounts.Rd |only jfa-0.7.1/jfa/man/allowances.Rd | 2 jfa-0.7.1/jfa/man/auditPrior.Rd | 1 jfa-0.7.1/jfa/man/digit_test.Rd | 4 jfa-0.7.1/jfa/man/evaluation.Rd | 24 jfa-0.7.1/jfa/man/figures/logo.png |binary jfa-0.7.1/jfa/man/jfa-methods.Rd | 2 jfa-0.7.1/jfa/man/jfa.Rd | 2 jfa-0.7.1/jfa/man/model_fairness.Rd | 26 jfa-0.7.1/jfa/man/planning.Rd | 18 jfa-0.7.1/jfa/man/selection.Rd | 1 jfa-0.7.1/jfa/src/RcppExports.cpp | 4 jfa-0.7.1/jfa/src/stanExports_beta_zero_one.cc |only jfa-0.7.1/jfa/src/stanExports_beta_zero_one.h |only jfa-0.7.1/jfa/src/stanExports_or_fairness.h | 656 ++++----- jfa-0.7.1/jfa/src/stanExports_poisson_zero.cc |only jfa-0.7.1/jfa/src/stanExports_poisson_zero.h |only jfa-0.7.1/jfa/src/stanExports_pp_error.h | 928 ++++++------- jfa-0.7.1/jfa/src/stanExports_pp_taint.h | 1141 +++++++---------- jfa-0.7.1/jfa/tests/testthat/test-digit-test.R | 8 jfa-0.7.1/jfa/tests/testthat/test-evaluation.R | 36 jfa-0.7.1/jfa/tests/testthat/test-extract_digits.R | 4 jfa-0.7.1/jfa/tests/testthat/test-planning.R | 10 jfa-0.7.1/jfa/tests/testthat/test-touwhoogduin.R | 235 +++ jfa-0.7.1/jfa/vignettes/jfa.Rmd | 156 -- 111 files changed, 2522 insertions(+), 2482 deletions(-)
Title: An Implementation of Grammar of Graphics for Graphs and Networks
Description: The grammar of graphics as implemented in ggplot2 is a poor fit for
graph and network visualizations due to its reliance on tabular data input.
ggraph is an extension of the ggplot2 API tailored to graph visualizations
and provides the same flexible approach to building up plots layer by layer.
Author: Thomas Lin Pedersen [cre, aut]
,
RStudio [cph]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between ggraph versions 2.2.0 dated 2024-02-27 and 2.2.1 dated 2024-03-07
DESCRIPTION | 6 +- MD5 | 96 +++++++++++++++++++++++----------------------- NEWS.md | 4 + R/autograph.R | 2 R/edges.R | 12 ++--- R/facet_graph.R | 2 R/facet_nodes.R | 2 R/geom_axis_hive.R | 18 ++++---- R/geom_conn_bundle.R | 2 R/geom_edge_arc.R | 10 ++-- R/geom_edge_bend.R | 6 +- R/geom_edge_density.R | 4 - R/geom_edge_diagonal.R | 6 +- R/geom_edge_elbow.R | 8 +-- R/geom_edge_fan.R | 18 ++++---- R/geom_edge_hive.R | 6 +- R/geom_edge_link.R | 6 +- R/geom_edge_parallel.R | 18 ++++---- R/geom_edge_point.R | 10 ++-- R/geom_edge_tile.R | 10 ++-- R/geom_node_point.R | 2 R/geom_node_text.R | 2 R/geom_node_tile.R | 4 - R/geom_node_voronoi.R | 2 inst/doc/Edges.html | 4 - inst/doc/Layouts.html | 4 - inst/doc/Nodes.html | 4 - inst/doc/tidygraph.html | 4 - man/autograph.Rd | 2 man/facet_graph.Rd | 2 man/facet_nodes.Rd | 2 man/geom_axis_hive.Rd | 6 +- man/geom_conn_bundle.Rd | 2 man/geom_edge_arc.Rd | 10 ++-- man/geom_edge_bend.Rd | 6 +- man/geom_edge_density.Rd | 4 - man/geom_edge_diagonal.Rd | 6 +- man/geom_edge_elbow.Rd | 8 +-- man/geom_edge_fan.Rd | 4 - man/geom_edge_hive.Rd | 6 +- man/geom_edge_link.Rd | 6 +- man/geom_edge_parallel.Rd | 4 - man/geom_edge_point.Rd | 10 ++-- man/geom_edge_tile.Rd | 10 ++-- man/geom_node_point.Rd | 2 man/geom_node_text.Rd | 2 man/geom_node_tile.Rd | 4 - man/geom_node_voronoi.Rd | 2 src/forceBundle.cpp | 94 ++++++++++++++++++++++----------------------- 49 files changed, 234 insertions(+), 230 deletions(-)
Title: Dot-and-Whisker Plots of Regression Results
Description: Quick and easy dot-and-whisker plots of regression results.
Author: Frederick Solt [aut],
Yue Hu [aut, cre],
Os Keyes [ctb],
Ben Bolker [ctb],
Stefan Mueller [ctb],
Thomas Leeper [ctb],
Chris Wallace [ctb],
Christopher Warshaw [ctb]
Maintainer: Yue Hu <yuehu@tsinghua.edu.cn>
Diff between dotwhisker versions 0.7.4 dated 2021-09-02 and 0.8.1 dated 2024-03-07
DESCRIPTION | 17 MD5 | 37 NAMESPACE | 10 NEWS.md | 19 R/dwplot.R | 98 +- R/globals.R |only R/secret_weapon.R | 2 R/small_multiple.R | 37 build/vignette.rds |binary inst/doc/dotwhisker-vignette.R | 76 + inst/doc/dotwhisker-vignette.Rmd | 125 ++ inst/doc/dotwhisker-vignette.html | 1511 ++++++++++++++++++++++----------- inst/doc/kl2007_examples.R | 6 inst/doc/kl2007_examples.Rmd | 8 inst/doc/kl2007_examples.html | 1714 +++++++++++++++++++++----------------- man/dwplot.Rd | 40 man/secret_weapon.Rd | 2 man/small_multiple.Rd | 29 vignettes/dotwhisker-vignette.Rmd | 125 ++ vignettes/kl2007_examples.Rmd | 8 20 files changed, 2524 insertions(+), 1340 deletions(-)
Title: Stineman, a Consistently Well Behaved Method of Interpolation
Description: A consistently well behaved method of interpolation based on piecewise rational functions using Stineman's algorithm.
Author: Tomas Johannesson & Halldor Bjornsson, Icelandic Met. Office;
Gabor Grothendieck
Maintainer: Tomas Johannesson <tj@vedur.is>
Diff between stinepack versions 1.4 dated 2018-07-30 and 1.5 dated 2024-03-07
DESCRIPTION | 10 +++++----- MD5 | 2 +- 2 files changed, 6 insertions(+), 6 deletions(-)
Title: Many Network Measures, Motifs, Members, and Models
Description: A set of tools for analysing multimodal networks.
It includes functions for measuring
centrality, centralization, cohesion, closure, constraint and diversity,
as well as for network block-modelling, regression, and diffusion models.
The package is released as a complement to
'Multimodal Political Networks' (2021, ISBN:9781108985000),
and includes various datasets used in the book.
Built on the 'manynet' package, all functions operate with matrices, edge lists,
and 'igraph', 'network', and 'tidygraph' objects,
and on one-mode, two-mode (bipartite), and sometimes three-mode networks.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb] ,
Jael Tan [ctb] ,
Bernhard Bieri [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between migraph versions 1.3.2 dated 2024-01-25 and 1.3.4 dated 2024-03-07
DESCRIPTION | 10 ++-- MD5 | 40 ++++++++-------- NAMESPACE | 3 + NEWS.md | 30 ++++++++++++ R/measure_centrality.R | 4 - R/measure_closure.R | 7 ++ R/measure_holes.R | 66 ++++++++++++++++++++------- R/member_cliques.R |only R/member_components.R | 18 ------- R/motif_census.R | 87 ++++++++++++++++++++++++++++++++++++ man/brokerage_census.Rd | 16 ++++++ man/cliques.Rd |only man/closure.Rd | 7 ++ man/community.Rd | 1 man/components.Rd | 8 --- man/core.Rd | 1 man/degree_centrality.Rd | 4 - man/equivalence.Rd | 1 man/holes.Rd | 5 ++ tests/testthat/helper-functions.R | 16 ++++-- tests/testthat/test-measure_holes.R | 3 - tests/testthat/test-motif_census.R | 21 ++++++++ 22 files changed, 272 insertions(+), 76 deletions(-)
Title: Easy Study of Patient DICOM Data in Oncology
Description: Exploitation, processing and 2D-3D visualization of DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, in a patient-oriented perspective.
Author: Cathy Fontbonne [aut, cre] ,
Jean-Marc Fontbonne [aut] ,
Nathan Azemar [ctb]
Maintainer: Cathy Fontbonne <contact.espadon@lpccaen.in2p3.fr>
Diff between espadon versions 1.5.1 dated 2024-01-11 and 1.6.0 dated 2024-03-07
DESCRIPTION | 10 MD5 | 79 NAMESPACE | 9 R/RcppExports.R | 4 R/add_margin.R | 2 R/bin_from_roi.R | 163 R/display_3D_sections.R | 3 R/display_3D_stack.R | 3 R/display_kplane.R | 3 R/display_palette.R | 103 R/display_plane.R | 587 - R/espadon_hidden.R | 91 R/mesh_from_bin.R | 2 R/pal_RVV.R | 4 R/pal_rainbow.R |only R/plot.R |only R/sp_similarity_from_bin.R | 4 R/sp_similarity_from_mesh.R | 42 R/struct_from_mesh.R | 572 - build/espadon.pdf |22001 +++++++++++++++++++++-------------------- build/partial.rdb |binary build/stage23.rdb |binary inst/REFERENCES.bib | 11 inst/doc/espadon_overview.R | 22 inst/doc/espadon_overview.Rmd | 41 inst/doc/espadon_overview.html | 61 man/add.margin.Rd | 2 man/bin.from.roi.Rd | 6 man/display.3D.sections.Rd | 3 man/display.3D.stack.Rd | 3 man/display.kplane.Rd | 1 man/display.palette.Rd | 42 man/display.plane.Rd | 24 man/mesh.from.bin.Rd | 2 man/pal.RVV.Rd | 2 man/pal.rainbow.Rd |only man/plot.Rd |only man/sp.similarity.from.bin.Rd | 4 man/sp.similarity.from.mesh.Rd | 23 man/struct.from.mesh.Rd | 21 src/RcppExports.cpp | 19 src/roiinterC.cpp |only vignettes/espadon_overview.Rmd | 41 43 files changed, 12643 insertions(+), 11367 deletions(-)
Title: Soil Defense Investments in Italy: Data Retrieval, Analysis,
Visualization
Description: Facilitates the retrieval and analysis of financial data related to public works in Italy,
focusing on soil defense investments. It extracts data from 'OpenCoesione', 'OpenBDAP',
and the 'ReNDiS' database, eliminating the need for direct access to these platforms.
The package boasts a user-friendly design, featuring real time updates and a set of functions
tailored for data retrieval and visualization.
See the webpages for further information
<http://www.rendis.isprambiente.it/rendisweb/>,
<https://opencoesione.gov.it/en/>, and
<https://bdap-opendata.rgs.mef.gov.it/>.
Author: Lorena Ricciotti [aut, cre] ,
Alessio Pollice [ths]
Maintainer: Lorena Ricciotti <lorena.ricciotti@uniba.it>
Diff between PublicWorksFinanceIT versions 0.1.0 dated 2024-02-06 and 0.2.0 dated 2024-03-07
DESCRIPTION | 18 +++++++++--------- MD5 | 41 +++++++++++++++++++++-------------------- NEWS.md |only R/get_data_OBDAP.R | 2 +- R/get_data_RENDIS.R | 39 +++++++++++++++++++++++++++++++-------- R/get_data_region_OC.R | 27 +++++++++++++++++++++------ R/get_data_theme_OC.R | 29 +++++++++++++++++++++-------- R/get_info_OC.R | 7 ++++--- R/merge_data.R | 17 ++++++++++------- R/plot_funds_bar.R | 2 +- R/plot_funds_map.R | 16 +++++++++------- R/plot_funds_points.R | 41 +---------------------------------------- data/OBDAPpoint.rda |binary data/OCpoint.rda |binary data/RENDISpoint.rda |binary man/OBDAPpoint.Rd | 4 ++-- man/OCpoint.Rd | 28 +++++++++++++++------------- man/RENDISpoint.Rd | 4 +++- man/get_data_RENDIS.Rd | 2 +- man/get_data_region_OC.Rd | 6 ++++-- man/get_data_theme_OC.Rd | 2 +- man/plot_funds_map.Rd | 4 ++-- 22 files changed, 157 insertions(+), 132 deletions(-)
More information about PublicWorksFinanceIT at CRAN
Permanent link
Title: Descriptive Statistical Analysis
Description: Description of statistical associations between two variables : measures of local and global association between variables (phi, Cramér V, correlations, eta-squared, Goodman and Kruskal tau, permutation tests, etc.), multiple graphical representations of the associations between two variables (using 'ggplot2') and weighted statistics.
Author: Nicolas Robette [aut, cre]
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>
Diff between descriptio versions 1.2 dated 2023-10-05 and 1.3 dated 2024-03-07
descriptio-1.2/descriptio/R/weighted.stats.R |only descriptio-1.3/descriptio/DESCRIPTION | 6 +-- descriptio-1.3/descriptio/MD5 | 37 ++++++++++++++++------ descriptio-1.3/descriptio/NAMESPACE | 3 + descriptio-1.3/descriptio/NEWS.md | 16 ++++++++- descriptio-1.3/descriptio/R/assoc.catcont.by.R |only descriptio-1.3/descriptio/R/assoc.twocat.by.R |only descriptio-1.3/descriptio/R/assoc.twocont.by.R |only descriptio-1.3/descriptio/R/assoc.xx.R |only descriptio-1.3/descriptio/R/assoc.yx.R | 21 ------------ descriptio-1.3/descriptio/R/catdesc.R | 17 ---------- descriptio-1.3/descriptio/R/profiles.R |only descriptio-1.3/descriptio/R/weighted.cor.R |only descriptio-1.3/descriptio/R/weighted.cor2.R |only descriptio-1.3/descriptio/R/weighted.cov.R |only descriptio-1.3/descriptio/R/weighted.cov2.R |only descriptio-1.3/descriptio/R/weighted.ktau.R |only descriptio-1.3/descriptio/R/weighted.mad.R |only descriptio-1.3/descriptio/R/weighted.prho.R |only descriptio-1.3/descriptio/R/weighted.quantile.R |only descriptio-1.3/descriptio/R/weighted.sd.R |only descriptio-1.3/descriptio/R/weighted.srho.R |only descriptio-1.3/descriptio/inst/CITATION | 4 +- descriptio-1.3/descriptio/man/assoc.catcont.by.Rd |only descriptio-1.3/descriptio/man/assoc.twocat.by.Rd |only descriptio-1.3/descriptio/man/assoc.twocont.by.Rd |only descriptio-1.3/descriptio/man/assoc.xx.Rd |only descriptio-1.3/descriptio/man/profiles.Rd |only descriptio-1.3/descriptio/man/weighted.cor2.Rd | 2 - descriptio-1.3/descriptio/man/weighted.cov2.Rd | 2 - 30 files changed, 51 insertions(+), 57 deletions(-)
Title: System Native Font Finding
Description: Provides system native access to the font catalogue. As font
handling varies between systems it is difficult to correctly locate
installed fonts across different operating systems. The 'systemfonts'
package provides bindings to the native libraries on Windows, macOS
and Linux for finding font files that can then be used further by e.g.
graphic devices. The main use is intended to be from compiled code but
'systemfonts' also provides access from R.
Author: Thomas Lin Pedersen [aut, cre]
,
Jeroen Ooms [aut] ,
Devon Govett [aut] ,
Posit, PBC [cph, fnd]
Maintainer: Thomas Lin Pedersen <thomas.pedersen@posit.co>
Diff between systemfonts versions 1.0.5 dated 2023-10-09 and 1.0.6 dated 2024-03-07
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NEWS.md | 4 ++++ build/vignette.rds |binary configure | 2 +- inst/doc/c_interface.R | 2 +- inst/doc/c_interface.html | 13 ++++++++++--- src/font_registry.cpp | 2 +- src/ft_cache.h | 5 +++++ src/string_shape.cpp | 2 +- src/string_shape.h | 5 +++++ tests/testthat/test-match_font.R | 1 + 12 files changed, 43 insertions(+), 21 deletions(-)
Title: Query the Breeding Management System(s)
Description: This R package assists breeders in linking data systems with their analytic pipelines,
a crucial step in digitizing breeding processes. It supports querying and retrieving
phenotypic and genotypic data from systems like 'EBS' <https://ebs.excellenceinbreeding.org/>,
'BMS' <https://bmspro.io>, 'BreedBase' <https://breedbase.org>, and
'GIGWA' <https://github.com/SouthGreenPlatform/Gigwa2> (using 'BrAPI' <https://brapi.org> calls).
Extra helper functions support environmental data sources, including
'TerraClimate' <https://www.climatologylab.org/terraclimate.html> and 'FAO'
'HWSDv2' <https://gaez.fao.org/pages/hwsd> soil database.
Author: Khaled Al-Shamaa [aut, cre],
Mariano Omar Crimi [ctb],
Zakaria Kehel [ctb],
Johan Aparicio [ctb],
ICARDA [cph]
Maintainer: Khaled Al-Shamaa <k.el-shamaa@cgiar.org>
Diff between QBMS versions 0.9.1 dated 2023-03-28 and 1.0.0 dated 2024-03-07
DESCRIPTION | 29 MD5 | 141 + NAMESPACE | 7 NEWS.md | 12 R/qbms.R | 2636 ++++++++++++++++++++++++------------- README.md | 11 build/partial.rdb |binary build/vignette.rds |binary inst/doc/bms_example.Rmd | 31 inst/doc/bms_example.html | 269 +-- inst/doc/breedbase_example.Rmd | 47 inst/doc/breedbase_example.html | 243 +-- inst/doc/ebs_example.Rmd |only inst/doc/ebs_example.html |only inst/doc/gigwa_example.Rmd | 19 inst/doc/gigwa_example.html | 269 +-- inst/doc/hwsd2_example.Rmd |only inst/doc/hwsd2_example.html |only inst/doc/terraclimate_example.Rmd | 30 inst/doc/terraclimate_example.html | 235 +-- man/brapi_get_call.Rd | 14 man/brapi_headers.Rd | 4 man/build_pedigree_table.Rd | 12 man/debug_qbms.Rd | 7 man/get_async_page.Rd | 10 man/get_async_pages.Rd | 6 man/get_germplasm_attributes.Rd | 31 man/get_germplasm_data.Rd | 41 man/get_germplasm_id.Rd | 6 man/get_germplasm_list.Rd | 41 man/get_hwsd2.Rd |only man/get_login_details.Rd | 6 man/get_parents.Rd | 8 man/get_pedigree_table.Rd | 85 - man/get_program_studies.Rd | 31 man/get_program_trials.Rd | 10 man/get_qbms_connection.Rd | 76 - man/get_study_data.Rd | 41 man/get_study_info.Rd | 41 man/get_terraclimate.Rd | 29 man/get_trial_data.Rd | 39 man/get_trial_obs_ontology.Rd | 34 man/gigwa_get_metadata.Rd | 36 man/gigwa_get_samples.Rd | 36 man/gigwa_get_variants.Rd | 67 man/gigwa_list_dbs.Rd | 18 man/gigwa_list_projects.Rd | 25 man/gigwa_list_runs.Rd | 30 man/gigwa_set_db.Rd | 20 man/gigwa_set_project.Rd | 26 man/gigwa_set_run.Rd | 32 man/ini_hwsd2.Rd |only man/ini_terraclimate.Rd |only man/list_crops.Rd | 21 man/list_locations.Rd | 8 man/list_programs.Rd | 27 man/list_studies.Rd | 34 man/list_trials.Rd | 37 man/login_bms.Rd | 37 man/login_breedbase.Rd |only man/login_gigwa.Rd | 35 man/login_oauth2.Rd |only man/rbindlistx.Rd | 8 man/rbindx.Rd | 10 man/scan_brapi_endpoints.Rd |only man/set_crop.Rd | 24 man/set_program.Rd | 29 man/set_qbms_config.Rd | 26 man/set_qbms_connection.Rd | 76 - man/set_study.Rd | 41 man/set_token.Rd |only man/set_trial.Rd | 33 vignettes/bms_example.Rmd | 31 vignettes/breedbase_example.Rmd | 47 vignettes/ebs_example.Rmd |only vignettes/gigwa_example.Rmd | 19 vignettes/hwsd2_example.Rmd |only vignettes/terraclimate_example.Rmd | 30 78 files changed, 3249 insertions(+), 2165 deletions(-)
Title: Machine Learning Experiments
Description: Provides 'R6' objects to perform parallelized hyperparameter
optimization and cross-validation. Hyperparameter optimization can be
performed with Bayesian optimization (via 'ParBayesianOptimization'
<https://cran.r-project.org/package=ParBayesianOptimization>) and grid
search. The optimized hyperparameters can be validated using k-fold
cross-validation. Alternatively, hyperparameter optimization and
validation can be performed with nested cross-validation. While
'mlexperiments' focuses on core wrappers for machine learning
experiments, additional learner algorithms can be supplemented by
inheriting from the provided learner base class.
Author: Lorenz A. Kapsner [cre, aut, cph]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between mlexperiments versions 0.0.2 dated 2023-06-10 and 0.0.3 dated 2024-03-07
mlexperiments-0.0.2/mlexperiments/R/cv_class_base.R |only mlexperiments-0.0.2/mlexperiments/R/cv_class_nested.R |only mlexperiments-0.0.2/mlexperiments/R/learner_class_base.R |only mlexperiments-0.0.2/mlexperiments/R/tune_class_base.R |only mlexperiments-0.0.3/mlexperiments/DESCRIPTION | 8 mlexperiments-0.0.3/mlexperiments/MD5 | 44 mlexperiments-0.0.3/mlexperiments/R/MLCrossValidation.R |only mlexperiments-0.0.3/mlexperiments/R/MLLearnerBase.R |only mlexperiments-0.0.3/mlexperiments/R/MLNestedCV.R |only mlexperiments-0.0.3/mlexperiments/R/MLTuneParameters.R |only mlexperiments-0.0.3/mlexperiments/build/vignette.rds |binary mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_knn_binary.R | 2 mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_knn_binary.html | 514 ++--- mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_knn_multiclass.R | 2 mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_knn_multiclass.html | 596 +++--- mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_rpart_binary.R | 4 mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_rpart_binary.html | 844 ++++----- mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_rpart_multiclass.R | 2 mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_rpart_multiclass.html | 760 ++++---- mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_rpart_regression.R | 4 mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_rpart_regression.html | 862 +++++----- mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_starter.R | 2 mlexperiments-0.0.3/mlexperiments/inst/doc/mlexperiments_starter.html | 776 ++++----- mlexperiments-0.0.3/mlexperiments/man/MLCrossValidation.Rd | 2 mlexperiments-0.0.3/mlexperiments/man/MLLearnerBase.Rd | 2 mlexperiments-0.0.3/mlexperiments/man/MLNestedCV.Rd | 2 mlexperiments-0.0.3/mlexperiments/man/MLTuneParameters.Rd | 11 27 files changed, 2223 insertions(+), 2214 deletions(-)
Title: Geometric Data Analysis
Description: Many tools for Geometric Data Analysis (Le Roux & Rouanet (2005) <doi:10.1007/1-4020-2236-0>), such as MCA variants (Specific Multiple Correspondence Analysis, Class Specific Analysis), many graphical and statistical aids to interpretation (structuring factors, concentration ellipses, inductive tests, bootstrap validation, etc.) and multiple-table analysis (Multiple Factor Analysis, between- and inter-class analysis, Principal Component Analysis and Correspondence Analysis with Instrumental Variables, etc.).
Author: Nicolas Robette [aut, cre]
Maintainer: Nicolas Robette <nicolas.robette@uvsq.fr>
Diff between GDAtools versions 2.0.1 dated 2023-10-06 and 2.1 dated 2024-03-07
DESCRIPTION | 6 ++--- MD5 | 26 ++++++++++++++---------- NAMESPACE | 5 ++-- NEWS.md | 21 +++++++++++++++++++- R/barplot_contrib.R |only R/bcMCA.R | 12 +++++++---- R/dichotomixed.R |only R/dimdescr.R | 20 ++++++++++++------- R/ggadd_density.R | 6 ++--- R/ggadd_supvars.R | 27 +++++++++++++++++++------ R/ggcloud_variables.R | 49 +++++++++++++++++++++++++++++++++++------------ man/barplot_contrib.Rd |only man/dichotomixed.Rd |only man/ggadd_supvars.Rd | 5 +++- man/ggcloud_variables.Rd | 5 +++- man/modif.rate.Rd | 7 +++++- 16 files changed, 136 insertions(+), 53 deletions(-)
Title: Read and Write Frictionless Data Packages
Description: Read and write Frictionless Data Packages. A 'Data Package'
(<https://specs.frictionlessdata.io/data-package/>) is a simple container
format and standard to describe and package a collection of (tabular) data.
It is typically used to publish FAIR
(<https://www.go-fair.org/fair-principles/>) and open datasets.
Author: Peter Desmet [aut, cre] ,
Damiano Oldoni [aut] ,
Research Institute for Nature and Forest [cph]
,
LifeWatch Belgium [fnd] ,
Beatriz Milz [rev] ,
Joao Martins [rev]
Maintainer: Peter Desmet <peter.desmet.work@gmail.com>
Diff between frictionless versions 1.0.2 dated 2022-11-16 and 1.0.3 dated 2024-03-07
DESCRIPTION | 9 MD5 | 14 NEWS.md | 7 build/vignette.rds |binary inst/doc/frictionless.R | 4 inst/doc/frictionless.Rmd | 2 inst/doc/frictionless.html | 855 +++++++++++++++++++++++++++++---------------- vignettes/frictionless.Rmd | 2 8 files changed, 581 insertions(+), 312 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd],
Hyunki Lee [aut],
Changwoo Lim [aut],
Jinhwan Kim [aut],
Yoonkyoung Jeon [aut]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.5.0 dated 2024-02-14 and 1.5.1 dated 2024-03-07
DESCRIPTION | 8 - MD5 | 24 ++--- NEWS.md | 7 + R/forestcox.R | 183 +++++++++++++++++++++++++++++++----------- R/forestglm.R | 203 ++++++++++++++++++++++++++++++++--------------- R/jsBasicGadget.R | 209 ++++++++++++++++++++++++++++++++++++++++++++++++- R/line.R | 19 +++- inst/doc/jsmodule.html | 4 man/forestcoxServer.Rd | 51 ++++++++--- man/forestcoxUI.Rd | 50 ++++++++--- man/forestglmServer.Rd | 50 ++++++----- man/forestglmUI.Rd | 48 ++++++----- man/jsBasicGadget.Rd | 2 13 files changed, 653 insertions(+), 205 deletions(-)
Title: Transform Files to 'microtable' Object with 'microeco' Package
Description: Transform output files of some tools to the 'microtable' object of 'microtable' class in 'microeco' package. The 'microtable' class is the basic class in 'microeco' package and is necessary for the downstream microbial community data analysis.
Author: Chi Liu [aut, cre]
Maintainer: Chi Liu <liuchi0426@126.com>
Diff between file2meco versions 0.7.0 dated 2023-11-09 and 0.7.1 dated 2024-03-07
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/mpa2meco.R | 14 ++++++++------ man/mpa2meco.Rd | 10 ++++++---- 4 files changed, 21 insertions(+), 17 deletions(-)
Title: Declare and Diagnose Research Designs
Description: Researchers can characterize and learn about the properties of
research designs before implementation using `DeclareDesign`. Ex ante
declaration and diagnosis of designs can help researchers clarify the
strengths and limitations of their designs and to improve their
properties, and can help readers evaluate a research strategy prior
to implementation and without access to results. It can also make it
easier for designs to be shared, replicated, and critiqued.
Author: Graeme Blair [aut, cre] ,
Jasper Cooper [aut] ,
Alexander Coppock [aut] ,
Macartan Humphreys [aut] ,
Neal Fultz [aut]
Maintainer: Graeme Blair <graeme.blair@gmail.com>
Diff between DeclareDesign versions 1.0.6 dated 2024-01-17 and 1.0.8 dated 2024-03-07
DESCRIPTION | 8 +++---- MD5 | 19 +++++++++--------- NEWS.md | 4 +++ R/diagnose_design.R | 9 +++++--- R/simulate_design.R | 8 ++++--- man/DeclareDesign.Rd | 2 - man/diagnose_design.Rd | 4 +++ man/simulate_design.Rd | 6 +++-- tests/testthat/test-compare-designs.R | 12 +++++------ tests/testthat/test-reshape-diagnosis.R | 33 ++++++++++++++++++-------------- tests/testthat/test-sims-independent.R |only 11 files changed, 63 insertions(+), 42 deletions(-)
Title: Additive Information & Details of Evidence Synthesis
Description: A supportive collection of functions for pooled analysis of aggregate data. The current version supports users to test assumptions before relevant analysis of bias from study size and sequential analysis such as mentioned by Wetterslev, J., Jakobsen, J. C., & Gluud, C. (2017) <doi:10.1186/s12874-017-0315-7>.
Author: Enoch Kang [aut, cre]
Maintainer: Enoch Kang <y.enoch.kang@gmail.com>
Diff between aides versions 1.3.1 dated 2024-02-03 and 1.3.2 dated 2024-03-07
DESCRIPTION | 10 MD5 | 34 - NEWS.md | 39 +- R/aides-package.R | 6 R/do_observed_sequential_analysis.R | 101 ++++- R/do_sequential_analysis.R | 313 +++++++++++++----- R/plot_observed_sequential_analysis.R | 141 +++++++- R/test_disparity.R | 2 README.md | 242 ++++++-------- inst/doc/An_overview_on_pakcage_aides.R | 79 +++- inst/doc/An_overview_on_pakcage_aides.Rmd | 319 ++++++++++++++---- inst/doc/An_overview_on_pakcage_aides.html | 499 ++++++++++++++++++----------- man/DoOSA.Rd | 10 man/DoSA.Rd | 8 man/PlotOSA.Rd | 3 man/TestDisparity.Rd | 2 man/aides-package.Rd | 6 vignettes/An_overview_on_pakcage_aides.Rmd | 319 ++++++++++++++---- 18 files changed, 1510 insertions(+), 623 deletions(-)