Title: Reproduce Statistical Analyses and Meta-Analyses
Description: Includes data analysis functions (e.g., to calculate effect sizes and 95% Confidence Intervals (CI) on Standardised Effect Sizes (d) for ABBA cross-over repeated-measures experimental designs), data presentation functions (e.g., density curve overlaid on histogram), and the data sets analyzed in different research papers in software engineering (e.g., related to software defect prediction or multi-site experiment concerning the extent to which structured abstracts were clearer and more complete than conventional abstracts) to streamline reproducible research in software engineering.
Author: Lech Madeyski [cre, aut, ctb],
Barbara Kitchenham [ctb] (Data and code contributor),
Tomasz Lewowski [ctb] (Data and code contributor),
Marian Jureczko [ctb] (Data contributor),
David Budgen [ctb] (Data contributor),
Pearl Brereton [ctb] (Data contributor),
Jacky Keung [ctb] (Data contributor),
Stuart Charters [ctb] (Data contributor),
Shirley Gibbs [ctb] (Data contributor),
Amnart Pohthong [ctb] (Data contributor)
Maintainer: Lech Madeyski <lech.madeyski@gmail.com>
Diff between reproducer versions 0.2.1 dated 2018-11-05 and 0.3.0 dated 2019-04-30
DESCRIPTION | 19 MD5 | 23 NAMESPACE | 3 NEWS.md | 13 R/MetaAnalysisForFamiliesOfExperimentsSR.R | 1711 ++++++---- R/data.R | 57 R/github.R |only README.md | 2 data/MadeyskiLewowski.IndustryRelevantGitHubJavaProjects20190324.rda |only man/ExtractMAStatistics.Rd | 4 man/MadeyskiLewowski.IndustryRelevantGitHubJavaProjects20190324.Rd |only man/aggregateIndividualDocumentStatistics.Rd | 2 man/reproduceTablesOfPaperMetaAnalysisForFamiliesOfExperiments.Rd | 3 man/searchForIndustryRelevantGitHubProjects.Rd |only man/transformHgtoZr.Rd |only 15 files changed, 1171 insertions(+), 666 deletions(-)
Title: Movement Data Visualization
Description: Tools to visualize movement data (e.g. from GPS tracking) and temporal changes of environmental data (e.g. from remote sensing) by creating video animations.
Author: Jakob Schwalb-Willmann [aut, cre]
Maintainer: Jakob Schwalb-Willmann <movevis@schwalb-willmann.de>
Diff between moveVis versions 0.10.1 dated 2019-04-11 and 0.10.2 dated 2019-04-30
DESCRIPTION | 12 +++---- MD5 | 48 +++++++++++++++-------------- NAMESPACE | 7 ++-- NEWS.md | 54 +++++++++++++++++++++++++------- R/add_colourscale.R | 21 +++++++++--- R/add_northarrow.R | 14 ++++---- R/add_progress.R | 1 R/add_scalebar.R | 3 - R/add_text.R | 3 - R/add_timestamps.R | 23 +++++++------ R/align_move.R | 2 + R/animate_frames.R | 14 ++++++-- R/frames_graph.R | 13 ++++++- R/frames_spatial.R | 42 +++++++++++++++++-------- R/get_frametimes.R |only R/moveVis-internal.R | 81 +++++++++++++++++++++++++++++++++++++++---------- R/pipe.R |only R/pkgname.R | 5 ++- README.md | 60 +++++++++++++++++++++--------------- man/add_colourscale.Rd | 9 ++++- man/add_northarrow.Rd | 12 +++---- man/add_timestamps.Rd | 13 ++++--- man/animate_frames.Rd | 8 +++- man/frames_spatial.Rd | 28 ++++++++++++---- man/get_frametimes.Rd |only man/moveVis-package.Rd | 3 + man/pipe.Rd |only 27 files changed, 322 insertions(+), 154 deletions(-)
Title: Hierarchical Latent Space Network Model
Description: Implements Hierarchical Latent Space Network Model (HLSM) for ensemble of networks as described in Sweet et. al. (2012). <DOI:10.3102/1076998612458702>.
Author: Samrachana Adhikari, Brian Junker, Tracy Sweet, Andrew C. Thomas
Maintainer: Aditya Bhat<adiravbhat@gmail.com>
Diff between HLSM versions 0.8 dated 2018-05-26 and 0.8.1 dated 2019-04-30
HLSM-0.8.1/HLSM/DESCRIPTION | 12 HLSM-0.8.1/HLSM/MD5 | 16 HLSM-0.8.1/HLSM/NAMESPACE | 22 HLSM-0.8.1/HLSM/R/MainDiagnosticFunctions.R |only HLSM-0.8.1/HLSM/R/PlottingHLSMFitsfromHLSMPackage.R |only HLSM-0.8.1/HLSM/R/adjust.my.tune.R | 54 +- HLSM-0.8.1/HLSM/R/diagnosticBoxplots.R |only HLSM-0.8.1/HLSM/man/Diagnostics.Rd |only HLSM-0.8.1/HLSM/man/HLSM_run.Rd | 473 +++++++++----------- HLSM-0.8.1/HLSM/man/boxplots.Rd |only HLSM-0.8/HLSM/R/PlottingHLSMFitsfromHLSMPackage.r |only HLSM-0.8/HLSM/demo |only 12 files changed, 291 insertions(+), 286 deletions(-)
Title: Visualization Package for CanvasXpress in R
Description: Enables creation of visualizations using the CanvasXpress framework
in R. CanvasXpress is a standalone JavaScript library for reproducible research
with complete tracking of data and end-user modifications stored in a single
PNG image that can be played back. See <http://canvasxpress.org> for more
information.
Author: Isaac Neuhaus [aut],
Connie Brett [aut, cre]
Maintainer: Connie Brett <connie@aggregate-genius.com>
Diff between canvasXpress versions 1.23.3 dated 2019-02-25 and 1.23.9 dated 2019-04-30
DESCRIPTION | 6 MD5 | 68 NEWS.md | 13 R/canvasXpress.R | 197 - R/internal_functionality.R | 97 README.md | 4 build/vignette.rds |binary inst/doc/additional_examples.Rmd | 2 inst/doc/additional_examples.html | 453 ++ inst/doc/getting_started.Rmd | 4 inst/doc/getting_started.html | 455 ++ inst/extdata/cX-networkbasic-nodes.txt.gz |binary inst/extdata/cX-overlays-smp.txt.gz |binary inst/extdata/cX-swimmer-smp.txt.gz |binary inst/extdata/cX-wpapoptosis-edges.txt.gz |binary inst/extdata/cX-wpapoptosis-nodes.txt.gz |binary inst/htmlwidgets/canvasXpress.yaml | 2 inst/htmlwidgets/lib/canvasXpress/canvasXpress.css | 2904 +++++++++++++++++- inst/htmlwidgets/lib/canvasXpress/canvasXpress.min.js | 4 man/canvasXpress-package.Rd | 4 man/canvasXpress.Rd | 4 man/canvasXpressOutput.Rd | 2 man/renderCanvasXpress.Rd | 6 tests/cX-ui-functions.R | 29 tests/testthat/test-other-duplicated-labels.R | 74 tests/testthat/test-other-precalculated-barplot.R |only tests/testthat/test-other-precalculated-boxplot.R | 28 tests/testthat/test-other-segregation-violin.R |only tests/testthat/test-ui-bar.R | 2 tests/testthat/test-ui-heatmap.R | 2 tests/testthat/test-ui-kaplanmeier.R | 5 tests/testthat/test-ui-layout.R | 11 tests/testthat/test-ui-network.R | 2 tests/testthat/test-ui-radar.R | 2 vignettes/additional_examples.Rmd | 2 vignettes/getting_started.Rmd | 4 36 files changed, 3932 insertions(+), 454 deletions(-)
Title: Calculating Concentration Risk under Solvency II
Description: Methods for determining spatial risk, in particular calculating the maximum value of insured fire risk policies of all buildings that are partly or fully located within circle of a radius of 200m.
Author: Martin Haringa
Maintainer: Martin Haringa <mtharinga@gmail.com>
Diff between spatialrisk versions 0.6.0 dated 2019-04-08 and 0.6.1 dated 2019-04-30
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NAMESPACE | 1 + NEWS.md | 4 ++++ R/map_ggplot2.R | 8 +++++--- R/map_tmap.R | 13 +++++++------ R/nl_gemeente.R | 2 +- R/nlchoropleth.R | 14 +++++++++++++- man/choropleth_ggplot2.Rd | 6 +++++- man/choropleth_sf.Rd | 4 +++- man/choropleth_tmap.Rd | 4 ++-- man/nl_corop.Rd | 2 +- 12 files changed, 56 insertions(+), 30 deletions(-)
Title: Model Agnostic Instance Level Variable Attributions
Description: Model agnostic tool for decomposition of predictions from black boxes.
Supports additive attributions and attributions with interactions.
The Break Down Table shows contributions of every variable to a final prediction.
The Break Down Plot presents variable contributions in a concise graphical way.
This package works for classification and regression models.
It is an extension of the 'breakDown' package (Staniak and Biecek 2018) <doi:10.32614/RJ-2018-072>,
with new and faster strategies for orderings.
It supports interactions in explanations and has interactive visuals (implemented with 'D3.js' library).
The methodology behind is described in the 'iBreakDown' article (Gosiewska and Biecek 2019) <arXiv:1903.11420>
This package is a part of the 'DrWhy.AI' universe (Biecek 2018) <arXiv:1806.08915>.
Author: Przemyslaw Biecek [aut, cre],
Alicja Gosiewska [aut],
Dariusz Komosinski [ctb]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between iBreakDown versions 0.9.5 dated 2019-04-04 and 0.9.6 dated 2019-04-30
iBreakDown-0.9.5/iBreakDown/R/local_attributions_uncertainty.R |only iBreakDown-0.9.5/iBreakDown/man/local_attributions_uncertainty.Rd |only iBreakDown-0.9.6/iBreakDown/DESCRIPTION | 6 - iBreakDown-0.9.6/iBreakDown/MD5 | 36 +++---- iBreakDown-0.9.6/iBreakDown/NAMESPACE | 9 + iBreakDown-0.9.6/iBreakDown/NEWS.md | 7 + iBreakDown-0.9.6/iBreakDown/R/break_down_uncertainty.R |only iBreakDown-0.9.6/iBreakDown/R/plotD3_break_down.R | 2 iBreakDown-0.9.6/iBreakDown/R/plot_break_down_uncertainty.R | 29 ++++-- iBreakDown-0.9.6/iBreakDown/R/print_break_down_uncertainty.R | 11 +- iBreakDown-0.9.6/iBreakDown/inst/doc/vignette_iBreakDown_classification.html | 44 ++++----- iBreakDown-0.9.6/iBreakDown/inst/doc/vignette_iBreakDown_regression.html | 30 +++--- iBreakDown-0.9.6/iBreakDown/inst/doc/vignette_iBreakDown_titanic.R | 4 iBreakDown-0.9.6/iBreakDown/inst/doc/vignette_iBreakDown_titanic.Rmd | 4 iBreakDown-0.9.6/iBreakDown/inst/doc/vignette_iBreakDown_titanic.html | 46 +++++----- iBreakDown-0.9.6/iBreakDown/man/break_down_uncertainty.Rd |only iBreakDown-0.9.6/iBreakDown/man/plot.break_down_uncertainty.Rd | 18 ++- iBreakDown-0.9.6/iBreakDown/man/plotD3.Rd | 2 iBreakDown-0.9.6/iBreakDown/man/print.break_down_uncertainty.Rd | 6 - iBreakDown-0.9.6/iBreakDown/tests/testthat/test_break_down_uncertainty.R | 12 +- iBreakDown-0.9.6/iBreakDown/vignettes/vignette_iBreakDown_titanic.Rmd | 4 21 files changed, 152 insertions(+), 118 deletions(-)
Title: Time-Course Gene Set Analysis
Description: Implementation of Time-course Gene Set Analysis (TcGSA), a method for analyzing longitudinal gene-expression data at the gene set level.
Author: Boris P. Hejblum [aut, cre],
Damien Chimits [aut],
Anthony Devaux [aut]
Maintainer: Boris P. Hejblum <boris.hejblum@u-bordeaux.fr>
Diff between TcGSA versions 0.12.2 dated 2019-01-16 and 0.12.4 dated 2019-04-30
DESCRIPTION | 8 MD5 | 48 ++-- NEWS.md | 4 R/TcGSA-package.R | 6 R/clustTrend.R | 40 ++- R/plot.TcGSA.R | 12 - R/plot1GS.R | 29 ++ R/plotMultipleGS.R | 12 - R/plotPat.1GS.R | 11 - R/plotPat.TcGSA.R | 21 + R/plotSelect.GS.R | 11 - README.md | 58 +++-- build/vignette.rds |binary inst/doc/TcGSA_userguide.R | 48 ++-- inst/doc/TcGSA_userguide.Rmd | 57 +++-- inst/doc/TcGSA_userguide.html | 455 +++++++++++++++++++++--------------------- man/TcGSA-package.Rd | 6 man/clustTrend.Rd | 11 - man/plot.TcGSA.Rd | 27 +- man/plot1GS.Rd | 19 + man/plotMultipleGS.Rd | 7 man/plotPat.1GS.Rd | 16 + man/plotPat.TcGSA.Rd | 25 +- man/plotSelect.GS.Rd | 16 + vignettes/TcGSA_userguide.Rmd | 57 +++-- 25 files changed, 580 insertions(+), 424 deletions(-)
Title: Computation of High-Order Sobol' Sensitivity Indices
Description: It allows to rapidly compute, bootstrap and plot up to third-order Sobol' indices
using the estimators by Saltelli et al. 2010 <doi:10.1016/j.cpc.2009.09.018> and
Jansen 1999 <doi:10.1016/S0010-4655(98)00154-4>. The 'sensobol' package also implements
the algorithm by Khorashadi Zadeh et al. 2017 <doi:10.1016/j.envsoft.2017.02.001> to
calculate the approximation error in the computation of Sobol' first and
total indices, an approach that allows to robustly screen influential from non-influential
model inputs. Finally, it also provides functions to obtain publication-ready figures
of the model output uncertainty and sensitivity-related analysis.
Author: Arnald Puy [aut, cre] (<https://orcid.org/0000-0001-9469-2156>),
Bertrand Ioos [ctb] (Author of included 'sensitivity' fragments),
Gilles Pujol [ctb] (Author of included 'sensitivity' fragments),
RStudio [cph] (Copyright holder of included 'sensitivity' fragments)
Maintainer: Arnald Puy <arnald.puy@gmail.com>
Diff between sensobol versions 0.1.1 dated 2019-03-12 and 0.2.0 dated 2019-04-30
sensobol-0.1.1/sensobol/man/ishigami.Rd |only sensobol-0.2.0/sensobol/DESCRIPTION | 12 - sensobol-0.2.0/sensobol/MD5 | 30 ++-- sensobol-0.2.0/sensobol/NAMESPACE | 3 sensobol-0.2.0/sensobol/NEWS.md | 11 + sensobol-0.2.0/sensobol/R/sobol_matrices.R | 27 +++- sensobol-0.2.0/sensobol/R/test_functions.R | 164 +++++++++++++++++++++++-- sensobol-0.2.0/sensobol/README.md | 6 sensobol-0.2.0/sensobol/build/partial.rdb |binary sensobol-0.2.0/sensobol/build/vignette.rds |binary sensobol-0.2.0/sensobol/inst/REFERENCES.bib | 61 +++++++++ sensobol-0.2.0/sensobol/inst/doc/sensobol.html | 32 +++- sensobol-0.2.0/sensobol/man/bratley1988_Fun.Rd |only sensobol-0.2.0/sensobol/man/bratley1992_Fun.Rd |only sensobol-0.2.0/sensobol/man/ishigami_Mapply.Rd | 11 + sensobol-0.2.0/sensobol/man/oakley_Fun.Rd |only sensobol-0.2.0/sensobol/man/sobol_Fun.Rd | 8 - sensobol-0.2.0/sensobol/man/sobol_matrices.Rd | 11 + 18 files changed, 321 insertions(+), 55 deletions(-)
Title: Generalized Linear Models with Clustering
Description: Binomial and Poisson regression for clustered data, fixed
and random effects with bootstrapping.
Author: Göran Broström
Maintainer: Göran Broström <goran.brostrom@umu.se>
Diff between glmmML versions 1.0.3 dated 2018-03-25 and 1.1.0 dated 2019-04-30
ChangeLog | 4 ++++ DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/glmmML.R | 1 + R/glmmboot.R | 1 + man/glmmML.Rd | 9 +++++---- man/glmmboot.Rd | 7 ++++--- 7 files changed, 25 insertions(+), 17 deletions(-)
Title: R Interface to the Giphy API
Description: An interface to the 'API' of 'Giphy', a popular index-based search
engine for 'GIFs' and animated stickers (see <http://giphy.com/faq> and
<https://github.com/Giphy/GiphyAPI> for more information about 'Giphy' and
its 'API') . This package also provides a 'RStudio Addin', which can help
users easily search and download 'GIFs' and insert them to a 'rmarkdown'
presentation.
Author: Hao Zhu [aut, cre] (<https://orcid.org/0000-0002-3386-6076>)
Maintainer: Hao Zhu <haozhu233@gmail.com>
Diff between giphyr versions 0.1.3 dated 2018-11-14 and 0.2.0 dated 2019-04-30
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/gif_search.R | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Calculate TL-Moments and Convert Them to Distribution Parameters
Description: Calculates empirical TL-moments (trimmed L-moments) of arbitrary
order and trimming, and converts them to distribution parameters.
Author: Jona Lilienthal
Maintainer: Jona Lilienthal <lilienthal@statistik.tu-dortmund.de>
Diff between TLMoments versions 0.7.4.1 dated 2019-01-02 and 0.7.4.3 dated 2019-04-30
DESCRIPTION | 8 MD5 | 38 - NAMESPACE | 4 R/PWMs.R | 2 R/TLMoments.R | 2 R/covfunctions.R | 2 R/distribution_functions.R | 34 + R/est_tlmcov.R | 6 R/helper.R | 4 R/plot.TLMoments.R | 82 ++- R/regionalize.R | 115 ++++- R/sysdata.rda |binary build/vignette.rds |binary inst/doc/comparison_of_computation_time.Rmd | 19 inst/doc/comparison_of_computation_time.html | 616 +++++++++------------------ inst/doc/short_introduction.html | 608 ++++++++------------------ man/est_tlmcov.Rd | 2 man/plot.TLMoments.Rd | 51 +- man/regionalize.Rd | 48 +- vignettes/comparison_of_computation_time.Rmd | 19 20 files changed, 732 insertions(+), 928 deletions(-)
Title: Manipulation of Microsoft Word and PowerPoint Documents
Description: Access and manipulate 'Microsoft Word' and 'Microsoft PowerPoint' documents from R.
The package focuses on tabular and graphical reporting from R; it also provides two functions
that let users get document content into data objects. A set of functions
lets add and remove images, tables and paragraphs of text in new or existing documents.
When working with 'PowerPoint' presentations, slides can be added or removed; shapes inside
slides can also be added or removed. When working with 'Word' documents, a cursor can be
used to help insert or delete content at a specific location in the document. The package
does not require any installation of Microsoft products to be able to write Microsoft files.
Author: David Gohel [aut, cre],
Frank Hangler [ctb] (function body_replace_all_text),
Liz Sander [ctb] (several documentation fixes),
Anton Victorson [ctb] (fixes xml structures),
Jon Calder [ctb] (update vignettes),
John Harrold [ctb] (fuction annotate_base)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between officer versions 0.3.3 dated 2019-03-01 and 0.3.4 dated 2019-04-30
DESCRIPTION | 8 - MD5 | 47 +++++----- NAMESPACE | 1 NEWS | 6 + R/core_properties.R | 159 +++++++++++++++++-------------------- R/docx_add.R | 15 +++ R/docx_part.R | 2 R/docx_replace.R | 48 +++++++++++ R/fp_text.R | 4 R/openxml_content_type.R | 1 R/pack_folder.R | 28 ++++-- R/ppt_ph_with_methods.R | 56 ++++++++++--- R/read_docx.R | 50 +++++++---- R/read_pptx.R | 9 +- R/read_xlsx.R | 8 - README.md | 12 +- build/vignette.rds |binary inst/doc/officer_reader.html | 3 inst/doc/powerpoint.html | 23 +++-- inst/doc/word.html | 25 +++-- man/doc_properties.Rd | 2 man/ph_with.Rd | 22 ++++- man/sanitize_images.Rd |only man/unpack_folder.Rd | 3 tests/testthat/test-fp-text-misc.R | 2 25 files changed, 342 insertions(+), 192 deletions(-)
Title: Native R Kernel for the 'Jupyter Notebook'
Description: The R kernel for the 'Jupyter' environment executes R code which the front-end
('Jupyter Notebook' or other front-ends) submits to the kernel via the network.
Author: Thomas Kluyver [aut, cph],
Philipp Angerer [aut, cph, cre]
(<https://orcid.org/0000-0002-0369-2888>),
Jan Schulz [aut, cph],
Karthik Ram [aut, cph]
Maintainer: Philipp Angerer <phil.angerer@gmail.com>
Diff between IRkernel versions 0.8.15 dated 2019-01-07 and 1.0.0 dated 2019-04-30
IRkernel-0.8.15/IRkernel/tests/testthat/__pycache__/test_ir.cpython-35.pyc |only IRkernel-0.8.15/IRkernel/tests/testthat/__pycache__/test_ir.cpython-36.pyc |only IRkernel-0.8.15/IRkernel/tests/testthat/jkt/jupyter_kernel_test/__pycache__/__init__.cpython-36.pyc |only IRkernel-0.8.15/IRkernel/tests/testthat/jkt/jupyter_kernel_test/__pycache__/messagespec.cpython-36.pyc |only IRkernel-0.8.15/IRkernel/tests/testthat/jkt/jupyter_kernel_test/__pycache__/messagespec_common.cpython-36.pyc |only IRkernel-1.0.0/IRkernel/DESCRIPTION | 12 +-- IRkernel-1.0.0/IRkernel/MD5 | 21 ++--- IRkernel-1.0.0/IRkernel/NAMESPACE | 1 IRkernel-1.0.0/IRkernel/R/completion.r |only IRkernel-1.0.0/IRkernel/R/environment_shadow.r | 22 ++++- IRkernel-1.0.0/IRkernel/R/kernel.r | 38 +--------- IRkernel-1.0.0/IRkernel/tests/testthat/__pycache__/test_ir.cpython-37.pyc |only IRkernel-1.0.0/IRkernel/tests/testthat/jkt/jupyter_kernel_test/__pycache__/__init__.cpython-37.pyc |only IRkernel-1.0.0/IRkernel/tests/testthat/jkt/jupyter_kernel_test/__pycache__/messagespec.cpython-37.pyc |only IRkernel-1.0.0/IRkernel/tests/testthat/jkt/jupyter_kernel_test/__pycache__/messagespec_common.cpython-37.pyc |only IRkernel-1.0.0/IRkernel/tests/testthat/njr |only IRkernel-1.0.0/IRkernel/tests/testthat/test_ir.py | 20 +++-- 17 files changed, 53 insertions(+), 61 deletions(-)
Title: Distance Measure Based Judgment and Learning
Description: Implements various decision support tools related to the Econometrics & Technometrics.
Subroutines include correlation reliability test, Mahalanobis distance measure for outlier detection, combinatorial search (all possible subset regression), non-parametric efficiency analysis measures: DDF (directional distance function), DEA (data envelopment analysis), HDF (hyperbolic distance function), SBM (slack-based measure), and SF (shortage function), benchmarking, Malmquist productivity analysis, risk analysis, technology adoption model, new product target setting, etc.
Author: Dong-Joon Lim, PhD
Maintainer: Dong-Joon Lim <tgno3.com@gmail.com>
Diff between DJL versions 2.9.2 dated 2019-03-05 and 3.0 dated 2019-04-30
DESCRIPTION | 8 - MD5 | 10 +- NAMESPACE | 1 NEWS | 11 ++ R/DJL-internal.R | 250 +++++++++++++++++++++++++-------------------------- R/dm.dynamic.bc.R |only man/dm.dynamic.bc.Rd |only 7 files changed, 147 insertions(+), 133 deletions(-)
Title: Set of Tools to Compute Various Climate Indices
Description: Set of tools to compute metrics and indices for climate analysis.
The package provides functions to compute extreme indices, evaluate the
agreement between models and combine theses models into an ensemble. Multi-model
time series of climate indices can be computed either after averaging the 2-D
fields from different models provided they share a common grid or by combining
time series computed on the model native grid. Indices can be assigned weights
and/or combined to construct new indices.
Author: BSC-CNS [aut, cph],
Alasdair Hunter [aut],
Nuria Perez-Zanon [aut, cre],
Nicolau Manubens [ctb],
Louis-Philippe Caron [ctb]
Maintainer: Nuria Perez-Zanon <nuria.perez@bsc.es>
Diff between ClimProjDiags versions 0.0.2 dated 2018-12-10 and 0.0.3 dated 2019-04-30
DESCRIPTION | 16 +++++++++++----- MD5 | 32 ++++++++++++++++---------------- R/SeasonSelect.R | 2 +- R/WeightedMean.R | 2 +- man/AnoAgree.Rd | 1 + man/Climdex.Rd | 1 + man/CombineIndices.Rd | 1 + man/DTRIndicator.Rd | 1 + man/DTRRef.Rd | 1 + man/DailyAno.Rd | 1 + man/Extremes.Rd | 1 + man/SeasonSelect.Rd | 1 + man/SelBox.Rd | 1 + man/Subset.Rd | 1 + man/Threshold.Rd | 1 + man/WaveDuration.Rd | 1 + man/WeightedMean.Rd | 1 + 17 files changed, 42 insertions(+), 23 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-02-22 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-24 0.2.2
2017-01-30 0.2.1
2016-08-16 0.2
2015-11-30 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-27 0.1
Title: Testing Linear Regression Models
Description: A collection of tests, data sets, and examples
for diagnostic checking in linear regression models. Furthermore,
some generic tools for inference in parametric models are provided.
Author: Torsten Hothorn [aut] (<https://orcid.org/0000-0001-8301-0471>),
Achim Zeileis [aut, cre] (<https://orcid.org/0000-0003-0918-3766>),
Richard W. Farebrother [aut] (pan.f),
Clint Cummins [aut] (pan.f),
Giovanni Millo [ctb],
David Mitchell [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between lmtest versions 0.9-36 dated 2018-04-04 and 0.9-37 dated 2019-04-30
DESCRIPTION | 10 +++--- MD5 | 54 ++++++++++++++++++------------------- NAMESPACE | 2 + NEWS | 17 +++++++++++ R/coeftest.R | 31 +++++++++++++++++++++ build/vignette.rds |binary data/ChickEgg.rda |binary data/Mandible.rda |binary data/USDistLag.rda |binary data/bondyield.rda |binary data/currencysubstitution.rda |binary data/ftemp.rda |binary data/fyff.rda |binary data/gmdc.rda |binary data/growthofmoney.rda |binary data/ip.rda |binary data/jocci.rda |binary data/lhur.rda |binary data/moneydemand.rda |binary data/pw561.rda |binary data/unemployment.rda |binary data/valueofstocks.rda |binary data/wages.rda |binary inst/doc/lmtest-intro.pdf |binary man/coeftest.Rd | 48 ++++++++++++++++++++++---------- man/dwtest.Rd | 2 - man/ftemp.Rd | 6 ---- tests/Examples/lmtest-Ex.Rout.save | 42 +++++++++++++++++++++------- 28 files changed, 148 insertions(+), 64 deletions(-)
Title: Uniform Manifold Approximation and Projection
Description: Uniform manifold approximation and projection is a technique
for dimension reduction. The algorithm was described by McInnes and
Healy (2018) in <arXiv:1802.03426>. This package provides an interface
for two implementations. One is written from scratch, including components
for nearest-neighbor search and for embedding. The second implementation
is a wrapper for 'python' package 'umap-learn' (requires separate
installation, see vignette for more details).
Author: Tomasz Konopka [aut, cre]
Maintainer: Tomasz Konopka <tokonopka@gmail.com>
Diff between umap versions 0.2.0.0 dated 2018-07-25 and 0.2.1.0 dated 2019-04-30
DESCRIPTION | 19 ++-- MD5 | 52 +++++------ R/coo.R | 159 ++++++++++++++++------------------ R/coo_spectral.R | 99 ++++++++++----------- R/embedding.R | 158 +++++++++++++++++---------------- R/knn.R | 9 + R/umap.R | 6 - R/umap_learn.R | 2 R/umap_naive.R | 1 build/vignette.rds |binary inst/doc/umap.R | 7 - inst/doc/umap.Rmd | 7 - inst/doc/umap.html | 73 ++++++++++----- inst/doc/umap_learn.html | 44 +++++++-- man/check.learn.available.Rd | 1 man/make.spectral.embedding.Rd | 2 man/naive.simplicial.set.embedding.Rd | 3 man/smooth.knn.dist.Rd | 5 - man/umap.defaults.Rd | 6 - man/umap.learn.predict.Rd | 1 man/umap.naive.predict.Rd | 1 tests/testthat/test_embedding.R | 79 ++++++++++++++++ tests/testthat/test_naive.R | 16 +++ tests/testthat/test_rcpp.R | 5 - tests/testthat/test_spectral.R | 4 tests/testthat/train_test.R | 2 vignettes/umap.Rmd | 7 - 27 files changed, 459 insertions(+), 309 deletions(-)
Title: A Server-Side File System Viewer for Shiny
Description: Provides functionality for client-side navigation of
the server side file system in shiny apps. In case the app is running
locally this gives the user direct access to the file system without the
need to "download" files to a temporary location. Both file and folder
selection as well as file saving is available.
Author: Thomas Lin Pedersen [cre, aut],
Vincent Nijs [aut],
Thomas Schaffner [aut],
Eric Nantz [aut]
Maintainer: Thomas Lin Pedersen <thomasp85@gmail.com>
Diff between shinyFiles versions 0.7.2 dated 2018-11-12 and 0.7.3 dated 2019-04-30
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 7 +++++++ R/filechoose.R | 8 ++++---- inst/www/fileIcons.css | 10 ++++++++-- inst/www/shinyFiles.js | 36 ++++++++++++++++++++++-------------- 6 files changed, 51 insertions(+), 30 deletions(-)
Title: Soft-Discretization-Based Bayesian Network Inference
Description: Fitting discrete Bayesian networks using soft-discretized data. Soft-discretization is based on mixture of normal distributions. Also implemented is a supervised Bayesian network learning employing Kullback-Leibler divergence. For more information see Balov (2013) <DOI:10.1186/1755-8794-6-S3-S1>.
Author: Nikolay Balov
Maintainer: Nikolay Balov <nhbalov@gmail.com>
Diff between sdnet versions 2.4.0 dated 2019-04-22 and 2.4.1 dated 2019-04-30
DESCRIPTION | 6 ++-- MD5 | 16 ++++++------ R/samples.R | 4 +-- src/catnet_entropy.cpp | 62 +++++++++++++++++++++++++++++-------------------- src/catnet_rexport.cpp | 18 ++++++-------- src/rcatnet.cpp | 13 ++++++---- src/rcatnet_hist.cpp | 2 - src/rcatnet_sa.cpp | 2 - src/rcatnet_search.cpp | 6 ++-- 9 files changed, 71 insertions(+), 58 deletions(-)
Title: R Speaks 'Monolix'
Description: Provides methods for model building and model evaluation of mixed effects models using
'Monolix' <http://monolix.lixoft.com>. 'Monolix' is a software tool for nonlinear mixed effects
modeling that must have been installed in order to use 'Rsmlx'.
Among other tasks, 'Rsmlx' provides a powerful tool for automatic PK model building, performs
statistical tests for model assessment, bootstrap simulation and likelihood profiling for
computing confidence intervals. 'Rsmlx' also proposes several automatic covariate search methods for
mixed effects models.
Author: Marc Lavielle [aut, cre],
Jonathan Chauvin [aut],
Duc-Dung Tran [ctb]
Maintainer: Marc Lavielle <Marc.Lavielle@inria.fr>
Diff between Rsmlx versions 1.1.0 dated 2018-07-16 and 2.0.2 dated 2019-04-30
Rsmlx-1.1.0/Rsmlx/R/APIManager.R |only Rsmlx-1.1.0/Rsmlx/R/APITools.R |only Rsmlx-1.1.0/Rsmlx/R/CovariateModel.R |only Rsmlx-1.1.0/Rsmlx/R/IndividualModel.R |only Rsmlx-1.1.0/Rsmlx/R/MlxCore.R |only Rsmlx-1.1.0/Rsmlx/R/MlxEnvironment.R |only Rsmlx-1.1.0/Rsmlx/R/ObservationModel.R |only Rsmlx-1.1.0/Rsmlx/R/PopulationParameters.R |only Rsmlx-1.1.0/Rsmlx/R/ProjectManagement.R |only Rsmlx-1.1.0/Rsmlx/R/Results.R |only Rsmlx-1.1.0/Rsmlx/R/Scenario.R |only Rsmlx-1.1.0/Rsmlx/R/Settings2.R |only Rsmlx-1.1.0/Rsmlx/R/displayTools.R |only Rsmlx-1.1.0/Rsmlx/R/initializeRsmlx.R |only Rsmlx-1.1.0/Rsmlx/R/readdatamlx.R |only Rsmlx-1.1.0/Rsmlx/man/GetEstimatedCovarianceMatrix.Rd |only Rsmlx-1.1.0/Rsmlx/man/initializeMlxConnectors.Rd |only Rsmlx-1.1.0/Rsmlx/man/readDatamlx.Rd |only Rsmlx-2.0.2/Rsmlx/DESCRIPTION | 27 Rsmlx-2.0.2/Rsmlx/MD5 | 80 - Rsmlx-2.0.2/Rsmlx/NAMESPACE | 10 Rsmlx-2.0.2/Rsmlx/R/RsmlxTools.R | 168 +++ Rsmlx-2.0.2/Rsmlx/R/bootstrap.R | 465 +++++++--- Rsmlx-2.0.2/Rsmlx/R/buildmlx.R | 161 ++- Rsmlx-2.0.2/Rsmlx/R/confintmlx.R | 54 - Rsmlx-2.0.2/Rsmlx/R/correlationModelSelection.R | 12 Rsmlx-2.0.2/Rsmlx/R/covariateModelSelection.R | 50 - Rsmlx-2.0.2/Rsmlx/R/covariateSearch.R | 99 +- Rsmlx-2.0.2/Rsmlx/R/errorModelSelection.R | 90 +- Rsmlx-2.0.2/Rsmlx/R/llp.R | 38 Rsmlx-2.0.2/Rsmlx/R/mlxConnectors.R |only Rsmlx-2.0.2/Rsmlx/R/newConnectors.R | 197 +--- Rsmlx-2.0.2/Rsmlx/R/pkbuild.R | 40 Rsmlx-2.0.2/Rsmlx/R/pkpopini.R | 575 ++++++++++++- Rsmlx-2.0.2/Rsmlx/R/setSettings.R | 49 - Rsmlx-2.0.2/Rsmlx/R/testmlx.R | 396 ++++++-- Rsmlx-2.0.2/Rsmlx/R/whichPKmodel.R | 3 Rsmlx-2.0.2/Rsmlx/R/zzz.R |only Rsmlx-2.0.2/Rsmlx/man/bootmlx.Rd | 16 Rsmlx-2.0.2/Rsmlx/man/buildmlx.Rd | 17 Rsmlx-2.0.2/Rsmlx/man/confintmlx.Rd | 6 Rsmlx-2.0.2/Rsmlx/man/covariateSearch.Rd | 6 Rsmlx-2.0.2/Rsmlx/man/getEstimatedCovarianceMatrix.Rd |only Rsmlx-2.0.2/Rsmlx/man/getEstimatedIndividualParameters2.Rd | 2 Rsmlx-2.0.2/Rsmlx/man/getEstimatedPredictions.Rd | 2 Rsmlx-2.0.2/Rsmlx/man/getEstimatedResiduals.Rd | 2 Rsmlx-2.0.2/Rsmlx/man/getSimulatedPredictions.Rd | 2 Rsmlx-2.0.2/Rsmlx/man/getSimulatedResiduals.Rd | 2 Rsmlx-2.0.2/Rsmlx/man/initRsmlx.Rd |only Rsmlx-2.0.2/Rsmlx/man/pkbuild.Rd | 9 Rsmlx-2.0.2/Rsmlx/man/setSettings.Rd | 6 Rsmlx-2.0.2/Rsmlx/man/testmlx.Rd | 34 52 files changed, 1831 insertions(+), 787 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] (<https://orcid.org/0000-0001-9164-2102>),
Jasper Cooper [aut] (<https://orcid.org/0000-0002-8639-3188>),
Alexander Coppock [aut] (<https://orcid.org/0000-0002-5733-2386>),
Macartan Humphreys [aut] (<https://orcid.org/0000-0001-7029-2326>),
Neal Fultz [aut]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between DeclareDesign versions 0.16.0 dated 2019-01-26 and 0.18.0 dated 2019-04-30
DESCRIPTION | 12 +- MD5 | 54 +++++----- NAMESPACE | 7 + NEWS.md | 5 R/aaa.R | 9 + R/compare_designs.R |only R/declare_diagnosands.R | 37 ++++++ R/declare_estimator.R | 2 R/declare_reveal.R | 2 R/design_helper_functions.R | 8 + R/diagnose_design.R | 34 +++--- R/diagnosis_helper_functions.R | 1 R/draw_functions.R | 11 +- R/get_functions.R | 27 ++++- R/modify_design.R | 8 + R/redesign.R | 2 R/set_citation.R | 2 R/set_diagnosands.R | 16 ++- man/compare_functions.Rd |only man/declare_diagnosands.Rd | 37 ++++++ man/post_design.Rd | 2 man/set_diagnosands.Rd | 11 +- tests/testthat/test-allow-custom-functions.R | 11 ++ tests/testthat/test-alternative-df-compatibility.R | 17 +++ tests/testthat/test-compare-designs.R | 112 ++++++++++++++------- tests/testthat/test-diagnose-design.R | 25 ++++ tests/testthat/test-get-estimates.R | 32 ++++++ tests/testthat/test-get-star.R | 6 + tests/testthat/test-reshape-diagnosis.R | 23 ++++ 29 files changed, 417 insertions(+), 96 deletions(-)
Title: Estimation and Use of the Generalised (Tukey) Lambda
Distribution
Description: The generalised lambda distribution, or Tukey lambda distribution, provides a wide variety of shapes with one functional form.
This package provides random numbers, quantiles, probabilities, densities and density quantiles for four different types of the distribution;
see documentation for details.
It provides the density function, distribution function, and Quantile-Quantile plots.
It implements a variety of estimation methods for the distribution, including diagnostic plots.
Estimation methods include the starship (all 4 types),
method of L-Moments for the GPD and FKML types, and a number of methods for only the FKML parameterisation.
These include maximum likelihood, maximum product of spacings, Titterington's method, Moments, Trimmed L-Moments and Distributional Least Absolutes.
Author: Robert King <Robert.King@newcastle.edu.au>,
Benjamin Dean <Benjamin.Dean@uon.edu.au>, Sigbert Klinke, Paul van Staden
Maintainer: Robert King <Robert.King@newcastle.edu.au>
Diff between gld versions 2.4.1 dated 2016-12-05 and 2.4.2 dated 2019-04-30
Changelog | 9 +++++ DESCRIPTION | 20 ++++++------ MD5 | 35 ++++++++++++--------- NAMESPACE | 4 +- NEWS | 13 +++++++ R/BetaLambdaLambda.R |only R/CheckParameters.R | 12 +++++-- R/fit.gpd.R | 73 ++++++++++++++++++++++++++++++++++++-------- R/gld.gpd.se.R |only R/gldgpdNus.R |only R/methods.R | 34 ++++++++++++++++++-- R/qfgld.R | 4 +- TODO | 5 --- man/BetaLambdaLambda.Rd |only man/fit.fkml.Rd | 4 +- man/fit.fkml.moments.val.Rd | 9 +++-- man/fit.gpd.Rd | 2 - man/gl.check.lambda.Rd | 10 +++--- man/gld.lmoments.Rd | 2 + man/plot.starship.Rd | 6 +-- src/init.c |only 21 files changed, 179 insertions(+), 63 deletions(-)
Title: Enterprise Streamlined 'Shiny' Application Framework
Description: An enterprise-targeted scalable and UI-standardized 'shiny' framework
including a variety of developer convenience functions with the goal of both
streamlining robust application development while assisting with creating a
consistent user experience regardless of application or developer.
Author: Constance Brett [aut, cre],
Isaac Neuhaus [aut] (canvasXpress JavaScript Library Maintainer),
Ger Inberg [ctb],
Bristol-Meyers Squibb (BMS) [cph]
Maintainer: Constance Brett <connie@aggregate-genius.com>
Diff between periscope versions 0.4.1 dated 2019-03-06 and 0.4.2 dated 2019-04-30
DESCRIPTION | 8 MD5 | 68 ++-- NEWS.md | 5 R/downloadFile.R | 14 R/downloadablePlot.R | 8 R/downloadableTable.R | 10 R/generate_template.R | 2 README.md | 4 build/vignette.rds |binary inst/doc/downloadFile-module.Rmd | 4 inst/doc/downloadFile-module.html | 359 +++++++++++++++++++----- inst/doc/downloadablePlot-module.Rmd | 6 inst/doc/downloadablePlot-module.html | 325 ++++++++++++++++++--- inst/doc/downloadableTable-module.Rmd | 8 inst/doc/downloadableTable-module.html | 345 ++++++++++++++++++----- inst/doc/new-application.R | 2 inst/doc/new-application.Rmd | 6 inst/doc/new-application.html | 473 +++++++++++++++++++++++--------- inst/fw_templ/p_example/server_global.R | 2 inst/fw_templ/p_example/server_local.R | 2 inst/fw_templ/p_example/ui_body.R | 2 man/create_new_application.Rd | 2 man/downloadFile.Rd | 6 man/downloadFileButton.Rd | 2 man/downloadFile_AvailableTypes.Rd | 2 man/downloadFile_ValidateTypes.Rd | 2 man/downloadablePlot.Rd | 4 man/downloadablePlotUI.Rd | 2 man/downloadableTable.Rd | 4 man/downloadableTableUI.Rd | 4 tests/testthat/test_downloadable_plot.R | 10 vignettes/downloadFile-module.Rmd | 4 vignettes/downloadablePlot-module.Rmd | 6 vignettes/downloadableTable-module.Rmd | 8 vignettes/new-application.Rmd | 6 35 files changed, 1282 insertions(+), 433 deletions(-)