Title: Tools for Creating, Updating, and Analyzing Survey Replicate
Weights
Description: Provides tools for creating and working with survey replicate weights,
extending functionality of the 'survey' package from Lumley (2004) <doi:10.18637/jss.v009.i08>.
Methods are provided for applying nonresponse adjustments to
both full-sample and replicate weights as suggested by
Rust and Rao (1996) <doi:10.1177/096228029600500305>.
Implements methods for sample-based calibration described by Opsomer and Erciulescu (2021)
<https://www150.statcan.gc.ca/n1/pub/12-001-x/2021002/article/00006-eng.htm>.
Diagnostic functions are included to compare weights and weighted estimates
from different sets of replicate weights.
Author: Ben Schneider
Maintainer: Ben Schneider <benjamin.julius.schneider@gmail.com>
Diff between svrep versions 0.2.0 dated 2022-05-12 and 0.3.0 dated 2022-07-05
DESCRIPTION | 10 MD5 | 42 ++- NAMESPACE | 1 NEWS.md | 22 + R/as_data_frame_with_weights.R |only R/calibrate_to_estimate.R | 2 R/redistribute_weights.R | 10 R/stack_replicate_designs.R | 4 R/summarize_rep_weights.R | 272 +++++++++++++++++------ README.md | 167 +++++++------- build/partial.rdb |only build/vignette.rds |binary inst/doc/nonresponse-adjustments.R |only inst/doc/nonresponse-adjustments.Rmd |only inst/doc/nonresponse-adjustments.html |only inst/doc/sample-based-calibration.html | 32 +- man/as_data_frame_with_weights.Rd |only man/redistribute_weights.Rd | 10 man/summarize_rep_weights.Rd | 186 ++++++++------- man/svrep-package.Rd | 30 +- tests/testthat/test-as_data_frame_with_weights.R |only tests/testthat/test-calibrate_to_estimate.R | 2 tests/testthat/test-calibrate_to_sample.R | 24 +- tests/testthat/test-stack_replicate_designs.R | 11 tests/testthat/test-summarize_rep_weights.R | 95 ++++++++ vignettes/nonresponse-adjustments.Rmd |only 26 files changed, 639 insertions(+), 281 deletions(-)
Title: 3D Volcano Plots and Polar Plots for Three-Class Data
Description: Generates interactive plots for analysing and visualising
three-class high dimensional data. It is particularly suited to visualising
differences in continuous attributes such as gene/protein/biomarker
expression levels between three groups. Differential gene/biomarker
expression analysis between two classes is typically shown as a volcano
plot. However, with three groups this type of visualisation is particularly
difficult to interpret. This package generates 3D volcano plots and 3-way
polar plots for easier interpretation of three-class data.
Author: Katriona Goldmann [aut, cre] ,
Myles Lewis [aut]
Maintainer: Katriona Goldmann <k.goldmann@qmul.ac.uk>
Diff between volcano3D versions 1.2.0 dated 2021-03-31 and 2.0.0 dated 2022-07-05
volcano3D-1.2.0/volcano3D/R/volcano_trio.R |only volcano3D-1.2.0/volcano3D/man/polar-class.Rd |only volcano3D-1.2.0/volcano3D/man/syn_example_p.Rd |only volcano3D-1.2.0/volcano3D/man/volcano_plot.Rd |only volcano3D-1.2.0/volcano3D/man/volcano_trio.Rd |only volcano3D-1.2.0/volcano3D/vignettes/radial_plotly.png |only volcano3D-2.0.0/volcano3D/DESCRIPTION | 27 volcano3D-2.0.0/volcano3D/MD5 | 79 volcano3D-2.0.0/volcano3D/NAMESPACE | 32 volcano3D-2.0.0/volcano3D/NEWS.md | 36 volcano3D-2.0.0/volcano3D/R/add_animation.R |only volcano3D-2.0.0/volcano3D/R/boxplot_trio.R | 150 - volcano3D-2.0.0/volcano3D/R/boxplot_trio_old.R |only volcano3D-2.0.0/volcano3D/R/deseq_polar.R |only volcano3D-2.0.0/volcano3D/R/example_data.R | 44 volcano3D-2.0.0/volcano3D/R/polar_coords.R | 737 +--- volcano3D-2.0.0/volcano3D/R/polar_grid.R | 88 volcano3D-2.0.0/volcano3D/R/radial_ggplot.R | 238 - volcano3D-2.0.0/volcano3D/R/radial_ggplot_old.R |only volcano3D-2.0.0/volcano3D/R/radial_plotly.R | 409 -- volcano3D-2.0.0/volcano3D/R/radial_plotly_old.R |only volcano3D-2.0.0/volcano3D/R/show_grid.R | 42 volcano3D-2.0.0/volcano3D/R/significance_subset.R | 47 volcano3D-2.0.0/volcano3D/R/volcano3D.R | 521 +-- volcano3D-2.0.0/volcano3D/R/volcano3D_old.R |only volcano3D-2.0.0/volcano3D/R/voom_polar.R |only volcano3D-2.0.0/volcano3D/build/vignette.rds |binary volcano3D-2.0.0/volcano3D/data/example_data.rdata |binary volcano3D-2.0.0/volcano3D/inst/WORDLIST | 58 volcano3D-2.0.0/volcano3D/inst/doc/Vignette.R | 178 - volcano3D-2.0.0/volcano3D/inst/doc/Vignette.html | 2682 +++++++++++++----- volcano3D-2.0.0/volcano3D/inst/doc/Vignette.rmd | 348 +- volcano3D-2.0.0/volcano3D/inst/spin_function |only volcano3D-2.0.0/volcano3D/man/add_animation.Rd |only volcano3D-2.0.0/volcano3D/man/boxplot_trio.Rd | 30 volcano3D-2.0.0/volcano3D/man/calc_pvals.Rd |only volcano3D-2.0.0/volcano3D/man/deseq_polar.Rd |only volcano3D-2.0.0/volcano3D/man/polar_coords.Rd | 176 - volcano3D-2.0.0/volcano3D/man/polar_grid.Rd | 22 volcano3D-2.0.0/volcano3D/man/radial_ggplot.Rd | 78 volcano3D-2.0.0/volcano3D/man/radial_plotly.Rd | 100 volcano3D-2.0.0/volcano3D/man/show_grid.Rd | 24 volcano3D-2.0.0/volcano3D/man/significance_subset.Rd | 23 volcano3D-2.0.0/volcano3D/man/syn_example_meta.Rd | 7 volcano3D-2.0.0/volcano3D/man/syn_example_rld.Rd | 4 volcano3D-2.0.0/volcano3D/man/volcano3D.Rd | 167 - volcano3D-2.0.0/volcano3D/man/voom_polar.Rd |only volcano3D-2.0.0/volcano3D/vignettes/Vignette.rmd | 348 +- volcano3D-2.0.0/volcano3D/vignettes/volcano3D.png |binary 49 files changed, 3460 insertions(+), 3235 deletions(-)
Title: Sparse Arrays and Multivariate Polynomials
Description: Sparse arrays interpreted as multivariate polynomials.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between spray versions 1.0-19 dated 2022-01-17 and 1.0-20 dated 2022-07-05
DESCRIPTION | 6 +++--- MD5 | 41 +++++++++++++++++++++-------------------- NAMESPACE | 5 ++++- NEWS.md | 6 +++++- R/spray.R | 17 +++++++++++++++++ build/spray.pdf |binary build/vignette.rds |binary inst/doc/spray.pdf |binary man/Extract.Rd | 13 +++++++------ man/arity.Rd | 3 ++- man/as.array.Rd | 9 ++++----- man/as.function.Rd | 4 ++-- man/constant.Rd | 3 +-- man/deriv.Rd | 4 +--- man/knight.Rd | 5 +++++ man/nterms.Rd | 7 ++++++- man/ooom.Rd | 6 ++---- man/spraycross.Rd | 3 ++- man/subs.Rd | 5 +++-- man/summary.Rd |only man/zap.Rd | 3 +-- man/zero.Rd | 42 +++++++++++++++++++++++++++++++++--------- 22 files changed, 119 insertions(+), 63 deletions(-)
Title: Network Analysis and Causal Inference Through Structural
Equation Modeling
Description: Estimate networks and causal relationships in complex systems through
Structural Equation Modeling. This package also includes functions to import,
weight, manipulate, and fit biological network models within the
Structural Equation Modeling framework described in
Palluzzi and Grassi (2021) <arXiv:2103.08332>.
Author: Mario Grassi [aut],
Fernando Palluzzi [aut],
Barbara Tarantino [aut, cre]
Maintainer: Barbara Tarantino <barbara.tarantino01@universitadipavia.it>
Diff between SEMgraph versions 1.1.1 dated 2022-04-11 and 1.1.2 dated 2022-07-05
SEMgraph-1.1.1/SEMgraph/man/activeModule.Rd |only SEMgraph-1.1.1/SEMgraph/man/corr2graph.Rd |only SEMgraph-1.1.2/SEMgraph/DESCRIPTION | 21 SEMgraph-1.1.2/SEMgraph/MD5 | 72 - SEMgraph-1.1.2/SEMgraph/NAMESPACE | 45 SEMgraph-1.1.2/SEMgraph/NEWS.md | 55 SEMgraph-1.1.2/SEMgraph/R/ALSdata.R | 4 SEMgraph-1.1.2/SEMgraph/R/keggInteractome.R | 5 SEMgraph-1.1.2/SEMgraph/R/keggPathways.R | 6 SEMgraph-1.1.2/SEMgraph/R/sachs.R | 5 SEMgraph-1.1.2/SEMgraph/R/semCluster.R | 387 ++--- SEMgraph-1.1.2/SEMgraph/R/semFit.R |only SEMgraph-1.1.2/SEMgraph/R/semLearn.R | 1113 +++++++++------ SEMgraph-1.1.2/SEMgraph/R/semPaths.R | 1633 +++-------------------- SEMgraph-1.1.2/SEMgraph/R/semUtils.R | 571 +++----- SEMgraph-1.1.2/SEMgraph/R/semWeights.R | 602 +------- SEMgraph-1.1.2/SEMgraph/build/partial.rdb |binary SEMgraph-1.1.2/SEMgraph/data/ALSdata.RData |binary SEMgraph-1.1.2/SEMgraph/data/kegg.RData |binary SEMgraph-1.1.2/SEMgraph/data/kegg.pathways.RData |binary SEMgraph-1.1.2/SEMgraph/data/sachs.RData |binary SEMgraph-1.1.2/SEMgraph/man/SEMace.Rd | 58 SEMgraph-1.1.2/SEMgraph/man/SEMdci.Rd | 47 SEMgraph-1.1.2/SEMgraph/man/SEMrun.Rd | 2 SEMgraph-1.1.2/SEMgraph/man/SEMtree.Rd |only SEMgraph-1.1.2/SEMgraph/man/clusterGraph.Rd | 13 SEMgraph-1.1.2/SEMgraph/man/clusterScore.Rd | 8 SEMgraph-1.1.2/SEMgraph/man/cplot.Rd | 2 SEMgraph-1.1.2/SEMgraph/man/dagitty2graph.Rd |only SEMgraph-1.1.2/SEMgraph/man/graph2dagitty.Rd | 10 SEMgraph-1.1.2/SEMgraph/man/lavaan2graph.Rd | 12 SEMgraph-1.1.2/SEMgraph/man/localCI.test.Rd |only SEMgraph-1.1.2/SEMgraph/man/mergeNodes.Rd | 71 - SEMgraph-1.1.2/SEMgraph/man/orientEdges.Rd | 6 SEMgraph-1.1.2/SEMgraph/man/pairwiseMatrix.Rd | 2 SEMgraph-1.1.2/SEMgraph/man/pathFinder.Rd | 19 SEMgraph-1.1.2/SEMgraph/man/resizeGraph.Rd | 19 SEMgraph-1.1.2/SEMgraph/man/summary.GGM.Rd | 2 SEMgraph-1.1.2/SEMgraph/man/summary.RICF.Rd | 2 SEMgraph-1.1.2/SEMgraph/man/weightGraph.Rd | 77 - 40 files changed, 1800 insertions(+), 3069 deletions(-)
Title: R Client for the Daisi Microservice Platform
Description: Connect, execute, and parse results from the Daisi Microservice Platform <https://www.daisi.io/>. The rdaisi client
includes a set of functionality that allows remote execution of microservices directly from R.
Daisis allow R users to access a wide variety of Python functionality and interact with them natively.
Author: Daisi Technology, Inc. [aut],
Jean-Marie Laigle [aut],
Eric Hare [aut, cre]
Maintainer: Eric Hare <eric.hare@daisi.io>
Diff between rdaisi versions 0.1.1 dated 2022-06-22 and 0.1.2 dated 2022-07-05
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/rdaisi.R | 12 ++++++++++++ 3 files changed, 17 insertions(+), 5 deletions(-)
Title: An R Autograding Extension for Otter-Grader
Description: An R autograding extension for Otter-Grader (<https://otter-grader.readthedocs.io>). It supports
grading R scripts, R Markdown documents, and R Jupyter Notebooks.
Author: Christopher Pyles [aut, cre] ,
UC Berkeley Data Science Education Program [cph]
Maintainer: Christopher Pyles <cpyles@berkeley.edu>
Diff between ottr versions 1.1.5 dated 2022-06-16 and 1.2.0 dated 2022-07-05
ottr-1.1.5/ottr/R/ottr.r |only ottr-1.1.5/ottr/man/VALID_EXPR_CHARS.Rd |only ottr-1.1.5/ottr/man/results_to_json.Rd |only ottr-1.1.5/ottr/man/results_to_list.Rd |only ottr-1.2.0/ottr/DESCRIPTION | 11 ++- ottr-1.2.0/ottr/MD5 | 65 +++++++++++++++------ ottr-1.2.0/ottr/R/GradingResults.R |only ottr-1.2.0/ottr/R/TestCase.R |only ottr-1.2.0/ottr/R/TestCaseResult.R |only ottr-1.2.0/ottr/R/TestFileResult.R |only ottr-1.2.0/ottr/R/check.R |only ottr-1.2.0/ottr/R/execute_script.R |only ottr-1.2.0/ottr/R/export.R |only ottr-1.2.0/ottr/R/grade_script.R |only ottr-1.2.0/ottr/R/load_test_cases.R |only ottr-1.2.0/ottr/R/run_autograder.R |only ottr-1.2.0/ottr/R/update_ast_check_calls.R |only ottr-1.2.0/ottr/R/utils.R |only ottr-1.2.0/ottr/README.md | 3 + ottr-1.2.0/ottr/man/GradingResults.Rd |only ottr-1.2.0/ottr/man/TestCase.Rd | 36 ++++++++++-- ottr-1.2.0/ottr/man/TestCaseResult.Rd | 38 +++++++++++- ottr-1.2.0/ottr/man/TestFileResult.Rd | 78 ++++++++++---------------- ottr-1.2.0/ottr/man/check.Rd | 9 +-- ottr-1.2.0/ottr/man/execute_script.Rd | 16 +++-- ottr-1.2.0/ottr/man/export.Rd | 4 - ottr-1.2.0/ottr/man/grade_script.Rd | 11 +-- ottr-1.2.0/ottr/man/load_test_cases.Rd | 9 +-- ottr-1.2.0/ottr/man/make_secret.Rd | 4 - ottr-1.2.0/ottr/man/run_autograder.Rd | 9 +-- ottr-1.2.0/ottr/man/update_ast_check_calls.Rd | 8 +- ottr-1.2.0/ottr/man/valid_expr_chars.Rd |only ottr-1.2.0/ottr/man/valid_syntax.Rd | 10 ++- ottr-1.2.0/ottr/tests |only 34 files changed, 195 insertions(+), 116 deletions(-)
Title: Analysis of Oceanographic Data
Description: Supports the analysis of Oceanographic data, including 'ADCP'
measurements, measurements made with 'argo' floats, 'CTD' measurements,
sectional data, sea-level time series, coastline and topographic data, etc.
Provides specialized functions for calculating seawater properties such as
potential temperature in either the 'UNESCO' or 'TEOS-10' equation of state.
Produces graphical displays that conform to the conventions of the
Oceanographic literature. This package is discussed extensively by
Kelley (2018) "Oceanographic Analysis with R" <doi:10.1007/978-1-4939-8844-0>.
Author: Dan Kelley [aut, cre] ,
Clark Richards [aut] ,
Chantelle Layton [ctb]
coauthor),
British Geological Survey [ctb, cph]
Maintainer: Dan Kelley <Dan.Kelley@Dal.Ca>
Diff between oce versions 1.7-6 dated 2022-06-11 and 1.7-8 dated 2022-07-05
DESCRIPTION | 6 MD5 | 236 +++++++++++------------ NAMESPACE | 1 NEWS.md | 8 R/RcppExports.R | 4 R/adp.R | 31 +-- R/adp.nortek.R | 26 ++ R/adp.rdi.R | 3 R/adp.sontek.R | 6 R/adv.R | 3 R/adv.nortek.R | 3 R/adv.sontek.R | 31 +-- R/amsr.R | 3 R/argo.R | 3 R/argo.copernicus.R | 3 R/bremen.R | 12 - R/cm.R | 13 - R/coastline.R | 43 ++-- R/ctd.R | 59 +++-- R/ctd.aml.R | 15 - R/ctd.itp.R | 18 + R/ctd.odv.R | 9 R/ctd.sbe.R | 23 +- R/ctd.ssda.R | 15 + R/ctd.woce.R | 24 +- R/echosounder.R | 3 R/extdata.R | 2 R/g1sst.R | 4 R/geod.R | 12 - R/gps.R | 11 - R/index.R | 13 - R/landsat.R | 18 - R/lisst.R | 11 - R/lobo.R | 9 R/met.R | 30 +- R/misc.R | 99 ++++++++- R/oce.R | 131 ++++++------ R/odf.R | 17 + R/rsk.R | 54 +++-- R/sealevel.R | 15 - R/section.R | 9 R/sw.R | 6 R/tides.R | 16 - R/topo.R | 9 R/xbt.R | 368 ++++++++++++++++++------------------ build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 2 inst/doc/A_oce.html | 4 inst/doc/B_ctd.html | 4 inst/doc/C_adp.html | 8 inst/doc/D_map_projections.html | 4 inst/doc/E_flags.html | 4 inst/doc/F_subclassing.html | 18 - man/adp_rdi.000.Rd | 1 man/as.oce.Rd | 4 man/ctd.Rd | 15 - man/ctdRaw.Rd | 15 - man/gappyIndex.Rd |only man/geodDist.Rd | 10 man/oceMagic.Rd | 7 man/read.adp.Rd | 3 man/read.adp.ad2cp.Rd | 3 man/read.adp.nortek.Rd | 3 man/read.adp.rdi.Rd | 3 man/read.adp.sontek.Rd | 3 man/read.adp.sontek.serial.Rd | 3 man/read.adv.Rd | 3 man/read.adv.nortek.Rd | 3 man/read.adv.sontek.adr.Rd | 3 man/read.adv.sontek.serial.Rd | 15 - man/read.adv.sontek.text.Rd | 18 + man/read.amsr.Rd | 4 man/read.aquadopp.Rd | 3 man/read.aquadoppHR.Rd | 3 man/read.aquadoppProfiler.Rd | 3 man/read.argo.Rd | 10 man/read.argo.copernicus.Rd | 10 man/read.bremen.Rd | 7 man/read.cm.Rd | 6 man/read.coastline.Rd | 10 man/read.coastline.openstreetmap.Rd | 9 man/read.coastline.shapefile.Rd | 7 man/read.ctd.Rd | 6 man/read.ctd.aml.Rd | 16 + man/read.ctd.itp.Rd | 6 man/read.ctd.odf.Rd | 6 man/read.ctd.odv.Rd | 6 man/read.ctd.sbe.Rd | 6 man/read.ctd.ssda.Rd | 12 + man/read.ctd.woce.Rd | 6 man/read.ctd.woce.other.Rd | 6 man/read.echosounder.Rd | 3 man/read.g1sst.Rd | 4 man/read.gps.Rd | 13 + man/read.index.Rd | 6 man/read.landsat.Rd | 6 man/read.lisst.Rd | 14 + man/read.lobo.Rd | 7 man/read.met.Rd | 6 man/read.netcdf.Rd | 6 man/read.oce.Rd | 9 man/read.odf.Rd | 6 man/read.rsk.Rd | 3 man/read.sealevel.Rd | 6 man/read.section.Rd | 6 man/read.topo.Rd | 4 man/read.woa.Rd | 11 - man/read.xbt.Rd | 6 man/read.xbt.edf.Rd | 6 man/read.xbt.noaa1.Rd | 6 man/swDepth.Rd | 3 man/swPressure.Rd | 3 man/swZ.Rd | 3 src/RcppExports.cpp | 13 + src/gappy_index.cpp |only src/registerDynamicSymbol.c | 4 tests/testthat/test_ctd.R | 8 tests/testthat/test_misc.R | 4 tests/testthat/test_plotting.R | 6 120 files changed, 1214 insertions(+), 691 deletions(-)
Title: Estimation Methods for Markets in Equilibrium and Disequilibrium
Description: Provides estimation methods for markets in equilibrium and
disequilibrium. Supports the estimation of an equilibrium and
four disequilibrium models with both correlated and independent shocks.
Also provides post-estimation analysis tools, such as aggregation,
marginal effect, and shortage calculations. The estimation methods are
based on full information maximum likelihood techniques given in
Maddala and Nelson (1974) <doi:10.2307/1914215>. They are implemented
using the analytic derivative expressions calculated in
Karapanagiotis (2020) <doi:10.2139/ssrn.3525622>. Standard
errors can be estimated by adjusting for heteroscedasticity or clustering.
The equilibrium estimation constitutes a case of a system of linear,
simultaneous equations. Instead, the disequilibrium models replace the
market-clearing condition with a non-linear,
short-side rule and allow for different specifications of price dynamics.
Author: Pantelis Karapanagiotis [aut, cre]
Maintainer: Pantelis Karapanagiotis <pikappa.devel@gmail.com>
Diff between markets versions 1.0.3 dated 2022-06-03 and 1.0.6 dated 2022-07-05
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Title: Composite Indicator Construction and Analysis
Description: A comprehensive high-level package, for composite indicator construction and analysis. It is a "development environment"
for composite indicators and scoreboards, which includes utilities for construction (indicator selection, denomination, imputation,
data treatment, normalisation, weighting and aggregation) and analysis (multivariate analysis, correlation plotting, short cuts for
principal component analysis, global sensitivity analysis, and more). A composite indicator is completely encapsulated inside a single
hierarchical list called a "coin". This allows a fast and efficient work flow, as well as making quick copies, testing methodological variations and making comparisons.
It also includes many plotting options, both statistical (scatter plots, distribution plots) as well as for presenting results.
Author: William Becker [aut, cre, cph]
Maintainer: William Becker <william.becker@bluefoxdata.eu>
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|only COINr-1.0.0/COINr/man/copeland.Rd | 45 - COINr-1.0.0/COINr/man/corrweightscat.Rd | 58 -- COINr-1.0.0/COINr/man/effectiveWeight.Rd | 41 - COINr-1.0.0/COINr/man/export_to_excel.Rd |only COINr-1.0.0/COINr/man/extractYear.Rd | 83 --- COINr-1.0.0/COINr/man/figures |only COINr-1.0.0/COINr/man/geoMean.Rd | 44 - COINr-1.0.0/COINr/man/geoMean_rescaled.Rd | 51 -- COINr-1.0.0/COINr/man/getCorr.Rd | 73 --- COINr-1.0.0/COINr/man/getCronbach.Rd | 57 -- COINr-1.0.0/COINr/man/getIn.Rd | 97 ---- COINr-1.0.0/COINr/man/getPCA.Rd | 86 --- COINr-1.0.0/COINr/man/getResults.Rd | 73 --- COINr-1.0.0/COINr/man/getStats.Rd | 80 --- COINr-1.0.0/COINr/man/getStrengthNWeak.Rd | 115 ---- COINr-1.0.0/COINr/man/getUnitReport.Rd | 80 --- COINr-1.0.0/COINr/man/getUnitSummary.Rd | 52 -- COINr-1.0.0/COINr/man/get_PCA.Rd |only COINr-1.0.0/COINr/man/get_corr.Rd |only COINr-1.0.0/COINr/man/get_corr_flags.Rd |only COINr-1.0.0/COINr/man/get_cronbach.Rd |only COINr-1.0.0/COINr/man/get_data.Rd |only 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| 61 -- COINr-1.0.0/COINr/man/i_mean.Rd |only COINr-1.0.0/COINr/man/i_mean_grp.Rd |only COINr-1.0.0/COINr/man/i_median.Rd |only COINr-1.0.0/COINr/man/i_median_grp.Rd |only COINr-1.0.0/COINr/man/images |only COINr-1.0.0/COINr/man/import_coin_tool.Rd |only COINr-1.0.0/COINr/man/impute_panel.Rd |only COINr-1.0.0/COINr/man/indChange.Rd | 58 -- COINr-1.0.0/COINr/man/indDash.Rd | 46 - COINr-1.0.0/COINr/man/iplotBar.Rd | 69 -- COINr-1.0.0/COINr/man/iplotCorr.Rd | 85 --- COINr-1.0.0/COINr/man/iplotIndDist.Rd | 57 -- COINr-1.0.0/COINr/man/iplotIndDist2.Rd | 56 -- COINr-1.0.0/COINr/man/iplotMap.Rd | 50 -- COINr-1.0.0/COINr/man/iplotRadar.Rd | 76 --- COINr-1.0.0/COINr/man/iplotTable.Rd | 67 -- COINr-1.0.0/COINr/man/is.coin.Rd |only COINr-1.0.0/COINr/man/is.purse.Rd |only COINr-1.0.0/COINr/man/kurt.Rd |only COINr-1.0.0/COINr/man/log_CT.Rd |only COINr-1.0.0/COINr/man/log_CT_orig.Rd |only COINr-1.0.0/COINr/man/log_GII.Rd |only COINr-1.0.0/COINr/man/loggish.Rd | 59 -- COINr-1.0.0/COINr/man/n_borda.Rd |only COINr-1.0.0/COINr/man/n_dist2max.Rd |only COINr-1.0.0/COINr/man/n_dist2ref.Rd |only COINr-1.0.0/COINr/man/n_dist2targ.Rd |only COINr-1.0.0/COINr/man/n_fracmax.Rd |only COINr-1.0.0/COINr/man/n_goalposts.Rd |only COINr-1.0.0/COINr/man/n_minmax.Rd |only COINr-1.0.0/COINr/man/n_prank.Rd |only COINr-1.0.0/COINr/man/n_rank.Rd |only COINr-1.0.0/COINr/man/n_scaled.Rd |only COINr-1.0.0/COINr/man/n_zscore.Rd |only COINr-1.0.0/COINr/man/names2Codes.Rd | 46 - COINr-1.0.0/COINr/man/names_to_codes.Rd |only COINr-1.0.0/COINr/man/new_coin.Rd |only COINr-1.0.0/COINr/man/noisyWeights.Rd | 67 -- COINr-1.0.0/COINr/man/outrankMatrix.Rd | 71 +- COINr-1.0.0/COINr/man/plotCorr.Rd | 118 ---- COINr-1.0.0/COINr/man/plotIndDist.Rd | 66 -- COINr-1.0.0/COINr/man/plotIndDot.Rd | 81 --- COINr-1.0.0/COINr/man/plotSA.Rd | 71 -- COINr-1.0.0/COINr/man/plotSARanks.Rd | 88 --- COINr-1.0.0/COINr/man/plot_bar.Rd |only COINr-1.0.0/COINr/man/plot_corr.Rd |only COINr-1.0.0/COINr/man/plot_dist.Rd |only COINr-1.0.0/COINr/man/plot_dot.Rd |only COINr-1.0.0/COINr/man/plot_framework.Rd |only COINr-1.0.0/COINr/man/plot_scatter.Rd |only COINr-1.0.0/COINr/man/plot_sensitivity.Rd |only COINr-1.0.0/COINr/man/plot_uncertainty.Rd |only COINr-1.0.0/COINr/man/plotframework.Rd | 44 - COINr-1.0.0/COINr/man/print.coin.Rd |only COINr-1.0.0/COINr/man/print.purse.Rd |only COINr-1.0.0/COINr/man/qNormalise.Rd |only COINr-1.0.0/COINr/man/qNormalise.coin.Rd |only COINr-1.0.0/COINr/man/qNormalise.data.frame.Rd |only COINr-1.0.0/COINr/man/qNormalise.purse.Rd |only COINr-1.0.0/COINr/man/qTreat.Rd |only COINr-1.0.0/COINr/man/qTreat.coin.Rd |only COINr-1.0.0/COINr/man/qTreat.data.frame.Rd |only COINr-1.0.0/COINr/man/qTreat.purse.Rd |only COINr-1.0.0/COINr/man/rankDF.Rd | 52 -- COINr-1.0.0/COINr/man/rank_df.Rd |only COINr-1.0.0/COINr/man/removeElements.Rd | 83 --- COINr-1.0.0/COINr/man/remove_elements.Rd |only COINr-1.0.0/COINr/man/replaceDF.Rd | 56 -- COINr-1.0.0/COINr/man/replace_df.Rd |only COINr-1.0.0/COINr/man/resultsDash.Rd | 54 -- COINr-1.0.0/COINr/man/rew8r.Rd | 65 -- COINr-1.0.0/COINr/man/roundDF.Rd | 42 - COINr-1.0.0/COINr/man/round_df.Rd |only COINr-1.0.0/COINr/man/sensitivity.Rd | 113 ---- COINr-1.0.0/COINr/man/signif_df.Rd |only COINr-1.0.0/COINr/man/skew.Rd |only COINr-1.0.0/COINr/man/weightOpt.Rd | 80 --- COINr-1.0.0/COINr/man/winsorise.Rd |only COINr-1.0.0/COINr/tests |only COINr-1.0.0/COINr/vignettes/SA_results.RDS |only COINr-1.0.0/COINr/vignettes/UA_results.RDS |only COINr-1.0.0/COINr/vignettes/adjustments.Rmd |only COINr-1.0.0/COINr/vignettes/aggregate.Rmd |only COINr-1.0.0/COINr/vignettes/analysis.Rmd |only COINr-1.0.0/COINr/vignettes/coins.Rmd |only COINr-1.0.0/COINr/vignettes/data_selection.Rmd |only COINr-1.0.0/COINr/vignettes/denomination.Rmd |only COINr-1.0.0/COINr/vignettes/imputation.Rmd |only COINr-1.0.0/COINr/vignettes/normalise.Rmd |only COINr-1.0.0/COINr/vignettes/other_functions.Rmd |only COINr-1.0.0/COINr/vignettes/overview.Rmd |only COINr-1.0.0/COINr/vignettes/panel_data.Rmd |only COINr-1.0.0/COINr/vignettes/results.Rmd |only COINr-1.0.0/COINr/vignettes/screening.Rmd |only COINr-1.0.0/COINr/vignettes/sensitivity.Rmd |only COINr-1.0.0/COINr/vignettes/treat.Rmd |only COINr-1.0.0/COINr/vignettes/v1.Rmd |only COINr-1.0.0/COINr/vignettes/visualisation.Rmd |only COINr-1.0.0/COINr/vignettes/weights.Rmd |only 348 files changed, 1507 insertions(+), 3282 deletions(-)
Title: Helpers for Model Coefficients Tibbles
Description: Provides suite of functions to work with regression model
'broom::tidy()' tibbles. The suite includes functions to group
regression model terms by variable, insert reference and header rows
for categorical variables, add variable labels, and more.
Author: Joseph Larmarange [aut, cre] ,
Daniel D. Sjoberg [aut]
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between broom.helpers versions 1.7.0 dated 2022-04-22 and 1.8.0 dated 2022-07-05
DESCRIPTION | 20 - MD5 | 102 ++++---- NAMESPACE | 18 + NEWS.md | 18 + R/model_compute_terms_contributions.R | 2 R/model_get_assign.R | 6 R/model_get_coefficients_type.R | 40 ++- R/model_get_contrasts.R | 5 R/model_get_model_frame.R | 22 + R/model_get_model_matrix.R | 22 + R/model_get_n.R | 6 R/model_get_response.R | 7 R/model_get_terms.R | 6 R/model_get_weights.R | 7 R/model_get_xlevels.R | 18 + R/model_identify_variables.R | 6 R/select_helpers.R | 2 R/select_utilities.R | 20 + R/tidy_add_header_rows.R | 2 R/tidy_add_n.R | 2 R/tidy_add_reference_rows.R | 2 R/tidy_add_term_labels.R | 2 R/tidy_and_attach.R | 2 R/tidy_plus_plus.R | 63 ++--- data/supported_models.rda |binary inst/WORDLIST | 1 inst/doc/tidy.html | 359 +++++++++++++++++-------------- man/dot-generic_selector.Rd | 7 man/model_compute_terms_contributions.Rd | 2 man/model_get_assign.Rd | 3 man/model_get_coefficients_type.Rd | 9 man/model_get_contrasts.Rd | 3 man/model_get_model_frame.Rd | 9 man/model_get_model_matrix.Rd | 9 man/model_get_n.Rd | 3 man/model_get_response.Rd | 3 man/model_get_terms.Rd | 3 man/model_get_weights.Rd | 3 man/model_get_xlevels.Rd | 3 man/model_identify_variables.Rd | 3 man/select_helpers.Rd | 2 man/supported_models.Rd | 53 ++-- man/tidy_add_header_rows.Rd | 2 man/tidy_add_n.Rd | 2 man/tidy_add_reference_rows.Rd | 2 man/tidy_add_term_labels.Rd | 2 man/tidy_plus_plus.Rd | 63 ++--- tests/testthat/test-add_header_rows.R | 20 - tests/testthat/test-add_reference_rows.R | 73 ++++-- tests/testthat/test-assert_package.R | 6 tests/testthat/test-model_get_n.R | 19 + tests/testthat/test-tidy_plus_plus.R | 84 +++++++ 52 files changed, 780 insertions(+), 368 deletions(-)
Title: Classification of RNA Sequences using Complex Network and
Information Theory
Description: It makes the creation of networks from sequences of RNA, with this is done the abstraction of characteristics of these networks with a methodology of maximum entropy for the purpose of making a classification between the classes of the sequences. There are two data present in the 'BASiNET' package, "mRNA", and "ncRNA" with 100 sequences. These sequences were taken from the data set used in the article (LI, Aimin; ZHANG, Junying; ZHOU, Zhongyin, 2014) <doi:10.1186/1471-2105-15-311>, these sequences are used to run examples.
Author: Murilo Montanini Breve [aut] ,
Matheus Henrique Pimenta-Zanon [aut]
,
Fabricio Martins Lopes [aut, cre]
Maintainer: Fabricio Martins Lopes <fabricio@utfpr.edu.br>
Diff between BASiNETEntropy versions 0.99.2 dated 2022-03-25 and 0.99.3 dated 2022-07-05
DESCRIPTION | 8 ++-- MD5 | 20 ++++++------ NAMESPACE | 2 + R/classify.R | 1 R/curveofentropy.R | 1 R/training.R | 1 build/vignette.rds |binary inst/doc/BASiNETEntropy.Rmd | 6 +-- inst/doc/BASiNETEntropy.html | 70 ++++++++++++++++++++++++++++++------------- man/classify.Rd | 1 vignettes/BASiNETEntropy.Rmd | 6 +-- 11 files changed, 74 insertions(+), 42 deletions(-)
More information about BASiNETEntropy at CRAN
Permanent link
Title: Breeding Program Simulations
Description: The successor to the 'AlphaSim' software for breeding program
simulation [Faux et al. (2016) <doi:10.3835/plantgenome2016.02.0013>].
Used for stochastic simulations of breeding programs to the level of DNA
sequence for every individual. Contained is a wide range of functions for
modeling common tasks in a breeding program, such as selection and crossing.
These functions allow for constructing simulations of highly complex plant and
animal breeding programs via scripting in the R software environment. Such
simulations can be used to evaluate overall breeding program performance and
conduct research into breeding program design, such as implementation of
genomic selection. Included is the 'Markovian Coalescent Simulator' ('MaCS')
for fast simulation of biallelic sequences according to a population
demographic history [Chen et al. (2009) <doi:10.1101/gr.083634.108>].
Author: Chris Gaynor [aut, cre] ,
Gregor Gorjanc [ctb] ,
John Hickey [ctb] ,
Daniel Money [ctb] ,
David Wilson [ctb],
Thiago Oliveira [ctb]
Maintainer: Chris Gaynor <gaynor.robert@hotmail.com>
Diff between AlphaSimR versions 1.2 dated 2022-06-15 and 1.2.1 dated 2022-07-05
AlphaSimR-1.2.1/AlphaSimR/DESCRIPTION | 8 AlphaSimR-1.2.1/AlphaSimR/MD5 | 33 ++- AlphaSimR-1.2.1/AlphaSimR/NEWS | 6 AlphaSimR-1.2.1/AlphaSimR/R/Class-SimParam.R | 11 - AlphaSimR-1.2.1/AlphaSimR/R/RcppExports.R | 4 AlphaSimR-1.2.1/AlphaSimR/R/misc.R | 104 ------------ AlphaSimR-1.2.1/AlphaSimR/R/pullGeno.R | 4 AlphaSimR-1.2.1/AlphaSimR/R/writePlink.R |only AlphaSimR-1.2.1/AlphaSimR/inst/doc/intro.html | 6 AlphaSimR-1.2.1/AlphaSimR/inst/doc/traits.pdf |binary AlphaSimR-1.2.1/AlphaSimR/man/dot-newPop.Rd | 108 ++++++------ AlphaSimR-1.2.1/AlphaSimR/man/importGenMap.Rd | 64 +++---- AlphaSimR-1.2.1/AlphaSimR/man/importHaplo.Rd | 110 ++++++------- AlphaSimR-1.2.1/AlphaSimR/man/importInbredGeno.Rd | 108 ++++++------ AlphaSimR-1.2.1/AlphaSimR/man/pullMarkerHaplo.Rd | 94 +++++------ AlphaSimR-1.2.1/AlphaSimR/man/writePlink.Rd | 66 ++++--- AlphaSimR-1.2.1/AlphaSimR/src/RcppExports.cpp | 16 - AlphaSimR-1.2.1/AlphaSimR/tests/testthat/test-importData.R |only AlphaSimR-1.2/AlphaSimR/src/plink.cpp |only 19 files changed, 315 insertions(+), 427 deletions(-)
Title: Tools for Spatial Data
Description: For curve, surface and function fitting with an emphasis
on splines, spatial data, geostatistics, and spatial statistics. The major methods
include cubic, and thin plate splines, Kriging, and compactly supported
covariance functions for large data sets. The splines and Kriging methods are
supported by functions that can determine the smoothing parameter
(nugget and sill variance) and other covariance function parameters by cross
validation and also by restricted maximum likelihood. For Kriging
there is an easy to use function that also estimates the correlation
scale (range parameter). A major feature is that any covariance function
implemented in R and following a simple format can be used for
spatial prediction. There are also many useful functions for plotting
and working with spatial data as images. This package also contains
an implementation of sparse matrix methods for large spatial data
sets and currently requires the sparse matrix (spam) package. Use
help(fields) to get started and for an overview. The fields source
code is deliberately commented and provides useful explanations of
numerical details as a companion to the manual pages. The commented
source code can be viewed by expanding the source code version
and looking in the R subdirectory. The reference for fields can be generated
by the citation function in R and has DOI <doi:10.5065/D6W957CT>. Development
of this package was supported in part by the National Science Foundation Grant
1417857, the National Center for Atmospheric Research, and Colorado School of Mines.
See the Fields URL
for a vignette on using this package and some background on spatial statistics.
Author: Douglas Nychka [aut, cre],
Reinhard Furrer [aut],
John Paige [aut],
Stephan Sain [aut],
Florian Gerber [aut],
Matthew Iverson [aut],
University Corporation for Atmospheric Research [cph]
Maintainer: Douglas Nychka <douglasnychka@gmail.com>
Diff between fields versions 13.3 dated 2021-10-30 and 14.0 dated 2022-07-05
fields-13.3/fields/R/sim.Krig.approx.R |only fields-13.3/fields/R/sim.mKrig.approx.R |only fields-13.3/fields/R/simLocal.mKrig.R |only fields-14.0/fields/DESCRIPTION | 10 - fields-14.0/fields/MD5 | 70 +++---- fields-14.0/fields/R/addMarginsGridList.R |only fields-14.0/fields/R/as.surface.R | 5 fields-14.0/fields/R/bplot.family.R | 40 ++-- fields-14.0/fields/R/bubblePlot.R | 142 ++++---------- fields-14.0/fields/R/circulantEmbeddingSetup.R | 12 + fields-14.0/fields/R/compactToMat.R | 2 fields-14.0/fields/R/fastTps.R | 3 fields-14.0/fields/R/mKrigFastPredict.R |only fields-14.0/fields/R/mKrigFastPredictSetup.R |only fields-14.0/fields/R/mKrigMLEJoint.R | 2 fields-14.0/fields/R/offGridWeights.R | 5 fields-14.0/fields/R/predictSurface.family.R | 19 - fields-14.0/fields/R/predictSurface.mKrig.R |only fields-14.0/fields/R/simLocal.spatialProcess.R |only fields-14.0/fields/R/stationary.image.cov.R | 4 fields-14.0/fields/R/surface.family.R | 4 fields-14.0/fields/R/unrollZGrid.R | 2 fields-14.0/fields/data/datalist | 1 fields-14.0/fields/data/glacier.rda |only fields-14.0/fields/man/CO2.Rd | 4 fields-14.0/fields/man/Exponential.Rd | 4 fields-14.0/fields/man/Tps.Rd | 4 fields-14.0/fields/man/bplot.xy.Rd | 5 fields-14.0/fields/man/fields-internal.Rd | 13 - fields-14.0/fields/man/glacier.Rd |only fields-14.0/fields/man/image.cov.Rd | 17 + fields-14.0/fields/man/interp.surface.Rd | 2 fields-14.0/fields/man/mKrig.Rd | 42 +++- fields-14.0/fields/man/offGridWeights.Rd | 85 +++++--- fields-14.0/fields/man/predict.Krig.Rd | 4 fields-14.0/fields/man/predictSurface.Rd | 163 ++++++++++++++-- fields-14.0/fields/man/sim.Krig.Rd | 241 +++++++++---------------- fields-14.0/fields/man/sim.rf.Rd | 11 - fields-14.0/fields/man/spatialProcess.Rd | 28 -- fields-14.0/fields/tests/Krig.Z.test.R | 10 - fields-14.0/fields/tests/mKrig.test.R | 2 41 files changed, 499 insertions(+), 457 deletions(-)
Title: A Method to Download Department of Education College Scorecard
Data
Description: A method to download Department of Education College
Scorecard data using the public API
<https://collegescorecard.ed.gov/data/documentation/>. It is based on
the 'dplyr' model of piped commands to select and filter data in a
single chained function call. An API key from the U.S. Department of
Education is required.
Author: Benjamin Skinner [aut, cre]
Maintainer: Benjamin Skinner <btskinner@coe.ufl.edu>
Diff between rscorecard versions 0.22.0 dated 2022-03-25 and 0.23.0 dated 2022-07-05
DESCRIPTION | 11 +++++------ MD5 | 6 +++--- NEWS.md | 4 ++++ R/sysdata.rda |binary 4 files changed, 12 insertions(+), 9 deletions(-)
Title: Common S3 Generics not Provided by Base R Methods Related to
Model Fitting
Description: In order to reduce potential package dependencies and
conflicts, generics provides a number of commonly used S3 generics.
Author: Hadley Wickham [aut, cre],
Max Kuhn [aut],
Davis Vaughan [aut],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between generics versions 0.1.2 dated 2022-01-31 and 0.1.3 dated 2022-07-05
DESCRIPTION | 35 +++++++++++++---------------------- MD5 | 22 ++++++++++++---------- NAMESPACE | 1 + NEWS.md | 6 +++--- R/generics-package.R | 4 ++++ R/rank_results.R |only R/tunable.R | 2 +- R/tune_args.R | 2 +- README.md | 16 +++++++--------- build/generics.pdf |binary man/rank_results.Rd |only man/tunable.Rd | 2 +- man/tune_args.Rd | 2 +- 13 files changed, 44 insertions(+), 48 deletions(-)
Title: Fast Computation of some Matrices Useful in Statistics
Description: Small set of functions to fast computation of some matrices and operations
useful in statistics and econometrics. Currently, there are functions for efficient
computation of duplication, commutation and symmetrizer matrices with minimal storage
requirements. Some commonly used matrix decompositions (LU and LDL), basic matrix
operations (for instance, Hadamard, Kronecker products and the Sherman-Morrison formula)
and iterative solvers for linear systems are also available. In addition, the package
includes a number of common statistical procedures such as the sweep operator, weighted
mean and covariance matrix using an online algorithm, linear regression (using Cholesky,
QR, SVD, sweep operator and conjugate gradients methods), ridge regression (with optimal
selection of the ridge parameter considering several procedures), functions to compute
the multivariate skewness, kurtosis, Mahalanobis distance (checking the positive
defineteness) and the Wilson-Hilferty transformation of chi squared variables. Furthermore,
the package provides interfaces to C code callable by another C code from other R packages.
Author: Felipe Osorio [aut, cre] ,
Alonso Ogueda [aut]
Maintainer: Felipe Osorio <felipe.osorios@usm.cl>
Diff between fastmatrix versions 0.4-1 dated 2022-04-21 and 0.4-12 dated 2022-07-05
fastmatrix-0.4-1/fastmatrix/src/blas_extra.f |only fastmatrix-0.4-12/fastmatrix/ChangeLog | 8 + fastmatrix-0.4-12/fastmatrix/DESCRIPTION | 8 - fastmatrix-0.4-12/fastmatrix/MD5 | 36 ++++--- fastmatrix-0.4-12/fastmatrix/NAMESPACE | 28 +++-- fastmatrix-0.4-12/fastmatrix/R/corStruct.R |only fastmatrix-0.4-12/fastmatrix/R/harris.R |only fastmatrix-0.4-12/fastmatrix/R/polymat.R |only fastmatrix-0.4-12/fastmatrix/inst/CITATION | 4 fastmatrix-0.4-12/fastmatrix/inst/include/fastmatrix.h | 15 ++- fastmatrix-0.4-12/fastmatrix/inst/include/fastmatrix_API.h | 63 ++++++++++++- fastmatrix-0.4-12/fastmatrix/man/corAR1.Rd |only fastmatrix-0.4-12/fastmatrix/man/corCS.Rd |only fastmatrix-0.4-12/fastmatrix/man/harris.test.Rd |only fastmatrix-0.4-12/fastmatrix/man/matrix.polynomial.Rd |only fastmatrix-0.4-12/fastmatrix/src/R_init_fastmatrix.c | 14 ++ fastmatrix-0.4-12/fastmatrix/src/cor_struct.c |only fastmatrix-0.4-12/fastmatrix/src/cov.c | 43 +++++++- fastmatrix-0.4-12/fastmatrix/src/fastmatrix.h | 41 ++++++-- fastmatrix-0.4-12/fastmatrix/src/omo.f |only fastmatrix-0.4-12/fastmatrix/src/omo_wrappers.c |only fastmatrix-0.4-12/fastmatrix/src/polymat.c |only fastmatrix-0.4-12/fastmatrix/src/sort.c |only fastmatrix-0.4-12/fastmatrix/src/stats.c |only fastmatrix-0.4-12/fastmatrix/src/stats_API.c | 42 +++----- fastmatrix-0.4-12/fastmatrix/src/utils.c | 20 ---- 26 files changed, 226 insertions(+), 96 deletions(-)
Title: R Markdown Templates for Journal of Data Science
Description: Customized R Markdown templates for authoring articles
for Journal of Data Science.
Author: Wenjie Wang [aut, cre] ,
Jun Yan [aut]
Maintainer: Wenjie Wang <wang@wwenjie.org>
Diff between jds.rmd versions 0.3.0 dated 2021-09-15 and 0.3.1 dated 2022-07-05
DESCRIPTION | 8 MD5 | 8 NEWS.md | 7 README.md | 6 inst/rmarkdown/templates/pdf_article/resources/jdsart.cls | 146 ++++++++------ 5 files changed, 107 insertions(+), 68 deletions(-)
Title: Tools for Analysing and Visualising Viva Insights Data
Description: Opinionated functions that enable easier and faster
analysis of Viva Insights data. There are three main types of functions in 'wpa':
(i) Standard functions create a 'ggplot' visual or a summary table based on a specific
Viva Insights metric; (2) Report Generation functions generate HTML reports on
a specific analysis area, e.g. Collaboration; (3) Other miscellaneous functions cover
more specific applications (e.g. Subject Line text mining) of Viva Insights data.
This package adheres to 'tidyverse' principles and works well with the pipe syntax.
'wpa' is built with the beginner-to-intermediate R users in mind, and is optimised for
simplicity.
Author: Martin Chan [aut, cre],
Carlos Morales [aut],
Mark Powers [ctb],
Ainize Cidoncha [ctb],
Rosamary Ochoa Vargas [ctb],
Tannaz Sattari [ctb],
Lucas Hogner [ctb],
Jasminder Thind [ctb],
Simone Liebal [ctb],
Aleksey Ashikhmin [ctb],
Ellen Trinklein [ctb], [...truncated...]
Maintainer: Martin Chan <martin.chan@microsoft.com>
Diff between wpa versions 1.7.0 dated 2022-06-09 and 1.8.0 dated 2022-07-05
DESCRIPTION | 9 - MD5 | 200 +++++++++++++++------------- NAMESPACE | 9 + NEWS.md | 277 ++++++++++++++++++++-------------------- R/create_dt.R | 19 ++ R/extermal_line.R |only R/external_dist.R |only R/external_fizz.R |only R/external_rank.R |only R/external_sum.R |only R/flex_index.R | 25 +++ R/globals.R | 5 R/identify_datefreq.R |only R/plot_flex_index.R | 220 +++++++++++++++++++++++-------- R/plot_hourly_pat.R |only R/supporting_functions.R | 16 ++ R/workpatterns_area.R | 8 - R/workpatterns_classify.R | 63 ++++++--- R/workpatterns_classify_bw.R | 227 +++++++++++++++++++++++--------- R/workpatterns_hclust.R | 8 - R/workpatterns_rank.R | 231 +++++++++++++++++++++++---------- R/workpatterns_report.R | 14 +- README.md | 1 man/afterhours_dist.Rd | 8 + man/afterhours_fizz.Rd | 8 + man/afterhours_line.Rd | 8 + man/afterhours_rank.Rd | 8 + man/afterhours_summary.Rd | 8 + man/afterhours_trend.Rd | 8 + man/collaboration_area.Rd | 5 man/collaboration_dist.Rd | 5 man/collaboration_fizz.Rd | 5 man/collaboration_line.Rd | 5 man/collaboration_rank.Rd | 5 man/collaboration_sum.Rd | 5 man/collaboration_trend.Rd | 5 man/create_bar.Rd | 5 man/create_bar_asis.Rd | 5 man/create_boxplot.Rd | 5 man/create_bubble.Rd | 5 man/create_dist.Rd | 5 man/create_dt.Rd | 5 man/create_fizz.Rd | 5 man/create_inc.Rd | 5 man/create_line.Rd | 5 man/create_line_asis.Rd | 5 man/create_period_scatter.Rd | 5 man/create_rank.Rd | 5 man/create_sankey.Rd | 5 man/create_scatter.Rd | 5 man/create_stacked.Rd | 5 man/create_tracking.Rd | 5 man/create_trend.Rd | 5 man/email_dist.Rd | 5 man/email_fizz.Rd | 5 man/email_line.Rd | 5 man/email_rank.Rd | 5 man/email_summary.Rd | 5 man/email_trend.Rd | 5 man/external_dist.Rd |only man/external_fizz.Rd |only man/external_line.Rd |only man/external_network_plot.Rd | 5 man/external_rank.Rd |only man/external_sum.Rd |only man/flex_index.Rd | 13 + man/hr_trend.Rd | 5 man/hrvar_count.Rd | 5 man/hrvar_trend.Rd | 5 man/identify_datefreq.Rd |only man/internal_network_plot.Rd | 5 man/keymetrics_scan.Rd | 5 man/meeting_dist.Rd | 5 man/meeting_fizz.Rd | 5 man/meeting_line.Rd | 5 man/meeting_quality.Rd | 5 man/meeting_rank.Rd | 5 man/meeting_summary.Rd | 5 man/meeting_trend.Rd | 5 man/meetingtype_dist.Rd | 5 man/meetingtype_dist_ca.Rd | 5 man/meetingtype_dist_mt.Rd | 5 man/meetingtype_summary.Rd | 5 man/mgrcoatt_dist.Rd | 5 man/mgrrel_matrix.Rd | 5 man/one2one_dist.Rd | 5 man/one2one_fizz.Rd | 5 man/one2one_freq.Rd | 5 man/one2one_line.Rd | 5 man/one2one_rank.Rd | 5 man/one2one_sum.Rd | 5 man/one2one_trend.Rd | 5 man/pad2.Rd |only man/period_change.Rd | 5 man/plot_flex_index.Rd | 5 man/plot_hourly_pat.Rd |only man/workloads_dist.Rd | 5 man/workloads_fizz.Rd | 5 man/workloads_line.Rd | 5 man/workloads_rank.Rd | 5 man/workloads_summary.Rd | 5 man/workloads_trend.Rd | 5 man/workpatterns_area.Rd | 5 man/workpatterns_classify.Rd | 58 +++++--- man/workpatterns_classify_bw.Rd | 5 man/workpatterns_rank.Rd | 26 +++ man/workpatterns_report.Rd | 3 tests |only 108 files changed, 1317 insertions(+), 493 deletions(-)
Title: Modeling Workflows
Description: Managing both a 'parsnip' model and a preprocessor, such as a
model formula or recipe from 'recipes', can often be challenging. The
goal of 'workflows' is to streamline this process by bundling the
model alongside the preprocessor, all within the same object.
Author: Davis Vaughan [aut, cre],
RStudio [cph, fnd]
Maintainer: Davis Vaughan <davis@rstudio.com>
Diff between workflows versions 0.2.6 dated 2022-03-18 and 1.0.0 dated 2022-07-05
DESCRIPTION | 24 +++---- MD5 | 56 +++++++++--------- NAMESPACE | 3 NEWS.md | 8 ++ R/action.R | 35 +++++++++-- R/fit-action-model.R | 56 ++++++++++++++---- R/pre-action-case-weights.R |only R/pre-action-formula.R | 13 +++- R/pre-action-recipe.R | 70 ++++++++++++++++++++++- R/pre-action-variables.R | 13 +++- R/stage.R | 28 +++++++-- R/utils.R | 4 + R/workflow.R | 23 +++++++ build/vignette.rds |binary inst/doc/stages.html | 7 +- man/add_case_weights.Rd |only man/add_formula.Rd | 60 +++++++++++++------ man/add_model.Rd | 24 +++++-- man/extract-workflow.Rd | 8 +- man/fit-workflow.Rd | 24 +++++-- man/workflow.Rd | 24 +++++-- man/workflows-package.Rd | 2 tests/testthat/_snaps/pre-action-case-weights.md |only tests/testthat/_snaps/printing.md | 33 ++++++++++ tests/testthat/test-pre-action-case-weights.R |only tests/testthat/test-pre-action-formula.R | 10 +++ tests/testthat/test-pre-action-recipe.R | 12 +++ tests/testthat/test-pre-action-variables.R | 10 +++ tests/testthat/test-printing.R | 19 ++++++ tests/testthat/test-workflow.R | 6 - vignettes/extras/getting-started.Rmd | 31 ---------- 31 files changed, 458 insertions(+), 145 deletions(-)
Title: Business Process Analysis in R
Description: Comprehensive Business Process Analysis toolkit. Creates S3-class for event log objects, and related handler functions. Imports related packages for filtering event data, computation of descriptive statistics, handling of 'Petri Net' objects and visualization of process maps. See also packages 'edeaR','processmapR', 'eventdataR' and 'processmonitR'.
Author: Gert Janssenswillen [aut, cre],
Gerard van Hulzen [ctb],
Felix Mannhardt [ctb],
Niels Martin [ctb],
Greg Van Houdt [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between bupaR versions 0.4.4 dated 2020-06-17 and 0.5.0 dated 2022-07-05
bupaR-0.4.4/bupaR/R/arrange.eventlog.R |only bupaR-0.4.4/bupaR/R/fill.eventlog.R |only bupaR-0.4.4/bupaR/R/group_by.eventlog.R |only bupaR-0.4.4/bupaR/R/lifecycle_ids.R |only bupaR-0.4.4/bupaR/R/mutate.eventlog.R |only bupaR-0.4.4/bupaR/R/sample_n.eventlog.R |only bupaR-0.4.4/bupaR/R/set_eventlog_attributes.R |only bupaR-0.4.4/bupaR/R/slice.eventlog.R |only bupaR-0.4.4/bupaR/R/summarize.eventlog.R |only bupaR-0.4.4/bupaR/man/lifecycle_ids.Rd |only bupaR-0.4.4/bupaR/man/print.eventlog.Rd |only bupaR-0.5.0/bupaR/DESCRIPTION | 25 bupaR-0.5.0/bupaR/MD5 | 346 ++++++---- bupaR-0.5.0/bupaR/NAMESPACE | 167 +++- bupaR-0.5.0/bupaR/R/act_collapse.R | 137 +-- bupaR-0.5.0/bupaR/R/act_recode.R | 25 bupaR-0.5.0/bupaR/R/act_unite.R | 20 bupaR-0.5.0/bupaR/R/activities.R | 74 -- bupaR-0.5.0/bupaR/R/activities_to_eventlog.R | 40 - bupaR-0.5.0/bupaR/R/activity_id.R | 24 bupaR-0.5.0/bupaR/R/activity_instance_id.R | 2 bupaR-0.5.0/bupaR/R/activity_labels.R |only bupaR-0.5.0/bupaR/R/activitylog.R | 59 + bupaR-0.5.0/bupaR/R/add_start_end_activity.R | 70 +- bupaR-0.5.0/bupaR/R/arrange.R |only bupaR-0.5.0/bupaR/R/assign_instance_id.R | 8 bupaR-0.5.0/bupaR/R/bupar.R | 9 bupaR-0.5.0/bupaR/R/case_id.r | 6 bupaR-0.5.0/bupaR/R/case_labels.R |only bupaR-0.5.0/bupaR/R/case_list.R | 61 + bupaR-0.5.0/bupaR/R/cases.r | 107 +-- bupaR-0.5.0/bupaR/R/durations.R | 70 +- bupaR-0.5.0/bupaR/R/eventlog.R | 13 bupaR-0.5.0/bupaR/R/events_to_activitylog.R | 13 bupaR-0.5.0/bupaR/R/fill.R |only bupaR-0.5.0/bupaR/R/filter.R | 58 + bupaR-0.5.0/bupaR/R/filter_attributes.R | 24 bupaR-0.5.0/bupaR/R/first_n.R | 59 + bupaR-0.5.0/bupaR/R/group_by.R |only bupaR-0.5.0/bupaR/R/group_by_activity.R |only bupaR-0.5.0/bupaR/R/group_by_activity_instance.R |only bupaR-0.5.0/bupaR/R/group_by_case.R |only bupaR-0.5.0/bupaR/R/group_by_ids.R |only bupaR-0.5.0/bupaR/R/group_by_resource.R |only bupaR-0.5.0/bupaR/R/group_by_resource_activity.R |only bupaR-0.5.0/bupaR/R/grouped_activitylog.R |only bupaR-0.5.0/bupaR/R/grouped_eventlog.R |only bupaR-0.5.0/bupaR/R/grouped_log.R |only bupaR-0.5.0/bupaR/R/grouping_helpers.R |only bupaR-0.5.0/bupaR/R/last_n.R | 71 +- bupaR-0.5.0/bupaR/R/lifecycle_id.R | 16 bupaR-0.5.0/bupaR/R/lifecycle_labels.R |only bupaR-0.5.0/bupaR/R/lifecycles.R | 58 - bupaR-0.5.0/bupaR/R/log.R |only bupaR-0.5.0/bupaR/R/lubridate_exports.R |only bupaR-0.5.0/bupaR/R/mapping.R | 30 bupaR-0.5.0/bupaR/R/mutate.R |only bupaR-0.5.0/bupaR/R/n_activities.R | 26 bupaR-0.5.0/bupaR/R/n_activity_instances.R | 44 - bupaR-0.5.0/bupaR/R/n_cases.R | 37 - bupaR-0.5.0/bupaR/R/n_events.R | 46 - bupaR-0.5.0/bupaR/R/n_resources.R | 26 bupaR-0.5.0/bupaR/R/n_traces.R | 35 - bupaR-0.5.0/bupaR/R/print.eventlog.R | 31 bupaR-0.5.0/bupaR/R/print.mapping.R | 18 bupaR-0.5.0/bupaR/R/re_map.R | 23 bupaR-0.5.0/bupaR/R/resource_id.R | 4 bupaR-0.5.0/bupaR/R/resource_labels.R |only bupaR-0.5.0/bupaR/R/resources.R | 59 - bupaR-0.5.0/bupaR/R/sample_n.R |only bupaR-0.5.0/bupaR/R/select.R | 106 ++- bupaR-0.5.0/bupaR/R/select_ids.R |only bupaR-0.5.0/bupaR/R/set_activity_id.R |only bupaR-0.5.0/bupaR/R/set_activity_instance_id.R |only bupaR-0.5.0/bupaR/R/set_case_id.R |only bupaR-0.5.0/bupaR/R/set_lifecycle_id.R |only bupaR-0.5.0/bupaR/R/set_resource_id.R |only bupaR-0.5.0/bupaR/R/set_timestamp.R |only bupaR-0.5.0/bupaR/R/simple_eventlog.R | 65 + bupaR-0.5.0/bupaR/R/slice.R |only bupaR-0.5.0/bupaR/R/slice_activities.R |only bupaR-0.5.0/bupaR/R/slice_events.R |only bupaR-0.5.0/bupaR/R/slice_sample.R |only bupaR-0.5.0/bupaR/R/standardize_lifecycle.R | 4 bupaR-0.5.0/bupaR/R/summarize.R |only bupaR-0.5.0/bupaR/R/summary.eventlog.R | 44 + bupaR-0.5.0/bupaR/R/timestamp.R | 4 bupaR-0.5.0/bupaR/R/timestamps.R |only bupaR-0.5.0/bupaR/R/to_activitylog.R |only bupaR-0.5.0/bupaR/R/to_eventlog.R |only bupaR-0.5.0/bupaR/R/trace_list.R | 50 + bupaR-0.5.0/bupaR/R/traces.R | 68 - bupaR-0.5.0/bupaR/R/ungroup.R |only bupaR-0.5.0/bupaR/R/ungroup_eventlog.R |only bupaR-0.5.0/bupaR/R/unite.eventlog.R | 13 bupaR-0.5.0/bupaR/R/utils.R | 114 ++- bupaR-0.5.0/bupaR/R/zzz.R | 5 bupaR-0.5.0/bupaR/README.md | 13 bupaR-0.5.0/bupaR/man/act_collapse.Rd | 33 bupaR-0.5.0/bupaR/man/act_recode.Rd | 17 bupaR-0.5.0/bupaR/man/act_unite.Rd | 17 bupaR-0.5.0/bupaR/man/activities.Rd | 23 bupaR-0.5.0/bupaR/man/activities_to_eventlog.Rd | 15 bupaR-0.5.0/bupaR/man/activity_id.Rd | 39 - bupaR-0.5.0/bupaR/man/activity_instance_id.Rd | 13 bupaR-0.5.0/bupaR/man/activity_labels.Rd | 14 bupaR-0.5.0/bupaR/man/activitylog.Rd | 17 bupaR-0.5.0/bupaR/man/add_end_activity.Rd | 38 - bupaR-0.5.0/bupaR/man/arrange.Rd | 16 bupaR-0.5.0/bupaR/man/as.grouped.data.frame.Rd |only bupaR-0.5.0/bupaR/man/assign_instance_id.Rd | 6 bupaR-0.5.0/bupaR/man/case_id.Rd | 17 bupaR-0.5.0/bupaR/man/case_labels.Rd | 21 bupaR-0.5.0/bupaR/man/case_list.Rd | 16 bupaR-0.5.0/bupaR/man/cases.Rd | 30 bupaR-0.5.0/bupaR/man/durations.Rd | 22 bupaR-0.5.0/bupaR/man/eventlog.Rd | 10 bupaR-0.5.0/bupaR/man/events_to_activitylog.Rd | 2 bupaR-0.5.0/bupaR/man/figures |only bupaR-0.5.0/bupaR/man/fill.Rd | 20 bupaR-0.5.0/bupaR/man/filter.Rd | 18 bupaR-0.5.0/bupaR/man/filter_attributes.Rd | 15 bupaR-0.5.0/bupaR/man/first_n.Rd | 27 bupaR-0.5.0/bupaR/man/group_by.Rd | 15 bupaR-0.5.0/bupaR/man/group_by_activity.Rd | 14 bupaR-0.5.0/bupaR/man/group_by_activity_instance.Rd | 14 bupaR-0.5.0/bupaR/man/group_by_case.Rd | 14 bupaR-0.5.0/bupaR/man/group_by_ids.Rd |only bupaR-0.5.0/bupaR/man/group_by_resource.Rd | 14 bupaR-0.5.0/bupaR/man/group_by_resource_activity.Rd | 14 bupaR-0.5.0/bupaR/man/grouped_activitylog.Rd |only bupaR-0.5.0/bupaR/man/grouped_eventlog.Rd |only bupaR-0.5.0/bupaR/man/grouped_log.Rd |only bupaR-0.5.0/bupaR/man/last_n.Rd | 25 bupaR-0.5.0/bupaR/man/lifecycle_id.Rd | 25 bupaR-0.5.0/bupaR/man/lifecycle_labels.Rd | 24 bupaR-0.5.0/bupaR/man/lifecycles.Rd | 30 bupaR-0.5.0/bupaR/man/log.Rd |only bupaR-0.5.0/bupaR/man/mapping.Rd | 21 bupaR-0.5.0/bupaR/man/mutate.Rd | 21 bupaR-0.5.0/bupaR/man/n_activities.Rd | 23 bupaR-0.5.0/bupaR/man/n_activity_instances.Rd | 32 bupaR-0.5.0/bupaR/man/n_cases.Rd | 30 bupaR-0.5.0/bupaR/man/n_events.Rd | 31 bupaR-0.5.0/bupaR/man/n_resources.Rd | 23 bupaR-0.5.0/bupaR/man/n_traces.Rd | 23 bupaR-0.5.0/bupaR/man/print.eventlog_mapping.Rd | 6 bupaR-0.5.0/bupaR/man/print.log.Rd |only bupaR-0.5.0/bupaR/man/re_map.Rd | 4 bupaR-0.5.0/bupaR/man/reexports.Rd | 4 bupaR-0.5.0/bupaR/man/resource_id.Rd | 15 bupaR-0.5.0/bupaR/man/resource_labels.Rd | 14 bupaR-0.5.0/bupaR/man/resources.Rd | 22 bupaR-0.5.0/bupaR/man/sample_n.Rd | 22 bupaR-0.5.0/bupaR/man/select.Rd | 13 bupaR-0.5.0/bupaR/man/select_ids.Rd |only bupaR-0.5.0/bupaR/man/set_activity_id.Rd |only bupaR-0.5.0/bupaR/man/set_activity_instance_id.Rd |only bupaR-0.5.0/bupaR/man/set_case_id.Rd | 112 --- bupaR-0.5.0/bupaR/man/set_lifecycle_id.Rd |only bupaR-0.5.0/bupaR/man/set_resource_id.Rd |only bupaR-0.5.0/bupaR/man/set_timestamp.Rd |only bupaR-0.5.0/bupaR/man/simple_eventlog.Rd | 16 bupaR-0.5.0/bupaR/man/slice.Rd | 42 - 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Title: Adherence to Medications
Description: Computation of adherence to medications from Electronic Health care
Data and visualization of individual medication histories and adherence
patterns. The package implements a set of S3 classes and
functions consistent with current adherence guidelines and definitions.
It allows the computation of different measures of
adherence (as defined in the literature, but also several original ones),
their publication-quality plotting,
the estimation of event duration and time to initiation,
the interactive exploration of patient medication history and
the real-time estimation of adherence given various parameter settings.
It scales from very small datasets stored in flat CSV files to very large
databases and from single-thread processing on mid-range consumer
laptops to parallel processing on large heterogeneous computing clusters.
It exposes a standardized interface allowing it to be used from other
programming languages and platforms, such as Python.
Author: Dan Dediu [aut, cre],
Alexandra Dima [aut],
Samuel Allemann [aut]
Maintainer: Dan Dediu <ddediu@gmail.com>
Diff between AdhereR versions 0.8.0 dated 2022-06-23 and 0.8.1 dated 2022-07-05
DESCRIPTION | 6 +++--- MD5 | 14 ++++++++------ R/polypharmacy.R | 26 +++++++++++++++++--------- build/partial.rdb |binary inst/doc/AdhereR-overview.html | 4 ++-- inst/doc/calling-AdhereR-from-python3.html | 4 ++-- inst/wrappers/julia |only man/CMA_polypharmacy.Rd | 5 +++++ 8 files changed, 37 insertions(+), 22 deletions(-)
Title: Quantification of Asymmetric Dependence
Description: A copula-based measure for quantifying asymmetry in dependence and associations. Documentation and theory about 'qad' is provided
by the paper by Junker, Griessenberger & Trutschnig (2021, <doi:10.1016/j.csda.2020.107058>), and the paper by Trutschnig (2011, <doi:10.1016/j.jmaa.2011.06.013>).
Author: Thimo Kasper [aut, cre],
Florian Griessenberger [aut],
Robert R. Junker [aut],
Valentin Petzel [aut],
Wolfgang Trutschnig [aut]
Maintainer: Thimo Kasper <thimo.kasper@plus.ac.at>
Diff between qad versions 1.0.2 dated 2022-06-23 and 1.0.3 dated 2022-07-05
DESCRIPTION | 20 ++++++++++++-------- MD5 | 6 +++--- build/partial.rdb |binary inst/CITATION | 7 ++++--- 4 files changed, 19 insertions(+), 14 deletions(-)
Title: Parallel Digital Soil Mapping using Machine Learning
Description: Parallel computing, multi-core CPU is used to efficiently compute
and process multi-dimensional soil data.This package includes the
parallelized 'Quantile Regression Forests' algorithm for Digital Soil Mapping
and is mainly dependent on the package 'quantregForest' and 'snowfall'.
Detailed references to the R package and the web site are described in the
methods, as detailed in the method documentation.
Author: Xiaodong Song [aut],
Peicong Tang [aut, cre],
Wentao Zhu [aut],
Gaoqiang Ge [aut],
Jun Zhu [aut],
Ganlin Zhang [aut]
Maintainer: Peicong Tang <peicongtang0409@163.com>
Diff between ParallelDSM versions 0.3.3 dated 2022-07-01 and 0.3.4 dated 2022-07-05
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/ParallelInit.R | 21 ++++++++------------- 3 files changed, 13 insertions(+), 18 deletions(-)
Title: Tool For Analysis of Images in Experiments
Description: Tools created for image analysis in researches. There are functions associated with image editing, segmentation, and obtaining biometric measurements (Este pacote foi idealizado para para a analise de imagens em pesquisas. Ha funcoes associadas a edicao de imagens, segmentacao, e obtencao de medidas biometricas).
Author: Alcinei Mistico Azevedo [aut, cre]
Maintainer: Alcinei Mistico Azevedo <alcineimistico@hotmail.com>
Diff between ExpImage versions 0.4.0 dated 2022-01-22 and 0.5.0 dated 2022-07-05
DESCRIPTION | 8 MD5 | 55 +++--- NAMESPACE | 7 NEWS.md | 13 + R/Square_Image.R |only R/calibration_palette.R | 23 ++ R/clustering_Kmeans.R | 159 ++++++++++-------- R/color_pallete.R |only R/edit_image.R | 4 R/info_image.R | 2 R/join_image.R | 292 ++++++++++++++++++---------------- R/pick_count.R |only R/pick_length.R |only R/pick_resolution.R |only R/plot_image.R | 2 R/resize_image.R | 24 ++ R/split_image.R | 283 ++++++++++++++++---------------- build/vignette.rds |binary inst/doc/Comprimento_Plantula.html | 25 +- inst/doc/Contagem_de_bovinos.html | 9 - inst/doc/Contagem_de_objetos.html | 9 - inst/doc/Edicao_de_imagens.html | 74 ++++---- inst/doc/Estimacao_Area_Foliar.html | 247 ++++++++++++++-------------- inst/doc/Estimar_doenca_Amendoim.html | 7 man/Square_Image.Rd |only man/calibration_palette.Rd |only man/clustering_Kmeans.Rd | 4 man/color_pallete.Rd |only man/join_image.Rd | 8 man/pick_count.Rd |only man/pick_length.Rd |only man/pick_resolution.Rd |only man/plot_image.Rd | 2 man/resize_image.Rd | 6 34 files changed, 688 insertions(+), 575 deletions(-)
Title: Data Sets for Econometrics
Description: Data sets for econometrics, including political science.
Author: Yves Croissant <yves.croissant@let.ish-lyon.cnrs.fr> and Spencer Graves
Maintainer: Spencer Graves <spencer.graves@effectivedefense.org>
Diff between Ecdat versions 0.4-0 dated 2022-06-15 and 0.4-1 dated 2022-07-05
DESCRIPTION | 8 +-- MD5 | 20 +++---- NEWS | 3 + README.md | 2 build/partial.rdb |binary inst/demoFiles/NIPA6.16A20090820.csv | 50 +++++++++---------- inst/demoFiles/NIPA6.16B20080817.csv | 82 +++++++++++++++---------------- inst/demoFiles/NIPA6.16C20080817.csv | 82 +++++++++++++++---------------- inst/demoFiles/NIPA6.16D20130130.csv | 90 +++++++++++++++++------------------ man/USincarcerations.Rd | 6 +- man/terrorism.Rd | 4 - 11 files changed, 175 insertions(+), 172 deletions(-)
Title: Composite Indicators Functions
Description: A collection of functions to calculate Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps, as described in OECD Handbook on constructing composite indicators: methodology and user guide <https://www.oecd.org/els/soc/handbookonconstructingcompositeindicatorsmethodologyanduserguide.htm>, 'Vidoli' and 'Fusco' and 'Mazziotta' <doi:10.1007/s11205-014-0710-y>, 'Mazziotta' and 'Pareto' (2016) <doi:10.1007/s11205-015-0998-2>, 'Van Puyenbroeck and 'Rogge' <doi:10.1016/j.ejor.2016.07.038> and other authors.
Author: Francesco Vidoli, Elisa Fusco
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Diff between Compind versions 2.5 dated 2022-06-20 and 2.6 dated 2022-07-05
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NAMESPACE | 1 + NEWS | 8 ++++++++ R/ci_bod_var_w.R |only inst/doc/Compind_vignette.pdf |binary man/ci_bod_var_w.Rd |only 7 files changed, 19 insertions(+), 8 deletions(-)
Title: Computation of Bayes Factors for Common Designs
Description: A suite of functions for computing
various Bayes factors for simple designs, including contingency tables,
one- and two-sample designs, one-way designs, general ANOVA designs, and
linear regression.
Author: Richard D. Morey [aut, cre, cph],
Jeffrey N. Rouder [aut],
Tahira Jamil [ctb, cph],
Simon Urbanek [ctb, cph],
Karl Forner [ctb, cph],
Alexander Ly [ctb, cph]
Maintainer: Richard D. Morey <richarddmorey@gmail.com>
Diff between BayesFactor versions 0.9.12-4.3 dated 2021-12-13 and 0.9.12-4.4 dated 2022-07-05
DESCRIPTION | 15 MD5 | 258 - NAMESPACE | 217 - NEWS | 368 +- R/BayesFactorPCL-package.R | 264 - R/RcppExports.R | 182 - R/aaClasses.R | 396 +- R/aaGenerics.R | 408 +- R/anovaBF-utility.R | 128 R/anovaBF.R | 468 +-- R/base64.R | 342 +- R/checkCallback.R | 14 R/checking.R | 164 - R/common.R | 986 +++---- R/contingency-utility.R | 867 +++--- R/contingency.R | 254 - R/correlation-JASP.R | 264 - R/correlation-utility.R | 294 +- R/correlationBF.R | 206 - R/gaussApproxAOV.R | 172 - R/generalTest-utility.R | 378 +- R/generalTestBF.R | 290 +- R/linearReg_R2stat.R | 182 - R/lmBF.R | 176 - R/logMean.R | 116 R/manual.R | 32 R/meta-ttest-utility.R | 486 +-- R/meta.ttestBF.R | 226 - R/methods-BFBayesFactor.R | 774 ++--- R/methods-BFBayesFactorList.R | 256 - R/methods-BFBayesFactorTop.R | 212 - R/methods-BFlinearModel-compare.R | 230 - R/methods-BFmodel.R | 920 +++--- R/methods-BFmodelSample.R | 452 +-- R/methods-BFodds.R | 758 ++--- R/methods-BFprobability.R | 580 ++-- R/model.matrix.R | 152 - R/nWayAOV-utility.R | 948 +++--- R/nWayAOV.R | 462 +-- R/newPriorOdds.R | 40 R/onAttach.R | 62 R/oneWayAOV-utility.R | 18 R/oneWayAOV_Fstat.R | 132 R/plot-BFBayesFactor.R | 242 - R/plot-BFBayesFactorTop.R | 244 - R/proportion-utility.R | 296 +- R/proportionBF.R | 200 - R/regressionBF-utility.R | 186 - R/regressionBF.R | 236 - R/ttest-informed-JASP.R | 746 ++--- R/ttest-utility.R | 370 +- R/ttestBF.R | 280 +- R/ttest_tstat.R | 180 - R/version.R | 44 build/vignette.rds |binary inst/doc/compare_lme4.R | 406 +- inst/doc/compare_lme4.Rmd | 556 ++-- inst/doc/compare_lme4.html | 1200 ++++---- inst/doc/index.R | 8 inst/doc/index.Rmd | 48 inst/doc/index.html | 386 +- inst/doc/manual.R | 1066 +++---- inst/doc/manual.Rmd | 2106 +++++++-------- inst/doc/manual.html | 4492 ++++++++++++++++----------------- inst/doc/odds_probs.R | 88 inst/doc/odds_probs.Rmd | 248 - inst/doc/odds_probs.html | 820 +++--- inst/doc/priors.R | 154 - inst/doc/priors.Rmd | 262 - inst/doc/priors.html | 870 +++--- inst/tests/test-anovaBF.R | 24 inst/tests/test-contingencyBF.R | 24 inst/tests/test-correlationBF.R | 20 inst/tests/test-generalTestBF.R | 20 inst/tests/test-proportionBF.R | 60 inst/tests/test-regressionBF.R | 46 inst/tests/test-specialchars.R | 110 inst/tests/test-ttest.R | 54 man/BFBayesFactor-class.Rd | 168 - man/BFBayesFactorList-class.Rd | 148 - man/BFInfo.Rd | 52 man/BFManual.Rd | 46 man/BFodds-class.Rd | 100 man/BFprobability-class.Rd | 102 man/BayesFactor-package.Rd | 137 - man/anovaBF.Rd | 384 +- man/as.BFBayesFactor.Rd | 66 man/as.BFprobability.Rd | 64 man/compare-methods.Rd | 114 man/contingencyTableBF.Rd | 216 - man/correlationBF.Rd | 172 - man/enumerateGeneralModels.Rd | 66 man/extractBF-methods.Rd | 66 man/extractOdds-methods.Rd | 50 man/extractProbabilities-methods.Rd | 50 man/filterBF.Rd | 50 man/generalTestBF.Rd | 240 - man/grapes-same-grapes.Rd | 42 man/grapes-termin-grapes.Rd | 40 man/linearReg.R2stat.Rd | 159 - man/lmBF.Rd | 192 - man/logMeanExpLogs.Rd | 134 man/meta.ttestBF.Rd | 218 - man/model-classes.Rd | 58 man/model.matrix-methods.Rd | 84 man/nWayAOV.Rd | 312 +- man/newPriorOdds.Rd | 62 man/oneWayAOV.Fstat.Rd | 144 - man/options-BayesFactor.Rd | 56 man/plot.BFBayesFactor.Rd | 120 man/plot.BFBayesFactorTop.Rd | 110 man/posterior-methods.Rd | 200 - man/priorLogodds-method.Rd | 40 man/priorOdds-method.Rd | 40 man/proportionBF.Rd | 166 - man/puzzles.Rd | 84 man/raceDolls.Rd | 70 man/recompute-methods.Rd | 176 - man/regressionBF.Rd | 224 - man/ttest.tstat.Rd | 180 - man/ttestBF.Rd | 259 - src/jzs_Gauss_approx_aov.cpp | 2 tests/run-all.R | 6 vignettes/compare_lme4.Rmd | 556 ++-- vignettes/extra/manual.css | 280 +- vignettes/extra/socialmedia/readme.txt | 60 vignettes/index.Rmd | 48 vignettes/manual.Rmd | 2106 +++++++-------- vignettes/odds_probs.Rmd | 248 - vignettes/priors.Rmd | 262 - 130 files changed, 19632 insertions(+), 19638 deletions(-)
Title: Visualization Tool for the Cancer Genome Atlas Program (TCGA)
Description: Differential analysis of tumor tissue immune cell type
abundance based on RNA-seq gene-level expression from The Cancer
Genome Atlas (TCGA; <https://pancanatlas.xenahubs.net>) database.
Author: Etienne Camenen [aut, cre],
Gilles Marodon [aut],
Nicolas Aubert [aut]
Maintainer: Etienne Camenen <etienne.camenen@gmail.com>
Diff between tcgaViz versions 1.0.0 dated 2022-06-28 and 1.0.1 dated 2022-07-05
DESCRIPTION | 10 ++++------ MD5 | 16 ++++++++-------- README.md | 14 +++++--------- inst/doc/Tutorial.Rmd | 8 ++++---- inst/doc/Tutorial.html | 20 ++++++++++---------- inst/golem-config.yml | 2 +- man/figures/README-advanced-1.png |binary man/figures/README-plot-1.png |binary vignettes/Tutorial.Rmd | 8 ++++---- 9 files changed, 36 insertions(+), 42 deletions(-)
Title: Interface to OGC Web-Services (OWS)
Description: Provides an Interface to Web-Services defined as standards by the Open Geospatial Consortium (OGC), including Web Feature Service
(WFS) for vector data, Web Coverage Service (WCS), Catalogue Service (CSW) for ISO/OGC metadata, and associated standards such as the common
web-service specification (OWS) and OGC Filter Encoding. Partial support is provided for the Web Map Service (WMS) and Web Processing Service (WPS).
The purpose is to add support for additional OGC service standards such as Web Coverage Processing Service (WCPS) or OGC API.
Author: Emmanuel Blondel [aut, cre] ,
Alexandre Bennici [ctb] ,
Norbert Billet [ctb]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between ows4R versions 0.2-1 dated 2022-01-26 and 0.3 dated 2022-07-05
DESCRIPTION | 26 - MD5 | 332 ++++++++++-------- NAMESPACE | 17 NEWS.md | 38 +- R/CASClient.R |only R/CSWCapabilities.R | 14 R/CSWClient.R | 193 +++++----- R/CSWConstraint.R | 18 R/CSWDescribeRecord.R | 26 - R/CSWGetRecordById.R | 28 + R/CSWGetRecords.R | 27 - R/CSWHarvest.R | 30 + R/CSWQuery.R | 23 - R/CSWRecordProperty.R | 14 R/CSWTransaction.R | 24 - R/OGCAbstractObject.R | 75 ++-- R/OGCExpression.R | 223 +++++------- R/OGCFilter.R | 18 R/OWSBoundingBox.R | 30 - R/OWSCapabilities.R | 91 ++-- R/OWSClient.R | 111 +++--- R/OWSCodeType.R | 13 R/OWSGetCapabilities.R | 25 - R/OWSHttpRequest.R | 97 ++--- R/OWSNamespace.R | 22 - R/OWSOperation.R | 33 - R/OWSOperationsMetadata.R | 18 R/OWSRequest.R | 27 - R/OWSServiceIdentification.R | 60 +-- R/OWSServiceProvider.R | 31 - R/OWSUtils.R | 47 +- R/OWSWGS84BoundingBox.R | 24 - R/WCSCapabilities.R |only R/WCSClient.R |only R/WCSCoverage.R |only R/WCSCoverageDescription.R |only R/WCSCoverageDomain.R |only R/WCSCoverageFilenameHandler.R |only R/WCSCoverageSpatialDomain.R |only R/WCSCoverageSummary.R |only R/WCSCoverageTemporalDomain.R |only R/WCSDescribeCoverage.R |only R/WCSGSElevationDomain.R |only R/WCSGSTimeDomain.R |only R/WCSGetCoverage.R |only R/WCSGridCRS.R |only R/WFSCapabilities.R | 41 +- R/WFSClient.R | 80 ++-- R/WFSDescribeFeatureType.R | 26 - R/WFSFeatureType.R | 80 +--- R/WFSFeatureTypeElement.R | 43 -- R/WFSGetFeature.R | 33 + R/WMSCapabilities.R | 55 +- R/WMSClient.R | 82 ++-- R/WMSGetFeatureInfo.R | 35 + R/WMSLayer.R | 144 +++---- R/WPSBoundingBoxData.R | 14 R/WPSCapabilities.R | 51 +- R/WPSClient.R | 87 ++-- R/WPSComplexData.R | 40 -- R/WPSComplexInputDescription.R | 13 R/WPSComplexOutputDescription.R | 13 R/WPSDescribeProcess.R | 26 - R/WPSDescriptionParameter.R | 24 - R/WPSException.R | 22 - R/WPSExecute.R | 37 +- R/WPSExecuteResponse.R | 66 +-- R/WPSFormat.R | 43 -- R/WPSInput.R | 16 R/WPSInputDescription.R | 28 - R/WPSLiteralData.R | 32 - R/WPSLiteralInputDescription.R | 33 - R/WPSLiteralOutputDescription.R | 13 R/WPSOutput.R | 38 -- R/WPSOutputDescription.R | 13 R/WPSParameter.R | 31 - R/WPSProcess.R | 52 +- R/WPSProcessDescription.R | 68 +-- R/WPSResponseDocument.R | 21 - R/WPSStatus.R | 42 -- R/ows4R.R | 18 README.md | 30 + build |only inst/doc |only man/And.Rd | 71 +++ man/BBOX.Rd | 82 ++++ man/BinaryComparisonOpType.Rd | 96 ++++- man/BinaryLogicOpType.Rd | 98 ++++- man/CASClient.Rd |only man/CSWCapabilities.Rd | 87 ++++ man/CSWClient.Rd | 479 ++++++++++++++++++++++---- man/CSWConstraint.Rd | 103 +++++ man/CSWDescribeRecord.Rd | 113 +++++- man/CSWGetRecordById.Rd | 125 ++++++ man/CSWGetRecords.Rd | 121 ++++++ man/CSWHarvest.Rd | 130 ++++++- man/CSWQuery.Rd | 113 +++++- man/CSWRecordProperty.Rd | 84 ++++ man/CSWTransaction.Rd | 120 ++++++ man/Not.Rd | 71 +++ man/OGCAbstractObject.Rd | 277 ++++++++++++++- man/OGCExpression.Rd | 119 +++++- man/OGCFilter.Rd | 100 ++++- man/OWSBoundingBox.Rd | 176 +++++++-- man/OWSCapabilities.Rd | 261 ++++++++++++-- man/OWSClient.Rd | 266 ++++++++++++-- man/OWSCodeType.Rd | 79 +++- man/OWSGetCapabilities.Rd | 108 +++++ man/OWSHttpRequest.Rd | 273 +++++++++++++- man/OWSNamespace.Rd | 74 +++- man/OWSOperation.Rd | 115 +++++- man/OWSOperationsMetadata.Rd | 74 +++- man/OWSRequest.Rd | 109 +++++ man/OWSServiceIdentification.Rd | 204 +++++++++-- man/OWSServiceProvider.Rd | 121 +++++- man/OWSWGS84BoundingBox.Rd | 129 +++++-- man/Or.Rd | 71 +++ man/PropertyIsBetween.Rd | 86 ++++ man/PropertyIsEqualTo.Rd | 75 +++- man/PropertyIsGreaterThan.Rd | 75 +++- man/PropertyIsGreaterThanOrEqualTo.Rd | 75 +++- man/PropertyIsLessThan.Rd | 75 +++- man/PropertyIsLessThanOrEqualTo.Rd | 75 +++- man/PropertyIsLike.Rd | 100 ++++- man/PropertyIsNotEqualTo.Rd | 75 +++- man/PropertyIsNull.Rd | 78 +++- man/UnaryLogicOpType.Rd | 98 ++++- man/WCSCapabilities.Rd |only man/WCSClient.Rd |only man/WCSCoverage.Rd |only man/WCSCoverageDescription.Rd |only man/WCSCoverageDomain.Rd |only man/WCSCoverageFilenameHandler.Rd |only man/WCSCoverageSpatialDomain.Rd |only man/WCSCoverageSummary.Rd |only man/WCSCoverageTemporalDomain.Rd |only man/WCSDescribeCoverage.Rd |only man/WCSGSElevationDomain.Rd |only man/WCSGSTimeDomain.Rd |only man/WCSGetCoverage.Rd |only man/WCSGridCRS.Rd |only man/WFSCapabilities.Rd | 132 ++++++- man/WFSClient.Rd | 218 ++++++++++- man/WFSDescribeFeatureType.Rd | 113 +++++- man/WFSFeatureType.Rd | 283 +++++++++++++-- man/WFSFeatureTypeElement.Rd | 136 ++++++- man/WFSGetFeature.Rd | 116 +++++- man/WMSCapabilities.Rd | 173 ++++++++- man/WMSClient.Rd | 239 +++++++++++- man/WMSGetFeatureInfo.Rd | 141 +++++++ man/WMSLayer.Rd | 370 +++++++++++++++++--- man/WPSBoundingBoxData.Rd | 133 +++++-- man/WPSCapabilities.Rd | 182 ++++++++- man/WPSClient.Rd | 245 +++++++++++-- man/WPSComplexData.Rd | 158 +++++++- man/WPSComplexInputDescription.Rd | 85 ++++ man/WPSComplexOutputDescription.Rd | 82 +++- man/WPSDescribeProcess.Rd | 113 +++++- man/WPSDescriptionParameter.Rd | 114 +++++- man/WPSException.Rd | 145 ++++++- man/WPSExecute.Rd | 156 +++++++- man/WPSExecuteResponse.Rd | 242 +++++++++++-- man/WPSFormat.Rd | 166 +++++++-- man/WPSInput.Rd | 84 ++++ man/WPSInputDescription.Rd | 130 ++++++- man/WPSLiteralData.Rd | 128 ++++++ man/WPSLiteralInputDescription.Rd | 135 ++++++- man/WPSLiteralOutputDescription.Rd | 82 +++- man/WPSOutput.Rd | 153 +++++++- man/WPSOutputDescription.Rd | 82 +++- man/WPSParameter.Rd | 126 +++++- man/WPSProcess.Rd | 188 ++++++++-- man/WPSProcessDescription.Rd | 234 ++++++++++-- man/WPSResponseDocument.Rd | 97 ++++- man/WPSStatus.Rd | 200 ++++++++-- man/ows4R.Rd | 17 tests/testthat/test_WCSClient_v1_0.R |only tests/testthat/test_WCSClient_v1_1.R |only tests/testthat/test_WCSClient_v2_0.R |only tests/testthat/test_WCSClient_v2_0_with_CAS.R |only tests/testthat/test_WCSClient_v2_1_0.R |only tests/testthat/test_WFSClient_v2_0_0.R | 17 vignettes |only 183 files changed, 11099 insertions(+), 2822 deletions(-)
Title: Chaos Game
Description: The main objective of the package is to enter a word of at least two letters based on which an Iterated Function System with Probabilities is constructed, and a two-dimensional fractal containing the chosen word infinitely often is generated via the Chaos Game. Additionally, the package allows to project the two-dimensional fractal on several three-dimensional surfaces and to transform the fractal into another fractal with uniform marginals.
Author: Thimo Kasper [aut, cre],
Florian Griessenberger [aut],
Manuela Schreyer [aut],
Johannes Bartel [aut],
Wolfgang Trutschnig [aut]
Maintainer: Thimo Kasper <thimo.kasper@plus.ac.at>
Diff between ChaosGame versions 1.2 dated 2022-06-21 and 1.3 dated 2022-07-05
DESCRIPTION | 16 +++++++++------- MD5 | 2 +- 2 files changed, 10 insertions(+), 8 deletions(-)
Title: Time Series Exploration, Modelling and Forecasting
Description: Includes: (i) tests and visualisations that can help the modeller explore time series components and perform decomposition; (ii) modelling shortcuts, such as functions to construct lagmatrices and seasonal dummy variables of various forms; (iii) an implementation of the Theta method; (iv) tools to facilitate the design of the forecasting process, such as ABC-XYZ analyses; and (v) "quality of life" functions, such as treating time series for trailing and leading values.
Author: Nikolaos Kourentzes [aut, cre],
Ivan Svetunkov [ctb],
Oliver Schaer [ctb]
Maintainer: Nikolaos Kourentzes <nikolaos@kourentzes.com>
Diff between tsutils versions 0.9.2 dated 2020-02-06 and 0.9.3 dated 2022-07-05
DESCRIPTION | 8 +++--- MD5 | 64 +++++++++++++++++++++++++++--------------------------- NEWS.md | 4 +++ R/Sthief.R | 8 +++--- R/abc.R | 2 - R/abcxyz.R | 2 - R/cmav.R | 2 - R/decomp.R | 2 - R/getOptK.R | 2 - R/lambdaseq.R | 8 +++--- R/nemenyi.R | 3 +- R/plotSthief.R | 2 - R/trendtest.R | 2 - R/xyz.R | 2 - README.md | 4 +-- man/Sthief.Rd | 2 - man/abc.Rd | 2 - man/abcxyz.Rd | 2 - man/cmav.Rd | 11 ++++++--- man/coxstuart.Rd | 3 -- man/decomp.Rd | 16 ++++++++++--- man/getOptK.Rd | 2 - man/lambdaseq.Rd | 20 +++++++++++----- man/leadtrail.Rd | 8 +++++- man/mseastest.Rd | 11 +++++++-- man/nemenyi.Rd | 12 +++++++--- man/plotSthief.Rd | 2 - man/seasdummy.Rd | 3 -- man/seasplot.Rd | 17 ++++++++++---- man/theta.Rd | 15 +++++++++--- man/trendtest.Rd | 10 +++++--- man/tsutils.Rd | 1 man/xyz.Rd | 5 +--- 33 files changed, 158 insertions(+), 99 deletions(-)
Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent
access to information contained in various R models, like model
formulas, model terms, information about random effects, data that was
used to fit the model or data from response variables. 'insight'
mainly revolves around two types of functions: Functions that find
(the names of) information, starting with 'find_', and functions that
get the underlying data, starting with 'get_'. The package has a
consistent syntax and works with many different model objects, where
otherwise functions to access these information are missing.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut, ctb] ,
Indrajeet Patil [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Mattan S. Ben-Shachar [aut, ctb]
,
Brenton M. Wiernik [aut] ,
Vincent Arel-Bundock [aut, ctb]
,
Alex Hayes [rev]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between insight versions 0.17.1 dated 2022-05-13 and 0.18.0 dated 2022-07-05
insight-0.17.1/insight/inst/WORDLIST |only insight-0.17.1/insight/tests/spelling.R |only insight-0.18.0/insight/DESCRIPTION | 14 insight-0.18.0/insight/MD5 | 162 +-- insight-0.18.0/insight/NAMESPACE | 1 insight-0.18.0/insight/NEWS.md | 46 + insight-0.18.0/insight/R/backports.R | 10 insight-0.18.0/insight/R/clean_names.R | 22 insight-0.18.0/insight/R/compute_variances.R | 43 - insight-0.18.0/insight/R/ellipsis_info.R | 1 insight-0.18.0/insight/R/export_table.R | 18 insight-0.18.0/insight/R/find_parameters_bayesian.R | 20 insight-0.18.0/insight/R/find_predictors.R | 28 insight-0.18.0/insight/R/find_statistic.R | 1 insight-0.18.0/insight/R/find_transformation.R | 31 insight-0.18.0/insight/R/format_capitalize.R | 7 insight-0.18.0/insight/R/format_ci.R | 1 insight-0.18.0/insight/R/format_p.R | 1 insight-0.18.0/insight/R/format_table.R | 5 insight-0.18.0/insight/R/get_data.R | 3 insight-0.18.0/insight/R/get_datagrid.R | 200 ++-- insight-0.18.0/insight/R/get_df.R | 9 insight-0.18.0/insight/R/get_loglikelihood.R | 52 + insight-0.18.0/insight/R/get_modelmatrix.R | 19 insight-0.18.0/insight/R/get_predicted.R | 40 insight-0.18.0/insight/R/get_predicted_args.R | 26 insight-0.18.0/insight/R/get_predicted_bayesian.R | 2 insight-0.18.0/insight/R/get_predicted_ci.R | 9 insight-0.18.0/insight/R/get_predicted_ci_zeroinflated.R | 10 insight-0.18.0/insight/R/get_predicted_gam.R | 27 insight-0.18.0/insight/R/get_predicted_mixed.R | 21 insight-0.18.0/insight/R/get_predicted_se.R | 6 insight-0.18.0/insight/R/get_predicted_zeroinfl.R | 2 insight-0.18.0/insight/R/get_residuals.R | 1 insight-0.18.0/insight/R/get_sigma.R | 32 insight-0.18.0/insight/R/get_transformation.R | 14 insight-0.18.0/insight/R/get_varcov.R | 35 insight-0.18.0/insight/R/get_varcov_sandwich.R | 2 insight-0.18.0/insight/R/get_weights.R | 3 insight-0.18.0/insight/R/helper_functions.R | 9 insight-0.18.0/insight/R/is_model.R | 2 insight-0.18.0/insight/R/null_model.R | 46 - insight-0.18.0/insight/R/print_parameters.R | 2 insight-0.18.0/insight/R/standardize_names.R | 3 insight-0.18.0/insight/R/utils_get_data.R | 31 insight-0.18.0/insight/README.md | 238 ++--- insight-0.18.0/insight/build/partial.rdb |binary insight-0.18.0/insight/build/vignette.rds |binary insight-0.18.0/insight/inst/doc/display.html | 430 ++-------- insight-0.18.0/insight/inst/doc/export.html | 250 ----- insight-0.18.0/insight/inst/doc/insight.html | 384 -------- insight-0.18.0/insight/man/find_transformation.Rd | 74 - insight-0.18.0/insight/man/format_table.Rd | 17 insight-0.18.0/insight/man/get_datagrid.Rd | 1 insight-0.18.0/insight/man/get_predicted.Rd | 27 insight-0.18.0/insight/man/get_predicted_ci.Rd | 8 insight-0.18.0/insight/man/get_transformation.Rd | 3 insight-0.18.0/insight/tests/testthat/test-afex_aov.R | 31 insight-0.18.0/insight/tests/testthat/test-betareg.R | 6 insight-0.18.0/insight/tests/testthat/test-brms.R | 7 insight-0.18.0/insight/tests/testthat/test-clean_names.R | 4 insight-0.18.0/insight/tests/testthat/test-find_transformation.R |only insight-0.18.0/insight/tests/testthat/test-fixest.R | 34 insight-0.18.0/insight/tests/testthat/test-gam.R | 57 + insight-0.18.0/insight/tests/testthat/test-gbm.R | 30 insight-0.18.0/insight/tests/testthat/test-get_data.R | 31 insight-0.18.0/insight/tests/testthat/test-get_datagrid.R | 20 insight-0.18.0/insight/tests/testthat/test-get_modelmatrix-estimatr.R | 5 insight-0.18.0/insight/tests/testthat/test-get_predicted-iv.R | 2 insight-0.18.0/insight/tests/testthat/test-get_predicted.R | 165 +-- insight-0.18.0/insight/tests/testthat/test-get_priors.R | 8 insight-0.18.0/insight/tests/testthat/test-get_varcov.R | 62 - insight-0.18.0/insight/tests/testthat/test-get_variance.R | 121 ++ insight-0.18.0/insight/tests/testthat/test-glmmTMB.R | 13 insight-0.18.0/insight/tests/testthat/test-iv_robust.R | 1 insight-0.18.0/insight/tests/testthat/test-lmer.R | 20 insight-0.18.0/insight/tests/testthat/test-logistf.R | 2 insight-0.18.0/insight/tests/testthat/test-mhurdle.R | 6 insight-0.18.0/insight/tests/testthat/test-mvrstanarm.R | 48 + insight-0.18.0/insight/tests/testthat/test-null_model.R |only insight-0.18.0/insight/tests/testthat/test-offset.R | 18 insight-0.18.0/insight/tests/testthat/test-rms.R | 6 insight-0.18.0/insight/tests/testthat/test-rstanarm.R | 1 insight-0.18.0/insight/tests/testthat/test-standardize_names.R | 6 84 files changed, 1450 insertions(+), 1703 deletions(-)
Title: Time Series Analysis
Description: Contains R functions and datasets detailed in the book
"Time Series Analysis with Applications in R (second edition)" by Jonathan Cryer and Kung-Sik Chan.
Author: Kung-Sik Chan, Brian Ripley
Maintainer: Kung-Sik Chan <kungsik.chan@gmail.com>
Diff between TSA versions 1.3 dated 2020-09-13 and 1.3.1 dated 2022-07-05
DESCRIPTION | 9 +-- MD5 | 128 +++++++++++++++++++++++++------------------------- data/CREF.rda |binary data/JJ.rda |binary data/SP.rda |binary data/airmiles.rda |binary data/airpass.rda |binary data/ar1.2.s.rda |binary data/ar1.s.rda |binary data/ar2.s.rda |binary data/arma11.s.rda |binary data/beersales.rda |binary data/bluebird.rda |binary data/bluebirdlite.rda |binary data/boardings.rda |binary data/co2.rda |binary data/color.rda |binary data/cref.bond.rda |binary data/days.rda |binary data/deere1.rda |binary data/deere2.rda |binary data/deere3.rda |binary data/eeg.rda |binary data/electricity.rda |binary data/euph.rda |binary data/explode.s.rda |binary data/flow.rda |binary data/gold.rda |binary data/google.rda |binary data/hare.rda |binary data/hours.rda |binary data/ima22.s.rda |binary data/larain.rda |binary data/ma1.1.s.rda |binary data/ma1.2.s.rda |binary data/ma2.s.rda |binary data/milk.rda |binary data/oil.price.rda |binary data/oilfilters.rda |binary data/prescrip.rda |binary data/prey.eq.rda |binary data/retail.rda |binary data/robot.rda |binary data/rwalk.rda |binary data/spots.rda |binary data/spots1.rda |binary data/star.rda |binary data/tbone.rda |binary data/tempdub.rda |binary data/tuba.rda |binary data/units.rda |binary data/usd.hkd.rda |binary data/veilleux.rda |binary data/wages.rda |binary data/winnebago.rda |binary man/JJ.Rd | 4 - man/SP.Rd | 2 man/arima.Rd | 7 -- man/arimax.Rd | 7 -- man/deere1.Rd | 6 +- man/deere2.Rd | 4 - man/deere3.Rd | 4 - man/gold.Rd | 2 man/oilfilters.Rd | 4 - man/robot.Rd | 2 65 files changed, 86 insertions(+), 93 deletions(-)
Title: Easier Cluster Computing (Based on 'snow')
Description: Usability wrapper around snow for easier development of
parallel R programs. This package offers e.g. extended error
checks, and additional functions. All functions work in
sequential mode, too, if no cluster is present or wished.
Package is also designed as connector to the cluster management
tool sfCluster, but can also used without it.
Author: Jochen Knaus
Maintainer: Jochen Knaus <jo@imbi.uni-freiburg.de>
Diff between snowfall versions 1.84-6.1 dated 2015-10-14 and 1.84-6.2 dated 2022-07-05
DESCRIPTION | 9 +++++---- MD5 | 16 ++++++++-------- NAMESPACE | 5 +++++ R/init.R | 26 +++++++++++++------------- R/sysdata.rda |binary build/vignette.rds |binary data/test.rda |binary inst/doc/snowfall.pdf |binary man/snowfall-d-tools.Rd | 4 ++-- 9 files changed, 33 insertions(+), 27 deletions(-)
Title: Colocalisation Tests of Two Genetic Traits
Description: Performs the colocalisation tests described in
Giambartolomei et al (2013) <doi:10.1371/journal.pgen.1004383>,
Wallace (2020) <doi:10.1371/journal.pgen.1008720>,
Wallace (2021) <doi:10.1101/2021.02.23.432421>.
Author: Chris Wallace [aut, cre],
Claudia Giambartolomei [aut],
Vincent Plagnol [ctb]
Maintainer: Chris Wallace <cew54@cam.ac.uk>
Diff between coloc versions 5.1.0 dated 2021-06-14 and 5.1.0.1 dated 2022-07-05
DESCRIPTION | 6 - MD5 | 20 +-- build/vignette.rds |binary data/coloc_test_data.rda |binary inst/doc/a01_intro.html | 69 +++++++++-- inst/doc/a02_data.html | 245 +++++++++++++++++++++++++++++------------ inst/doc/a03_enumeration.html | 138 +++++++++++++++-------- inst/doc/a04_sensitivity.html | 118 +++++++++++++------ inst/doc/a05_conditioning.html | 145 +++++++++++++++--------- inst/doc/a06_SuSiE.html | 241 ++++++++++++++++++++++++++-------------- man/check_dataset.Rd | 13 +- 11 files changed, 675 insertions(+), 320 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-16 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-11-13 0.3.9
2021-10-30 0.3.8
2021-03-29 0.3.6
Title: Extended Joint Models for Longitudinal and Time-to-Event Data
Description: Fit joint models for longitudinal and time-to-event data under the Bayesian approach. Multiple longitudinal outcomes of mixed type (continuous/categorical) and multiple event times (competing risks and multi-state processes) are accommodated. Rizopoulos (2012, ISBN:9781439872864).
Author: Dimitris Rizopoulos [aut, cre]
,
Grigorios Papageorgiou [aut],
Pedro Miranda Afonso [aut]
Maintainer: Dimitris Rizopoulos <d.rizopoulos@erasmusmc.nl>
Diff between JMbayes2 versions 0.2-0 dated 2022-02-10 and 0.2-8 dated 2022-07-05
DESCRIPTION | 8 ++--- MD5 | 20 ++++++------- R/accuracy_measures.R | 4 +- R/basic_methods.R | 76 ++++++++++++++++++++++++++++++++++++-------------- R/help_functions.R | 38 +++++++++++++++++++------ R/jm.R | 41 +++++++++++++++----------- R/jm_fit.R | 1 R/predict_funs.R | 6 +-- README.md | 4 +- man/JMbayes2.Rd | 4 +- man/jm.Rd | 3 + 11 files changed, 135 insertions(+), 70 deletions(-)
Title: Fast Embedding Guided by Self-Organizing Map
Description: Provides a smooth mapping of multidimensional points into
low-dimensional space defined by a self-organizing map. Designed to work
with 'FlowSOM' and flow-cytometry use-cases. See Kratochvil et al. (2019)
<doi:10.12688/f1000research.21642.1>.
Author: Mirek Kratochvil [aut, cre],
Sofie Van Gassen [cph],
Britt Callebaut [cph],
Yvan Saeys [cph],
Ron Wehrens [cph]
Maintainer: Mirek Kratochvil <exa.exa@gmail.com>
Diff between EmbedSOM versions 2.1.1 dated 2020-02-12 and 2.1.2 dated 2022-07-05
DESCRIPTION | 13 +++---- MD5 | 38 +++++++++++----------- README.md | 73 +++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/UsingEmbedSOM.html | 50 ++++++++++++++++++++++++------ man/EmbedSOM.Rd | 19 +++++++++-- man/ExprColors.Rd | 11 +++++- man/ExpressionGradient.Rd | 2 - man/GQTSOM.Rd | 22 ++++++++++--- man/GraphCoords.Rd | 8 +++- man/MSTCoords.Rd | 8 +++- man/MapDataToCodes.Rd | 9 ++++- man/PlotData.Rd | 18 +++++++++- man/PlotEmbed.Rd | 40 +++++++++++++++++++----- man/SOM.Rd | 36 +++++++++++++++------ man/UMatrixCoords.Rd | 8 +++- man/kNNCoords.Rd | 8 +++- src/embed.cpp | 2 - src/som.cpp | 20 ++++++------ src/som.h | 20 ++++++------ 20 files changed, 269 insertions(+), 136 deletions(-)
Title: Wavelets Statistics and Transforms
Description: Performs 1, 2 and 3D real and complex-valued wavelet transforms,
nondecimated transforms, wavelet packet transforms, nondecimated
wavelet packet transforms, multiple wavelet transforms,
complex-valued wavelet transforms, wavelet shrinkage for
various kinds of data, locally stationary wavelet time series,
nonstationary multiscale transfer function modeling, density
estimation.
Author: Guy Nason [aut, cre]
Maintainer: Guy Nason <g.nason@imperial.ac.uk>
Diff between wavethresh versions 4.6.9 dated 2022-04-25 and 4.7.0 dated 2022-07-05
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/function.r | 20 ++++++++------------ inst/CHANGES | 5 +++++ man/print.wpstRO.rd | 4 +--- man/wavethresh-package.Rd | 5 ++--- src/functions.c | 4 ++-- src/wavethresh_init.c | 6 ------ 8 files changed, 29 insertions(+), 37 deletions(-)
Title: Stepwise Procedure for Beta Regression Models
Description: Starting from a Beta Regression Model, it provides a stepwise
procedure to select the linear predictor.
Author: Sergio Garofalo
Maintainer: Sergio Garofalo <sergio.garofalo96@gmail.com>
Diff between StepBeta versions 1.0.1 dated 2022-06-20 and 2.0.0 dated 2022-07-05
DESCRIPTION | 8 - MD5 | 10 - NAMESPACE | 2 R/Dispersion_formula_terms.R |only R/Step_Aic_beta_regression.R | 274 +++++++++++++++++++++++----------------- man/StepBeta.Rd | 4 man/dispersion_formula_terms.Rd |only 7 files changed, 177 insertions(+), 121 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-18 0.1.4
2020-06-14 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-09 0.1.1
Title: Prediction Performance Metrics
Description: A compilation of more than 80 functions designed to quantitatively and visually evaluate prediction performance of regression (continuous variables) and classification (categorical variables) of point-forecast models (e.g. APSIM, DSSAT, DNDC, supervised Machine Learning). For regression, it includes functions to generate plots (scatter, tiles, density, & Bland-Altman plot), and to estimate error metrics (e.g. MBE, MAE, RMSE), error decomposition (e.g. lack of accuracy-precision), model efficiency (e.g. NSE, E1, KGE), indices of agreement (e.g. d, RAC), goodness of fit (e.g. r, R2), adjusted correlation coefficients (e.g. CCC, dcorr), symmetric regression coefficients (intercept, slope), and mean absolute scaled error (MASE) for time series predictions. For classification (binomial and multinomial), it offers functions to generate and plot confusion matrices, and to estimate performance metrics such as accuracy, precision, recall, specificity, F-score, Cohen's Kappa, G-mean, and many more. For more details visit the vignettes <https://adriancorrendo.github.io/metrica/>.
Author: Adrian A. Correndo [cre, cph] ,
Adrian A. Correndo [aut] ,
Luiz H. Moro Rosso [aut] ,
Rai Schwalbert [aut] ,
Carlos Hernandez [aut] ,
Leonardo M. Bastos [aut] ,
Luciana Nieto [aut],
Dean Holzworth [aut],
Ignacio A. Ciampitti [aut]
Maintainer: Adrian A. Correndo <correndo@ksu.edu>
Diff between metrica versions 1.2.3 dated 2022-05-12 and 2.0.0 dated 2022-07-05
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Title: Plotting and Comparing Means with Violin Plots
Description: Produces violin plots with optional nonparametric (Mann-Whitney test) and parametric (Tukey's honest significant difference) mean comparison and linear regression. This package aims to be a simple and quick visualization tool for comparing means and assessing trends of categorical factors.
Author: Jefferson Paril <jeffersonparil@gmail.com>
Maintainer: Jefferson Paril <jeffersonparil@gmail.com>
Diff between violinplotter versions 3.0.0 dated 2021-11-17 and 3.0.1 dated 2022-07-05
DESCRIPTION | 9 ++--- MD5 | 15 ++++---- NAMESPACE | 2 + NEWS.md | 4 +- R/mean_comparison_HSD.R | 82 ++++++++++++++++++++++++++++-------------------- R/plot_violin_1x.R | 2 - README.md | 2 - inst |only tests/test1.R | 2 - 9 files changed, 69 insertions(+), 49 deletions(-)
Title: R Graphics Device using Cairo Graphics Library for Creating
High-Quality Bitmap (PNG, JPEG, TIFF), Vector (PDF, SVG,
PostScript) and Display (X11 and Win32) Output
Description: R graphics device using cairographics library that can be used to create high-quality vector (PDF, PostScript and SVG) and bitmap output (PNG,JPEG,TIFF), and high-quality rendering in displays (X11 and Win32). Since it uses the same back-end for all output, copying across formats is WYSIWYG. Files are created without the dependence on X11 or other external programs. This device supports alpha channel (semi-transparent drawing) and resulting images can contain transparent and semi-transparent regions. It is ideal for use in server environments (file output) and as a replacement for other devices that don't have Cairo's capabilities such as alpha support or anti-aliasing. Backends are modular such that any subset of backends is supported.
Author: Simon Urbanek <Simon.Urbanek@r-project.org>, Jeffrey Horner <jeff.horner@vanderbilt.edu>
Maintainer: Simon Urbanek <Simon.Urbanek@r-project.org>
Diff between Cairo versions 1.5-15 dated 2022-03-16 and 1.6-0 dated 2022-07-05
DESCRIPTION | 6 MD5 | 24 +- NEWS | 36 +++ R/Cairo.R | 2 configure | 141 ++++++++++++++- configure.ac | 78 ++++++++ man/CairoFontMatch.Rd | 4 src/cairobem.c | 16 + src/cairogd.c | 4 src/cairogd.h | 21 ++ src/cairotalk.c | 459 +++++++++++++++++++++++++++++++++++++++++++++----- src/cairotalk.h | 4 src/cconfig.h.in | 3 13 files changed, 726 insertions(+), 72 deletions(-)