Title: Describe Pedigree Relationships in Words
Description: Describe in words the genealogical relationship between two
members of a given pedigree, using the algorithm in Vigeland (2022)
<doi:10.1186/s12859-022-04759-y>. 'verbalisr' is part of the
'pedsuite' collection of packages for pedigree analysis. For a
demonstration of 'verbalisr', see the online app 'QuickPed' at
<https://magnusdv.shinyapps.io/quickped>.
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between verbalisr versions 0.6.0 dated 2024-06-26 and 0.7.1 dated 2024-09-02
DESCRIPTION | 10 +-- MD5 | 12 ++-- NEWS.md | 12 +++- R/print.R | 34 ++++++++++- README.md | 41 +++++++++----- man/print.pairrel.Rd | 17 +++++ tests/testthat/test-verbalise.R | 114 +++++++++++++++++++++++++++++++++++----- 7 files changed, 196 insertions(+), 44 deletions(-)
Title: Interactive Bipartite Graphs
Description: Generates interactive bipartite graphs using the D3 library.
Designed for use with the 'bipartite' analysis package.
Includes open source 'viz-js' library
Adapted from examples at <https://bl.ocks.org/NPashaP> (released under GPL-3).
Author: Chris Terry [aut, cre]
Maintainer: Chris Terry <christerry3@btinternet.com>
Diff between bipartiteD3 versions 0.3.1 dated 2024-05-30 and 0.3.2 dated 2024-09-02
DESCRIPTION | 10 +- MD5 | 14 +-- NAMESPACE | 1 NEWS.md | 8 + R/LoadVisJS.R | 67 +++++++++++--- inst/doc/bipartiteD3_Intro.html | 186 +++++++++++++++++++--------------------- man/LoadVisJS.Rd | 6 - man/bipartiteD3-package.Rd | 2 8 files changed, 168 insertions(+), 126 deletions(-)
Title: Alternative Estimators to Adjusted R-Squared
Description: Provides alternatives to the normal adjusted R-squared estimator for the estimation of the multiple squared correlation in regression models,
as fitted by the lm() function. The alternative estimators are described in Karch (2020) <DOI:10.1525/collabra.343>.
Author: Julian Karch [aut, cre]
Maintainer: Julian Karch <j.d.karch@fsw.leidenuniv.nl>
Diff between altR2 versions 1.0.0 dated 2019-09-23 and 1.1.0 dated 2024-09-02
DESCRIPTION | 13 +-- MD5 | 12 +- NAMESPACE | 2 NEWS.md |only R/altR2.R | 188 +++++++++++++++++++++++++++------------------ man/altR2.Rd | 6 - man/estimate_adj_R2.Rd |only tests/testthat/test-main.R | 15 +++ 8 files changed, 146 insertions(+), 90 deletions(-)
Title: A Simple Author Handler for Scientific Writing
Description: Handles and formats author information in scientific writing
in 'R Markdown' and 'Quarto'. 'plume' provides easy-to-use and
flexible tools for injecting author metadata in 'YAML' headers as well
as generating author and contribution lists (among others) as strings
from tabular data.
Author: Arnaud Gallou [aut, cre, cph]
Maintainer: Arnaud Gallou <arangacas@gmail.com>
Diff between plume versions 0.2.4 dated 2024-05-10 and 0.2.5 dated 2024-09-02
DESCRIPTION | 10 MD5 | 62 +- NAMESPACE | 3 NEWS.md | 18 R/aaa.R | 2 R/als.R | 18 R/checkers.R | 19 R/credit-roles.R | 9 R/icon.R | 2 R/plm-template.R | 6 R/plume-handler.R | 4 R/plume-package.R | 98 +++- R/plume-quarto.R | 100 ++-- R/plume.R | 28 - R/sequential.R | 4 R/utils-list.R | 6 R/utils.R | 29 - R/yaml.R | 71 +-- R/zzz.R | 2 README.md | 22 - build/vignette.rds |binary inst/doc/plume.Rmd | 8 inst/doc/plume.html | 704 ++++++++++++++++++---------------- man/PlumeQuarto.Rd | 17 man/credit_roles.Rd | 2 man/plume-package.Rd | 5 tests/testthat/_snaps/icon.md | 12 tests/testthat/_snaps/initialize.md | 2 tests/testthat/_snaps/to-yaml.md | 51 +- tests/testthat/test-get-author-list.R | 12 tests/testthat/test-to-yaml.R | 35 + vignettes/plume.Rmd | 8 32 files changed, 765 insertions(+), 604 deletions(-)
Title: Summary Tables and Plots for Statistical Models and Data:
Beautiful, Customizable, and Publication-Ready
Description: Create beautiful and customizable tables to summarize several
statistical models side-by-side. Draw coefficient plots, multi-level
cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and
correlation matrices. This package supports dozens of statistical models, and
it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint, Excel,
RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or 'knitr'
dynamic documents. Details can be found in Arel-Bundock (2022)
<doi:10.18637/jss.v103.i01>.
Author: Vincent Arel-Bundock [aut, cre, cph]
,
Joachim Gassen [ctb] ,
Nathan Eastwood [ctb],
Nick Huntington-Klein [ctb] ,
Moritz Schwarz [ctb] ,
Benjamin Elbers [ctb] ,
Grant McDermott [ctb] ,
Lukas Wallrich [ctb]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between modelsummary versions 2.1.1 dated 2024-06-14 and 2.2.0 dated 2024-09-02
modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/escape-html.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/escape-html_escape_FALSE.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/escape-modelsummary_html.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/gt-background_color.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/gt-complex.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/gt-title.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/html-gof_omit.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/mathmode-html_anything.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/mathmode-html_dollars.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/mathmode-html_null.txt |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/modelplot-coef_map_color_shape_background.svg |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/modelplot-coef_omit.svg |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/modelplot-multiple_plots_vanilla.svg |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/modelplot-vanilla.svg |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/modeplot-model_order.svg |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/modeplot-multiple_plots_facet.svg |only modelsummary-2.1.1/modelsummary/inst/tinytest/_tinysnapshot/output-title_not_indented.txt |only modelsummary-2.2.0/modelsummary/DESCRIPTION | 19 - modelsummary-2.2.0/modelsummary/MD5 | 179 ++++------ modelsummary-2.2.0/modelsummary/NAMESPACE | 1 modelsummary-2.2.0/modelsummary/NEWS.md | 15 modelsummary-2.2.0/modelsummary/R/coef_rename.R | 6 modelsummary-2.2.0/modelsummary/R/datasummary.R | 10 modelsummary-2.2.0/modelsummary/R/datasummary_balance.R | 17 modelsummary-2.2.0/modelsummary/R/datasummary_correlation.R | 10 modelsummary-2.2.0/modelsummary/R/datasummary_crosstab.R | 7 modelsummary-2.2.0/modelsummary/R/datasummary_df.R | 8 modelsummary-2.2.0/modelsummary/R/datasummary_extract.R | 2 modelsummary-2.2.0/modelsummary/R/datasummary_skim.R | 13 modelsummary-2.2.0/modelsummary/R/escape.R | 9 modelsummary-2.2.0/modelsummary/R/factory.R | 36 +- modelsummary-2.2.0/modelsummary/R/factory_dataframe.R | 7 modelsummary-2.2.0/modelsummary/R/factory_flextable.R | 22 - modelsummary-2.2.0/modelsummary/R/factory_gt.R | 20 - modelsummary-2.2.0/modelsummary/R/factory_huxtable.R | 14 modelsummary-2.2.0/modelsummary/R/factory_kableExtra.R | 65 ++- modelsummary-2.2.0/modelsummary/R/factory_markdown.R | 8 modelsummary-2.2.0/modelsummary/R/factory_tinytable.R | 20 - modelsummary-2.2.0/modelsummary/R/fmt_factory.R | 90 ++++- modelsummary-2.2.0/modelsummary/R/get_gof.R | 7 modelsummary-2.2.0/modelsummary/R/modelsummary.R | 31 + modelsummary-2.2.0/modelsummary/R/modelsummary_rbind.R | 16 modelsummary-2.2.0/modelsummary/R/sanitize_output.R | 5 modelsummary-2.2.0/modelsummary/R/span.R | 4 modelsummary-2.2.0/modelsummary/R/stars.R | 10 modelsummary-2.2.0/modelsummary/R/utils_pad.R | 8 modelsummary-2.2.0/modelsummary/build/partial.rdb |binary modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/align-md_dcolumn.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-caption_notes.txt | 3 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-correlation_latex.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-crosstab_latex.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-crosstab_latex_FALSE.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-datasummary_escape_colnames.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-datasummary_escape_colnames_FALSE.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-escape.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-escape_html_false.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-hat_I_formula.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-hat_fixest.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-latex.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-latex_tabular_escape_false.txt | 16 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-latex_tabular_escape_true.txt | 16 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-modelsummary.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-modelsummary_latex.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-modelsummary_latex2.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-modelsummary_latex_tabular_FALSE.txt | 17 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-panel_escape_FALSE.txt | 46 -- modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/escape-panel_escape_TRUE.txt | 46 -- modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/fmt-fmt_sci_2.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/gt-background_color.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/gt-complex.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/gt-title.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/html-gof_omit.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/interaction-markdown.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/interaction-markdown_no_gof.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/latex-tabular.txt | 18 - modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/mathmode-html_anything.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/mathmode-html_dollars.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/mathmode-latex_anything.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/mathmode-latex_dollars.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/mathmode-latex_null.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/mathmode-null.html |only modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/pkg-fixest_model_names_single.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/rounding-datasummary_latex.txt | 2 modelsummary-2.2.0/modelsummary/inst/tinytest/_tinysnapshot/stars-issue798.txt |only modelsummary-2.2.0/modelsummary/inst/tinytest/helpers.R | 7 modelsummary-2.2.0/modelsummary/inst/tinytest/test-conf_level.R | 46 +- modelsummary-2.2.0/modelsummary/inst/tinytest/test-datasummary_correlation.R | 10 modelsummary-2.2.0/modelsummary/inst/tinytest/test-escape.R | 6 modelsummary-2.2.0/modelsummary/inst/tinytest/test-gt.R | 74 ++-- modelsummary-2.2.0/modelsummary/inst/tinytest/test-html.R | 4 modelsummary-2.2.0/modelsummary/inst/tinytest/test-mathmode.R | 9 modelsummary-2.2.0/modelsummary/inst/tinytest/test-stars.R | 10 modelsummary-2.2.0/modelsummary/man/coef_rename.Rd | 3 modelsummary-2.2.0/modelsummary/man/datasummary_balance.Rd | 2 modelsummary-2.2.0/modelsummary/man/datasummary_correlation.Rd | 2 modelsummary-2.2.0/modelsummary/man/datasummary_correlation_format.Rd | 2 modelsummary-2.2.0/modelsummary/man/escape_string.Rd | 2 modelsummary-2.2.0/modelsummary/man/fmt_equivalence.Rd |only modelsummary-2.2.0/modelsummary/man/get_estimates.Rd | 2 modelsummary-2.2.0/modelsummary/man/get_gof.Rd | 2 modelsummary-2.2.0/modelsummary/man/get_vcov.Rd | 2 modelsummary-2.2.0/modelsummary/man/get_vcov.mlm.Rd | 2 modelsummary-2.2.0/modelsummary/man/modelplot.Rd | 2 modelsummary-2.2.0/modelsummary/man/modelsummary.Rd | 4 modelsummary-2.2.0/modelsummary/man/msummary.Rd | 4 105 files changed, 585 insertions(+), 469 deletions(-)
Title: Create Custom Research Compendiums
Description: Provides functions to create and manage research compendiums for data analysis. Research compendiums are a standard and intuitive folder structure for organizing the digital materials of a research project, which can significantly improve reproducibility. The package offers several compendium structure options that fit different research project as well as the ability of duplicating the folder structure of existing projects or implementing custom structures. It also simplifies the use of version control.
Author: Marcelo Araya-Salas [aut, cre]
,
Andrea Yure Arriaga Madrigal [aut]
Maintainer: Marcelo Araya-Salas <marcelo.araya@ucr.ac.cr>
Diff between sketchy versions 1.0.3 dated 2024-04-20 and 1.0.4 dated 2024-09-02
sketchy-1.0.3/sketchy/inst/compendium_1.png |only sketchy-1.0.3/sketchy/inst/compendium_2.png |only sketchy-1.0.3/sketchy/inst/compendium_3.png |only sketchy-1.0.3/sketchy/man/figures |only sketchy-1.0.3/sketchy/man/sketchy.Rd |only sketchy-1.0.4/sketchy/DESCRIPTION | 10 ++--- sketchy-1.0.4/sketchy/MD5 | 48 ++++++++++++------------ sketchy-1.0.4/sketchy/NAMESPACE | 5 ++ sketchy-1.0.4/sketchy/NEWS.md |only sketchy-1.0.4/sketchy/R/add_to_gitignore.R | 13 ++++-- sketchy-1.0.4/sketchy/R/check_urls.R |only sketchy-1.0.4/sketchy/R/compendiums-data.R | 2 - sketchy-1.0.4/sketchy/R/internal_functions.R | 50 +++++++++++++++++++++++++ sketchy-1.0.4/sketchy/R/load_packages.R | 8 ++-- sketchy-1.0.4/sketchy/R/make_compendium.R | 6 +-- sketchy-1.0.4/sketchy/R/open_wd.R |only sketchy-1.0.4/sketchy/R/print_skeleton.R | 2 - sketchy-1.0.4/sketchy/R/sketchy-package.R | 6 +-- sketchy-1.0.4/sketchy/R/spot_unused_files.R |only sketchy-1.0.4/sketchy/R/sysdata.rda |binary sketchy-1.0.4/sketchy/inst/CITATION | 2 - sketchy-1.0.4/sketchy/man/add_to_gitignore.Rd | 2 - sketchy-1.0.4/sketchy/man/check_urls.Rd |only sketchy-1.0.4/sketchy/man/compendiums.Rd | 2 - sketchy-1.0.4/sketchy/man/load_packages.Rd | 8 ++-- sketchy-1.0.4/sketchy/man/make_compendium.Rd | 2 - sketchy-1.0.4/sketchy/man/open_wd.Rd |only sketchy-1.0.4/sketchy/man/print_skeleton.Rd | 2 - sketchy-1.0.4/sketchy/man/sketchy-package.Rd |only sketchy-1.0.4/sketchy/man/spot_unused_files.Rd |only 30 files changed, 114 insertions(+), 54 deletions(-)
Title: Toolkit for HLA Immunogenomics
Description: A toolkit for the analysis and management of data for genes in the so-called "Human Leukocyte Antigen" (HLA) region. Functions extract reference data from the Anthony Nolan HLA Informatics Group/ImmunoGeneTics HLA 'GitHub' repository (ANHIG/IMGTHLA) <https://github.com/ANHIG/IMGTHLA>, validate Genotype List (GL) Strings, convert between UNIFORMAT and GL String Code (GLSC) formats, translate HLA alleles and GLSCs across ImmunoPolymorphism Database (IPD) IMGT/HLA Database release versions, identify differences between pairs of alleles at a locus, generate customized, multi-position sequence alignments, trim and convert allele-names across nomenclature epochs, and extend existing data-analysis methods.
Author: Livia Tran [aut],
Ryan Nickens [aut],
Leamon Crooms IV [aut],
Derek Pappas [aut],
Vinh Luu [ctb],
Josh Bredeweg [ctb],
Steven Mack [aut, cre]
Maintainer: Steven Mack <Steven.Mack@ucsf.edu>
Diff between HLAtools versions 1.1.1 dated 2024-07-26 and 1.2.0 dated 2024-09-02
DESCRIPTION | 6 +- MD5 | 45 +++++++-------- NAMESPACE | 1 NEWS.md | 33 ++++++++++- R/AlleleTrim.R | 79 +++++++++++++++++++++++--- R/GLupdater.R | 119 ++++++++++++++++++++++++++++------------ R/atlasMaker.R | 28 +++++++-- R/data.R | 2 R/fragmentFeatureNames.R | 8 +- README.md | 35 +++++++---- data/GLSC.ex.rda |binary data/HLAatlas.rda |binary data/IMGTHLAGeneTypes.rda |binary data/fragmentFeatureNames.rda |binary inst/doc/HLAtools.Rmd | 76 +++++++++++++++++++------ inst/doc/HLAtools.html | 124 +++++++++++++++++++++++++++++++----------- man/HLAatlas.Rd | 2 man/alleleTrim.Rd | 17 ++++- man/atlasMaker.Rd | 4 + man/ffN.Rd | 5 + man/getField.Rd | 2 man/multiAlleleTrim.Rd |only man/multiUpdateGL.Rd | 6 +- vignettes/HLAtools.Rmd | 76 +++++++++++++++++++------ 24 files changed, 496 insertions(+), 172 deletions(-)
Title: Automatic Generation of Exams in R for 'Sakai'
Description: Automatic Generation of Exams in R for 'Sakai'.
Question templates in the form of the 'exams' package (see <https://www.r-exams.org/>)
are transformed into XML format required by 'Sakai'.
Author: Fuensanta Arnaldos Garcia [aut],
Maria Victoria Caballero Pintado [aut],
Úrsula Faura Martinez [aut],
Maria Teresa Diaz Delfa [aut],
Jesus Maria Mendez Perez [aut, cre],
Lourdes Molera Peris [aut],
Jose Antonio Palazon Ferrando [aut],
Juan Jose Perez [...truncated...]
Maintainer: Jesus Maria Mendez Perez <jesus.mendez@ticarum.es>
Diff between exams2sakai versions 0.3 dated 2021-04-22 and 0.4 dated 2024-09-02
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/exams2sakai.R | 13 +++++++++++-- README.md | 2 +- man/exams2sakai.Rd | 45 +++++++++++++++++---------------------------- 6 files changed, 44 insertions(+), 40 deletions(-)
Title: A New Age-Period-Cohort Model for Describing and Investigating
Inter-Cohort Differences and Life Course Dynamics
Description: It implemented Age-Period-Interaction Model (APC-I Model) proposed in the paper of Liying Luo and James S. Hodges in 2019. A new age-period-cohort model for describing and investigating inter-cohort differences and life course dynamics.
Author: Jiahui Xu [aut, cre],
Liying Luo [aut]
Maintainer: Jiahui Xu <jpx5053@psu.edu>
Diff between APCI versions 1.0.7 dated 2024-01-30 and 1.0.8 dated 2024-09-02
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/visualization.R | 5 +++-- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Exploratory Graph Analysis – a Framework for Estimating the
Number of Dimensions in Multivariate Data using Network
Psychometrics
Description: Implements the Exploratory Graph Analysis (EGA) framework for dimensionality
and psychometric assessment. EGA estimates the number of dimensions in
psychological data using network estimation methods and community detection
algorithms. A bootstrap method is provided to assess the stability of dimensions
and items. Fit is evaluated using the Entropy Fit family of indices. Unique
Variable Analysis evaluates the extent to which items are locally dependent (or
redundant). Network loadings provide similar information to factor loadings and
can be used to compute network scores. A bootstrap and permutation approach are
available to assess configural and metric invariance. Hierarchical structures
can be detected using Hierarchical EGA. Time series and intensive longitudinal
data can be analyzed using Dynamic EGA, supporting individual, group, and
population level assessments.
Author: Hudson Golino [aut, cre] ,
Alexander Christensen [aut] ,
Robert Moulder [ctb] ,
Luis E. Garrido [ctb] ,
Laura Jamison [ctb] ,
Dingjing Shi [ctb]
Maintainer: Hudson Golino <hfg9s@virginia.edu>
Diff between EGAnet versions 2.0.6 dated 2024-04-22 and 2.0.7 dated 2024-09-02
EGAnet-2.0.6/EGAnet/man/network.generalizability.Rd |only EGAnet-2.0.7/EGAnet/DESCRIPTION | 10 EGAnet-2.0.7/EGAnet/MD5 | 129 +- EGAnet-2.0.7/EGAnet/NAMESPACE | 7 EGAnet-2.0.7/EGAnet/NEWS | 547 ++++++------ EGAnet-2.0.7/EGAnet/R/EBICglasso.qgraph.R | 6 EGAnet-2.0.7/EGAnet/R/EGA.R | 246 ++--- EGAnet-2.0.7/EGAnet/R/EGA.estimate.R | 204 ++-- EGAnet-2.0.7/EGAnet/R/EGA.fit.R | 4 EGAnet-2.0.7/EGAnet/R/LCT.R | 864 ++++++++++---------- EGAnet-2.0.7/EGAnet/R/S3plots.R | 18 EGAnet-2.0.7/EGAnet/R/boot.ergoInfo.R | 216 ++--- EGAnet-2.0.7/EGAnet/R/bootEGA.R | 4 EGAnet-2.0.7/EGAnet/R/color_palette_EGA.R | 98 +- EGAnet-2.0.7/EGAnet/R/community.consensus.R | 290 +++--- EGAnet-2.0.7/EGAnet/R/community.detection.R | 252 ++--- EGAnet-2.0.7/EGAnet/R/compare.EGA.plots.R | 166 +-- EGAnet-2.0.7/EGAnet/R/convert2igraph.R | 32 EGAnet-2.0.7/EGAnet/R/dynEGA.R | 712 ++++++++-------- EGAnet-2.0.7/EGAnet/R/dynEGA.ind.pop.R | 132 +-- EGAnet-2.0.7/EGAnet/R/frobenius.R |only EGAnet-2.0.7/EGAnet/R/helpers.R | 49 - EGAnet-2.0.7/EGAnet/R/hierEGA.R | 42 EGAnet-2.0.7/EGAnet/R/igraph2matrix.R | 38 EGAnet-2.0.7/EGAnet/R/infoCluster.R | 9 EGAnet-2.0.7/EGAnet/R/information.R |only EGAnet-2.0.7/EGAnet/R/invariance.R | 826 +++++++++++++------ EGAnet-2.0.7/EGAnet/R/jsd.R | 189 ++-- EGAnet-2.0.7/EGAnet/R/net.loads.R | 133 +-- EGAnet-2.0.7/EGAnet/R/net.scores.R | 134 +-- EGAnet-2.0.7/EGAnet/R/network.compare.R |only EGAnet-2.0.7/EGAnet/R/network.generalizability.R | 22 EGAnet-2.0.7/EGAnet/R/network.predictability.R | 227 +---- EGAnet-2.0.7/EGAnet/R/polychoric.matrix.R | 142 +-- EGAnet-2.0.7/EGAnet/R/riEGA.R | 292 +++--- EGAnet-2.0.7/EGAnet/R/simDFM.R | 276 +++--- EGAnet-2.0.7/EGAnet/R/totalCor.R | 76 - EGAnet-2.0.7/EGAnet/R/totalCorMat.R | 56 - EGAnet-2.0.7/EGAnet/inst/CITATION | 4 EGAnet-2.0.7/EGAnet/man/EBICglasso.qgraph.Rd | 6 EGAnet-2.0.7/EGAnet/man/EGA.Rd | 36 EGAnet-2.0.7/EGAnet/man/EGA.estimate.Rd | 24 EGAnet-2.0.7/EGAnet/man/EGA.fit.Rd | 4 EGAnet-2.0.7/EGAnet/man/EGAnet-plot.Rd | 18 EGAnet-2.0.7/EGAnet/man/LCT.Rd | 30 EGAnet-2.0.7/EGAnet/man/boot.ergoInfo.Rd | 34 EGAnet-2.0.7/EGAnet/man/bootEGA.Rd | 4 EGAnet-2.0.7/EGAnet/man/color_palette_EGA.Rd | 2 EGAnet-2.0.7/EGAnet/man/community.consensus.Rd | 4 EGAnet-2.0.7/EGAnet/man/community.detection.Rd | 14 EGAnet-2.0.7/EGAnet/man/compare.EGA.plots.Rd | 16 EGAnet-2.0.7/EGAnet/man/convert2igraph.Rd | 6 EGAnet-2.0.7/EGAnet/man/dynEGA.Rd | 44 - EGAnet-2.0.7/EGAnet/man/dynEGA.ind.pop.Rd | 40 EGAnet-2.0.7/EGAnet/man/frobenius.Rd |only EGAnet-2.0.7/EGAnet/man/hierEGA.Rd | 35 EGAnet-2.0.7/EGAnet/man/igraph2matrix.Rd | 8 EGAnet-2.0.7/EGAnet/man/infoCluster.Rd | 5 EGAnet-2.0.7/EGAnet/man/information.Rd |only EGAnet-2.0.7/EGAnet/man/invariance.Rd | 38 EGAnet-2.0.7/EGAnet/man/jsd.Rd | 14 EGAnet-2.0.7/EGAnet/man/net.loads.Rd | 13 EGAnet-2.0.7/EGAnet/man/net.scores.Rd | 25 EGAnet-2.0.7/EGAnet/man/network.compare.Rd |only EGAnet-2.0.7/EGAnet/man/polychoric.matrix.Rd | 8 EGAnet-2.0.7/EGAnet/man/riEGA.Rd | 46 - EGAnet-2.0.7/EGAnet/man/simDFM.Rd | 8 EGAnet-2.0.7/EGAnet/man/totalCor.Rd | 8 EGAnet-2.0.7/EGAnet/man/totalCorMat.Rd | 10 69 files changed, 3716 insertions(+), 3236 deletions(-)
Title: Regularization Paths for SCAD and MCP Penalized Regression
Models
Description: Fits regularization paths for linear regression, GLM, and Cox
regression models using lasso or nonconvex penalties, in particular the
minimax concave penalty (MCP) and smoothly clipped absolute deviation (SCAD)
penalty, with options for additional L2 penalties (the "elastic net" idea).
Utilities for carrying out cross-validation as well as post-fitting
visualization, summarization, inference, and prediction are also provided.
For more information, see Breheny and Huang (2011) <doi:10.1214/10-AOAS388>
or visit the ncvreg homepage <https://pbreheny.github.io/ncvreg/>.
Author: Patrick Breheny [aut, cre]
Maintainer: Patrick Breheny <patrick-breheny@uiowa.edu>
Diff between ncvreg versions 3.14.2 dated 2024-04-20 and 3.14.3 dated 2024-09-02
ncvreg-3.14.2/ncvreg/src/Makevars |only ncvreg-3.14.3/ncvreg/DESCRIPTION | 10 +++--- ncvreg-3.14.3/ncvreg/MD5 | 25 +++++++--------- ncvreg-3.14.3/ncvreg/NEWS.md | 3 + ncvreg-3.14.3/ncvreg/build/partial.rdb |binary ncvreg-3.14.3/ncvreg/build/vignette.rds |binary ncvreg-3.14.3/ncvreg/inst/doc/getting-started.html | 6 +-- ncvreg-3.14.3/ncvreg/inst/tinytest/ncvfit.R | 6 +++ ncvreg-3.14.3/ncvreg/src/cox-dh.c | 28 +++++++++--------- ncvreg-3.14.3/ncvreg/src/gaussian.c | 20 ++++++------- ncvreg-3.14.3/ncvreg/src/glm.c | 32 ++++++++++----------- ncvreg-3.14.3/ncvreg/src/mfdr_binomial.c | 4 +- ncvreg-3.14.3/ncvreg/src/mfdr_cox.c | 12 +++---- ncvreg-3.14.3/ncvreg/src/rawfit_gaussian.c | 16 +++++----- 14 files changed, 85 insertions(+), 77 deletions(-)
Title: Accessing and Analyzing Large-Scale Environmental Data
Description: Functions are designed to facilitate access to and utility with large scale, publicly available environmental data in R. The package contains functions for downloading raw data files from web URLs (download_data()), processing the raw data files into clean spatial objects (process_covariates()), and extracting values from the spatial data objects at point and polygon locations (calc_covariates()). These functions call a series of source-specific functions which are tailored to each data sources/datasets particular URL structure, data format, and spatial/temporal resolution. The functions are tested, versioned, and open source and open access. For calc_sedc() method details, see Messier, Akita, and Serre (2012) <doi:10.1021/es203152a>.
Author: Mitchell Manware [aut, ctb] ,
Insang Song [aut, ctb] ,
Eva Marques [aut, ctb] ,
Mariana Alifa Kassien [aut, ctb]
,
Kyle Messier [aut, cre] ,
Spatiotemporal Exposures and Toxicology Group [cph]
Maintainer: Kyle Messier <kyle.messier@nih.gov>
Diff between amadeus versions 1.0.6 dated 2024-08-27 and 1.0.7 dated 2024-09-02
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/calculate_covariates.R | 10 ++++++---- R/download.R | 14 ++++++++++---- R/process.R | 12 +++++++----- README.md | 10 ++++++++-- build/partial.rdb |binary man/process_modis_swath.Rd | 2 +- 8 files changed, 43 insertions(+), 27 deletions(-)
Title: Quick and Essential 'R' Tricks for Better Scripts
Description: The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to improve your scripts. Improve the quality and reproducibility of 'R' scripts.
Author: Obinna Obianom [aut, cre],
Brice Richard [aut]
Maintainer: Obinna Obianom <idonshayo@gmail.com>
Diff between quickcode versions 0.9.1 dated 2024-07-26 and 1.0.0 dated 2024-09-02
DESCRIPTION | 8 - MD5 | 62 ++++++-- NAMESPACE | 19 ++ NEWS.md | 9 + R/OR.R | 42 +++++- R/aaa.R | 50 ++++++- R/add_key.R | 30 +++- R/constants.R |only R/cybersec.R | 107 +++++---------- R/func_chain.R |only R/getDate.R | 139 +++++++++++++++++--- R/how_similar.R |only R/is_desc_asc.R |only R/mult.R | 8 - R/randomImage.R | 55 ------- R/supervariable.R | 50 +++++-- R/track.R |only README.md | 35 ++++- build/vignette.rds |binary inst/doc/add_today_date_to_filenames_quickcode.html | 54 +++---- inst/doc/nullish_coalescing_operator_r.R |only inst/doc/nullish_coalescing_operator_r.Rmd |only inst/doc/nullish_coalescing_operator_r.html |only inst/doc/quickcode_r_introduction.html | 4 inst/doc/track_function_usage_r.R |only inst/doc/track_function_usage_r.Rmd |only inst/doc/track_function_usage_r.html |only man/addkey.Rd | 20 ++ man/comments.Rd |only man/const.Rd |only man/cybersecurity.Rd |only man/descasc.Rd |only man/errorout.Rd |only man/genRandImg.Rd | 15 -- man/getDate.Rd |only man/multiply.Rd | 4 man/newSuperVar.Rd | 2 man/orsign.Rd | 22 ++- man/percentmatch1.Rd |only man/simplechaining.Rd |only man/track_func.Rd |only vignettes/nullish_coalescing_operator_r.Rmd |only vignettes/track_function_usage_r.Rmd |only 43 files changed, 485 insertions(+), 250 deletions(-)
Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality,
which are not directly provided by R's 'base' or 'stats' packages.
These include e.g. measures like r-squared, intraclass correlation
coefficient (Nakagawa, Johnson & Schielzeth (2017)
<doi:10.1098/rsif.2017.0213>), root mean squared error or functions to
check models for overdispersion, singularity or zero-inflation and
more. Functions apply to a large variety of regression models,
including generalized linear models, mixed effects models and Bayesian
models. References: Lüdecke et al. (2021) <doi:10.21105/joss.03139>.
Author: Daniel Luedecke [aut, cre] ,
Dominique Makowski [aut, ctb] ,
Mattan S. Ben-Shachar [aut, ctb]
,
Indrajeet Patil [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Brenton M. Wiernik [aut, ctb] ,
Remi Theriault [aut, ctb] ,
Vincent Arel-Bundock [ctb] ,
Martin J [...truncated...]
Maintainer: Daniel Luedecke <d.luedecke@uke.de>
Diff between performance versions 0.12.2 dated 2024-07-18 and 0.12.3 dated 2024-09-02
DESCRIPTION | 23 ++++++---- MD5 | 45 +++++++++++--------- NAMESPACE | 10 ++++ NEWS.md | 12 +++++ R/check_dag.R |only R/check_heterogeneity_bias.R | 34 ++++++++++++--- R/check_singularity.R | 3 - R/model_performance.lm.R | 20 +++++++-- R/print-methods.R | 50 ++++++++++++++++------- R/r2.R | 41 +++++++++++------- R/r2_coxsnell.R | 20 ++++----- R/r2_mlm.R |only README.md | 4 - inst/WORDLIST | 15 ++++++ man/check_dag.Rd |only man/check_heterogeneity_bias.Rd | 31 ++++++++++++-- man/check_singularity.Rd | 2 man/model_performance.lm.Rd | 8 +-- man/performance-package.Rd | 1 man/r2.Rd | 9 +++- man/r2_coxsnell.Rd | 20 ++++----- man/r2_mlm.Rd |only tests/testthat/_snaps/check_dag.md |only tests/testthat/test-check_dag.R |only tests/testthat/test-check_heterogeneity_bias.R | 16 +++++++ tests/testthat/test-model_performance.bayesian.R | 2 tests/testthat/test-r2_mlm.R |only 27 files changed, 265 insertions(+), 101 deletions(-)
Title: Tidy Quantitative Financial Analysis
Description: Bringing business and financial analysis to the 'tidyverse'. The 'tidyquant'
package provides a convenient wrapper to various 'xts', 'zoo', 'quantmod', 'TTR'
and 'PerformanceAnalytics' package
functions and returns the objects in the tidy 'tibble' format. The main
advantage is being able to use quantitative functions with the 'tidyverse'
functions including 'purrr', 'dplyr', 'tidyr', 'ggplot2', 'lubridate', etc. See
the 'tidyquant' website for more information, documentation and examples.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between tidyquant versions 1.0.8 dated 2024-08-19 and 1.0.9 dated 2024-09-02
DESCRIPTION | 6 MD5 | 60 - NAMESPACE | 2 NEWS.md | 17 R/tq_get.R | 595 +---------------- R/tq_stock_list.R | 280 ++++++-- inst/doc/TQ00-introduction-to-tidyquant.R | 2 inst/doc/TQ00-introduction-to-tidyquant.Rmd | 2 inst/doc/TQ00-introduction-to-tidyquant.html | 6 inst/doc/TQ01-core-functions-in-tidyquant.R | 8 inst/doc/TQ01-core-functions-in-tidyquant.Rmd | 12 inst/doc/TQ01-core-functions-in-tidyquant.html | 218 +++--- inst/doc/TQ02-quant-integrations-in-tidyquant.R | 3 inst/doc/TQ02-quant-integrations-in-tidyquant.Rmd | 3 inst/doc/TQ02-quant-integrations-in-tidyquant.html | 30 inst/doc/TQ03-scaling-and-modeling-with-tidyquant.R | 2 inst/doc/TQ03-scaling-and-modeling-with-tidyquant.Rmd | 2 inst/doc/TQ03-scaling-and-modeling-with-tidyquant.html | 86 +- inst/doc/TQ04-charting-with-tidyquant.R | 3 inst/doc/TQ04-charting-with-tidyquant.Rmd | 3 inst/doc/TQ04-charting-with-tidyquant.html | 46 - inst/doc/TQ05-performance-analysis-with-tidyquant.R | 2 inst/doc/TQ05-performance-analysis-with-tidyquant.Rmd | 2 inst/doc/TQ05-performance-analysis-with-tidyquant.html | 10 man/tq_index.Rd | 35 - vignettes/TQ00-introduction-to-tidyquant.Rmd | 2 vignettes/TQ01-core-functions-in-tidyquant.Rmd | 12 vignettes/TQ02-quant-integrations-in-tidyquant.Rmd | 3 vignettes/TQ03-scaling-and-modeling-with-tidyquant.Rmd | 2 vignettes/TQ04-charting-with-tidyquant.Rmd | 3 vignettes/TQ05-performance-analysis-with-tidyquant.Rmd | 2 31 files changed, 609 insertions(+), 850 deletions(-)
Title: Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic
Phenomena
Description: Statistical methods for the modeling and monitoring of time series
of counts, proportions and categorical data, as well as for the modeling
of continuous-time point processes of epidemic phenomena.
The monitoring methods focus on aberration detection in count data time
series from public health surveillance of communicable diseases, but
applications could just as well originate from environmetrics,
reliability engineering, econometrics, or social sciences. The package
implements many typical outbreak detection procedures such as the
(improved) Farrington algorithm, or the negative binomial GLR-CUSUM
method of Hoehle and Paul (2008) <doi:10.1016/j.csda.2008.02.015>.
A novel CUSUM approach combining logistic and multinomial logistic
modeling is also included. The package contains several real-world data
sets, the ability to simulate outbreak data, and to visualize the
results of the monitoring in a temporal, spatial or spatio-temporal
fashion. A recent overview of the available mon [...truncated...]
Author: Michael Hoehle [aut, ths] ,
Sebastian Meyer [aut, cre] ,
Michaela Paul [aut],
Leonhard Held [ctb, ths],
Howard Burkom [ctb],
Thais Correa [ctb],
Mathias Hofmann [ctb],
Christian Lang [ctb],
Juliane Manitz [ctb],
Sophie Reichert [ctb],
Andrea Riebler [...truncated...]
Maintainer: Sebastian Meyer <seb.meyer@fau.de>
Diff between surveillance versions 1.23.0 dated 2024-05-04 and 1.23.1 dated 2024-09-02
surveillance-1.23.0/surveillance/R/isScalar.R |only surveillance-1.23.0/surveillance/man/isScalar.Rd |only surveillance-1.23.0/surveillance/src/backproj.cc |only surveillance-1.23.0/surveillance/src/determineSources.cc |only surveillance-1.23.1/surveillance/DESCRIPTION | 15 surveillance-1.23.1/surveillance/MD5 | 212 - surveillance-1.23.1/surveillance/NAMESPACE | 5 surveillance-1.23.1/surveillance/NEWS.md | 18 surveillance-1.23.1/surveillance/R/AllClass.R | 4 surveillance-1.23.1/surveillance/R/algo_farrington.R | 1000 ++--- surveillance-1.23.1/surveillance/R/algo_rki.R | 252 - surveillance-1.23.1/surveillance/R/backprojNP.R | 688 +-- surveillance-1.23.1/surveillance/R/boda.R | 574 +-- surveillance-1.23.1/surveillance/R/bodaDelay.R | 1400 +++---- surveillance-1.23.1/surveillance/R/catCUSUM.R | 442 +- surveillance-1.23.1/surveillance/R/earsC.R | 380 +- surveillance-1.23.1/surveillance/R/farringtonFlexible.R | 1758 +++++----- surveillance-1.23.1/surveillance/R/gd.R | 144 surveillance-1.23.1/surveillance/R/linelist2sts.R | 122 surveillance-1.23.1/surveillance/R/options.R | 242 - surveillance-1.23.1/surveillance/R/sts.R | 14 surveillance-1.23.1/surveillance/R/stsBP.R | 106 surveillance-1.23.1/surveillance/R/sts_creation.R | 188 - surveillance-1.23.1/surveillance/R/sts_observation.R | 70 surveillance-1.23.1/surveillance/R/twinSIR_helper.R | 442 +- surveillance-1.23.1/surveillance/R/twinstim_helper.R | 13 surveillance-1.23.1/surveillance/R/zzz.R | 9 surveillance-1.23.1/surveillance/build/partial.rdb |binary surveillance-1.23.1/surveillance/build/vignette.rds |binary surveillance-1.23.1/surveillance/demo/00Index | 8 surveillance-1.23.1/surveillance/demo/biosurvbook.R | 402 +- surveillance-1.23.1/surveillance/demo/cost.R | 404 +- surveillance-1.23.1/surveillance/inst/doc/glrnb.pdf |binary surveillance-1.23.1/surveillance/inst/doc/hhh4.pdf |binary surveillance-1.23.1/surveillance/inst/doc/hhh4_spacetime.pdf |binary surveillance-1.23.1/surveillance/inst/doc/monitoringCounts.pdf |binary surveillance-1.23.1/surveillance/inst/doc/surveillance.pdf |binary surveillance-1.23.1/surveillance/inst/doc/twinSIR.pdf |binary surveillance-1.23.1/surveillance/inst/doc/twinstim.pdf |binary surveillance-1.23.1/surveillance/man/LRCUSUM.runlength.Rd | 6 surveillance-1.23.1/surveillance/man/abattoir.Rd | 64 surveillance-1.23.1/surveillance/man/algo.cdc.Rd | 5 surveillance-1.23.1/surveillance/man/algo.farrington.Rd | 284 - surveillance-1.23.1/surveillance/man/algo.farrington.assign.weights.Rd | 36 surveillance-1.23.1/surveillance/man/algo.farrington.fitGLM.Rd | 120 surveillance-1.23.1/surveillance/man/algo.farrington.threshold.Rd | 62 surveillance-1.23.1/surveillance/man/algo.outbreakP.Rd | 2 surveillance-1.23.1/surveillance/man/algo.rki.Rd | 178 - surveillance-1.23.1/surveillance/man/anscombe.residuals.Rd | 36 surveillance-1.23.1/surveillance/man/backprojNP.Rd | 5 surveillance-1.23.1/surveillance/man/boda.Rd | 244 - surveillance-1.23.1/surveillance/man/bodaDelay.Rd | 266 - surveillance-1.23.1/surveillance/man/campyDE.Rd | 150 surveillance-1.23.1/surveillance/man/categoricalCUSUM.Rd | 5 surveillance-1.23.1/surveillance/man/disProg2sts.Rd | 62 surveillance-1.23.1/surveillance/man/earsC.Rd | 346 - surveillance-1.23.1/surveillance/man/epidata.Rd | 5 surveillance-1.23.1/surveillance/man/epidataCS.Rd | 7 surveillance-1.23.1/surveillance/man/epidataCS_aggregate.Rd | 1 surveillance-1.23.1/surveillance/man/epidataCS_plot.Rd | 2 surveillance-1.23.1/surveillance/man/farringtonFlexible.Rd | 384 +- surveillance-1.23.1/surveillance/man/fluBYBW.Rd | 2 surveillance-1.23.1/surveillance/man/ha.Rd | 88 surveillance-1.23.1/surveillance/man/hepatitisA.Rd | 42 surveillance-1.23.1/surveillance/man/hhh4_W.Rd | 7 surveillance-1.23.1/surveillance/man/imdepifit.Rd | 3 surveillance-1.23.1/surveillance/man/influMen.Rd | 42 surveillance-1.23.1/surveillance/man/knox.Rd | 6 surveillance-1.23.1/surveillance/man/m1.Rd | 120 surveillance-1.23.1/surveillance/man/makeControl.Rd | 3 surveillance-1.23.1/surveillance/man/meningo.age.Rd | 56 surveillance-1.23.1/surveillance/man/momo.Rd | 9 surveillance-1.23.1/surveillance/man/nowcast.Rd | 6 surveillance-1.23.1/surveillance/man/pairedbinCUSUM.Rd | 6 surveillance-1.23.1/surveillance/man/permutationTest.Rd | 2 surveillance-1.23.1/surveillance/man/refvalIdxByDate.Rd | 62 surveillance-1.23.1/surveillance/man/rotaBB.Rd | 36 surveillance-1.23.1/surveillance/man/salmAllOnset.Rd | 42 surveillance-1.23.1/surveillance/man/salmHospitalized.Rd | 34 surveillance-1.23.1/surveillance/man/salmNewport.Rd | 48 surveillance-1.23.1/surveillance/man/salmonella.agona.Rd | 40 surveillance-1.23.1/surveillance/man/shadar.Rd | 48 surveillance-1.23.1/surveillance/man/sim.pointSource.Rd | 2 surveillance-1.23.1/surveillance/man/sim.seasonalNoise.Rd | 2 surveillance-1.23.1/surveillance/man/sts-class.Rd | 596 +-- surveillance-1.23.1/surveillance/man/stsNewport.Rd | 44 surveillance-1.23.1/surveillance/man/sts_ggplot.Rd | 3 surveillance-1.23.1/surveillance/man/stsplot_spacetime.Rd | 8 surveillance-1.23.1/surveillance/man/stsplot_time.Rd | 8 surveillance-1.23.1/surveillance/man/toLatex.sts.Rd | 116 surveillance-1.23.1/surveillance/man/twinSIR_intensityplot.Rd | 2 surveillance-1.23.1/surveillance/man/twinSIR_simulation.Rd | 9 surveillance-1.23.1/surveillance/man/twinstim.Rd | 13 surveillance-1.23.1/surveillance/man/twinstim_epitest.Rd | 4 surveillance-1.23.1/surveillance/man/twinstim_intensity.Rd | 3 surveillance-1.23.1/surveillance/man/twinstim_simEndemicEvents.Rd | 4 surveillance-1.23.1/surveillance/man/twinstim_simulation.Rd | 25 surveillance-1.23.1/surveillance/src/backproj.c |only surveillance-1.23.1/surveillance/src/determineSources.c |only surveillance-1.23.1/surveillance/src/init.c | 4 surveillance-1.23.1/surveillance/src/stcd-assuncaocorrea.cc | 2 surveillance-1.23.1/surveillance/src/surveillance.c | 37 surveillance-1.23.1/surveillance/src/twins.cc | 16 surveillance-1.23.1/surveillance/tests/testthat/test-bodaDelay.R | 330 - surveillance-1.23.1/surveillance/tests/testthat/test-earsC.R | 118 surveillance-1.23.1/surveillance/tests/testthat/test-farringtonFlexible.R | 960 ++--- surveillance-1.23.1/surveillance/tests/testthat/test-formatDate.R | 120 surveillance-1.23.1/surveillance/tests/testthat/test-sts.R | 25 surveillance-1.23.1/surveillance/tests/testthat/test-toLatex.sts.R | 164 surveillance-1.23.1/surveillance/vignettes/references.bib | 1 110 files changed, 7281 insertions(+), 7219 deletions(-)
Title: Cycle Routing and Data for Cycling Advocacy
Description: An interface to the cycle routing/data services provided by
'CycleStreets', a not-for-profit social enterprise and advocacy
organisation. The application programming interfaces (APIs) provided
by 'CycleStreets' are documented at
(<https://www.cyclestreets.net/api/>). The focus of this package is
the journey planning API, which aims to emulate the routes taken by a
knowledgeable cyclist. An innovative feature of the routing service
of its provision of fastest, quietest and balanced profiles. These
represent routes taken to minimise time, avoid traffic and compromise
between the two, respectively.
Author: Robin Lovelace [aut, cre] ,
Martin Lucas-Smith [aut],
Eric Krueger [ctb],
Joey Talbot [aut] ,
Malcolm Morgan [ctb]
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between cyclestreets versions 1.0.1 dated 2023-08-15 and 1.0.2 dated 2024-09-02
DESCRIPTION | 6 ++--- MD5 | 17 +++++++------- NEWS.md | 4 +++ R/batch.R | 7 +++-- R/batch_read.R | 28 ----------------------- R/json2sf_cs.R | 13 ++++++++++ README.md | 37 ++++++++++++++++++------------- man/figures/README-example-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-6-1.png |only 10 files changed, 54 insertions(+), 58 deletions(-)
Title: Multi-Reader, Multi-Case Analysis Methods (ROC, Agreement, and
Other Metrics)
Description: This software does Multi-Reader, Multi-Case (MRMC) analyses of data from imaging studies where clinicians (readers) evaluate patient images (cases). What does this mean? ... Many imaging studies are designed so that every reader reads every case in all modalities, a fully-crossed study. In this case, the data is cross-correlated, and we consider the readers and cases to be cross-correlated random effects. An MRMC analysis accounts for the variability and correlations from the readers and cases when estimating variances, confidence intervals, and p-values. The functions in this package can treat arbitrary study designs and studies with missing data, not just fully-crossed study designs. An overview of this software, including references presenting details on the methods, can be found here: <https://www.fda.gov/medical-devices/science-and-research-medical-devices/imrmc-software-do-multi-reader-multi-case-statistical-analysis-reader-studies>.
Author: Brandon Gallas [aut, cre]
Maintainer: Brandon Gallas <Brandon.Gallas@fda.hhs.gov>
Diff between iMRMC versions 2.0.0 dated 2024-05-23 and 2.1.0 dated 2024-09-02
iMRMC-2.0.0/iMRMC/R/utils.R |only iMRMC-2.0.0/iMRMC/inst/extra/man/convertDF.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/convertDFtoDesignMatrix.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/convertDFtoScoreMatrix.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/createGroups.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/createIMRMCdf.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/doIMRMC.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/extractPairedComparisonsBRBM.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/extractPairedComparisonsWRBM.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/getMRMCscore.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/init.lecuyerRNG.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/laBRBM.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/laWRBM.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/renameCol.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/roc2binary.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/roeMetzConfigs.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/sim.gRoeMetz.config.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/sim.gRoeMetz.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/simMRMC.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/simRoeMetz.example.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/successDFtoROCdf.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/uStat11.diff.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/uStat11.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/uStat11.identity.html |only iMRMC-2.0.0/iMRMC/inst/extra/man/undoIMRMCdf.html |only iMRMC-2.0.0/iMRMC/man/laBRBM.Rd |only iMRMC-2.0.0/iMRMC/man/laWRBM.Rd |only iMRMC-2.0.0/iMRMC/tests/testthat/drafts/test_convertDF.R |only iMRMC-2.1.0/iMRMC/DESCRIPTION | 18 iMRMC-2.1.0/iMRMC/MD5 | 86 iMRMC-2.1.0/iMRMC/NAMESPACE | 82 iMRMC-2.1.0/iMRMC/NEWS.md | 9 iMRMC-2.1.0/iMRMC/R/doAUCMRMC.R | 1 iMRMC-2.1.0/iMRMC/R/iMRMC_java.R | 9 iMRMC-2.1.0/iMRMC/R/limitsOfAgreement.R | 888 ++++- iMRMC-2.1.0/iMRMC/R/sim.NormalIG.Hierarchical.R |only iMRMC-2.1.0/iMRMC/R/utilityFunctions.R |only iMRMC-2.1.0/iMRMC/build |only iMRMC-2.1.0/iMRMC/inst/extra/limitsOfAgreement |only iMRMC-2.1.0/iMRMC/man/convertDFtoDesignMatrix.Rd | 2 iMRMC-2.1.0/iMRMC/man/convertDFtoScoreMatrix.Rd | 2 iMRMC-2.1.0/iMRMC/man/createGroups.Rd | 2 iMRMC-2.1.0/iMRMC/man/createIMRMCdf.Rd | 2 iMRMC-2.1.0/iMRMC/man/deleteCol.Rd | 2 iMRMC-2.1.0/iMRMC/man/extractPairedComparisonsBRBM.Rd | 2 iMRMC-2.1.0/iMRMC/man/extractPairedComparisonsWRBM.Rd | 2 iMRMC-2.1.0/iMRMC/man/getMRMCdataset.Rd | 8 iMRMC-2.1.0/iMRMC/man/getMRMCscore.Rd | 2 iMRMC-2.1.0/iMRMC/man/limitsOfAgreement.Rd |only iMRMC-2.1.0/iMRMC/man/renameCol.Rd | 2 iMRMC-2.1.0/iMRMC/man/roc2binary.Rd | 2 iMRMC-2.1.0/iMRMC/man/sim.NormalIG.Hierarchical.Rd |only iMRMC-2.1.0/iMRMC/man/sim.NormalIG.Hierarchical.config.Rd |only iMRMC-2.1.0/iMRMC/man/successDFtoROCdf.Rd | 2 iMRMC-2.1.0/iMRMC/man/undoIMRMCdf.Rd | 2 iMRMC-2.1.0/iMRMC/tests/testthat/Rplots.pdf |binary iMRMC-2.1.0/iMRMC/tests/testthat/input.imrmc | 1766 +++++----- iMRMC-2.1.0/iMRMC/tests/testthat/test_limitsOfAgreement.R |only iMRMC-2.1.0/iMRMC/tests/testthat/test_limitsOfAgreement.rda |only iMRMC-2.1.0/iMRMC/tests/testthat/test_limitsOfAgreement_splitPlot.R |only iMRMC-2.1.0/iMRMC/tests/testthat/test_limitsOfAgreement_splitPlot.rda |only iMRMC-2.1.0/iMRMC/tests/testthat/test_simNormalIGHierarchical.R |only iMRMC-2.1.0/iMRMC/tests/testthat/test_simNormalIGHierarchical.rda |only 63 files changed, 1805 insertions(+), 1086 deletions(-)
Title: Download Crypto Currency Data from 'CoinMarketCap' without 'API'
Description: Retrieves crypto currency information and historical prices as well as information on the exchanges they are listed on. Historical data contains daily open, high, low and close values for all crypto currencies. All data is scraped from <https://coinmarketcap.com> via their 'web-api'.
Author: Sebastian Stoeckl [aut, cre] ,
Jesse Vent [ctb]
Maintainer: Sebastian Stoeckl <sebastian.stoeckl@uni.li>
Diff between crypto2 versions 2.0.1 dated 2024-07-03 and 2.0.2 dated 2024-09-02
DESCRIPTION | 8 +- MD5 | 14 +-- NEWS.md | 4 + R/crypto_info.R | 4 - README.md | 77 +++++++++++---------- tests/testthat.R | 1 tests/testthat/test-crypto-info.R | 28 +++---- tests/testthat/test_data/crypto_info_reference.rds |binary 8 files changed, 73 insertions(+), 63 deletions(-)
Title: Evaluation of the Proportional Hazards Assumption and Test for
Comparing Survival Curves with a Standardized Score Process
Description: Provides tools for the test for the comparison of survival curves, the evaluation of the goodness-of-fit and the predictive capacity of the proportional hazards model.
Author: Cecile Chauvel [aut, cre]
Maintainer: Cecile Chauvel <cecile.chauvel@univ-lyon1.fr>
Diff between PHeval versions 1.0 dated 2024-08-27 and 1.1 dated 2024-09-02
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- man/PHeval-package.Rd | 8 ++++---- man/plotscore.Rd | 6 +++--- man/standscore.Rd | 9 ++++----- man/testscore.Rd | 22 ++++++++++------------ 6 files changed, 30 insertions(+), 33 deletions(-)
Title: A 'Shiny' App for Exploration of Text Collections
Description: Facilitates dynamic exploration of text collections through an
intuitive graphical user interface and the power of regular expressions.
The package contains 1) a helper function to convert a data frame to a
'corporaexplorerobject' and 2) a 'Shiny' app for fast and flexible exploration
of a 'corporaexplorerobject'. The package also includes demo apps with which
one can explore Jane Austen's novels and the State of the Union Addresses
(data from the 'janeaustenr' and 'sotu' packages respectively).
Author: Kristian Lundby Gjerde [aut, cre]
Maintainer: Kristian Lundby Gjerde <kristian.gjerde@gmail.com>
Diff between corporaexplorer versions 0.8.6 dated 2022-06-20 and 0.9.0 dated 2024-09-02
corporaexplorer-0.8.6/corporaexplorer/inst/download/tests/shinytest |only corporaexplorer-0.8.6/corporaexplorer/inst/download/tests/shinytest.R |only corporaexplorer-0.8.6/corporaexplorer/inst/explorer/tests/shinytest |only corporaexplorer-0.8.6/corporaexplorer/inst/explorer/tests/shinytest.R |only corporaexplorer-0.9.0/corporaexplorer/DESCRIPTION | 20 - corporaexplorer-0.9.0/corporaexplorer/MD5 | 102 ++--- corporaexplorer-0.9.0/corporaexplorer/NEWS.md | 29 + corporaexplorer-0.9.0/corporaexplorer/R/internal_convenience_functions.R | 18 corporaexplorer-0.9.0/corporaexplorer/R/prepare_data.R | 190 ++++++---- corporaexplorer-0.9.0/corporaexplorer/R/run_document_extractor.R | 9 corporaexplorer-0.9.0/corporaexplorer/R/zzz.R | 11 corporaexplorer-0.9.0/corporaexplorer/README.md | 21 - corporaexplorer-0.9.0/corporaexplorer/data/test_data.rda |binary corporaexplorer-0.9.0/corporaexplorer/inst/CITATION | 4 corporaexplorer-0.9.0/corporaexplorer/inst/download/global/backwards_compatibility.R | 11 corporaexplorer-0.9.0/corporaexplorer/inst/download/global/config.R | 9 corporaexplorer-0.9.0/corporaexplorer/inst/download/global/config_tests.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/download/rmd/report-render.Rmd | 18 corporaexplorer-0.9.0/corporaexplorer/inst/download/server/function_corpus_info.R | 2 corporaexplorer-0.9.0/corporaexplorer/inst/download/server/function_subset.R | 10 corporaexplorer-0.9.0/corporaexplorer/inst/download/tests/testthat |only corporaexplorer-0.9.0/corporaexplorer/inst/download/tests/testthat.R |only corporaexplorer-0.9.0/corporaexplorer/inst/download/ui/render_ui_sidebar_date_filtering.R | 6 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/config/backwards_compatibility.R | 17 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/config/config.R | 7 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/config/config_tests.R | 6 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/create_coordinates_1_data_dok.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/create_distance_coordinates_365.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/create_distance_coordinates_day.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/create_distance_coordinates_dok.R | 2 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/improve_visualisation_of_2_terms.R |only corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/label_axes.R | 6 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/plotting_corpus_data_365.R | 9 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/plotting_corpus_data_dok.R | 11 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/corpus_plot_functions/plotting_corpus_day.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/function_display_document_info.R | 2 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/function_filter_corpus.R | 19 - corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/function_plot_size.R | 6 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/function_visualise_corpus.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/function_visualise_document.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/functions_info.R | 30 - corporaexplorer-0.9.0/corporaexplorer/inst/explorer/global/functions_main_search_engine.R | 6 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/server/2_event_search_button/subsetting.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/server/3_event_corpus_map_click/preparing_day_corpus.R | 2 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/server/functions_collect_input_terms.R | 5 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/server/functions_ui_management.R | 4 corporaexplorer-0.9.0/corporaexplorer/inst/explorer/tests/testthat |only corporaexplorer-0.9.0/corporaexplorer/inst/explorer/tests/testthat.R |only corporaexplorer-0.9.0/corporaexplorer/inst/explorer/ui/render_ui_sidebar_date_filtering.R | 6 corporaexplorer-0.9.0/corporaexplorer/man/prepare_data.Rd | 39 +- corporaexplorer-0.9.0/corporaexplorer/man/run_document_extractor.Rd | 3 corporaexplorer-0.9.0/corporaexplorer/man/transform_regular.Rd | 8 corporaexplorer-0.9.0/corporaexplorer/tests/testthat/test_explorer_app.R | 14 corporaexplorer-0.9.0/corporaexplorer/tests/testthat/test_extractor_app.R | 16 corporaexplorer-0.9.0/corporaexplorer/tests/testthat/test_prep_func.R | 11 55 files changed, 423 insertions(+), 298 deletions(-)
More information about corporaexplorer at CRAN
Permanent link
Title: Datasets for Spatial Analysis
Description: Diverse spatial datasets for demonstrating, benchmarking and teaching spatial data analysis.
It includes R data of class sf (defined by the package 'sf'), Spatial ('sp'), and nb ('spdep').
Unlike other spatial data packages such as 'rnaturalearth' and 'maps',
it also contains data stored in a range of file formats including GeoJSON, ESRI Shapefile and GeoPackage.
Some of the datasets are designed to illustrate specific analysis techniques.
cycle_hire() and cycle_hire_osm(), for example, is designed to illustrate point pattern analysis techniques.
Author: Roger Bivand [aut] ,
Jakub Nowosad [aut, cre] ,
Robin Lovelace [aut] ,
Angelos Mimis [ctb],
Mark Monmonier [ctb] ,
Greg Snow [ctb]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between spData versions 2.3.1 dated 2024-05-31 and 2.3.3 dated 2024-09-02
DESCRIPTION | 8 ++++---- MD5 | 16 +++++++++------- NEWS.md |only R/elect80.R | 2 +- R/house.R | 2 +- R/nydata.R | 7 ++++++- inst/shapes/NY8_utm18.gpkg |only man/elect80.Rd | 2 +- man/house.Rd | 2 +- man/nydata.Rd | 7 ++++++- 10 files changed, 29 insertions(+), 17 deletions(-)
Title: Behavioural Studies of Large Language Models
Description: Efficient way to design and conduct psychological experiments for testing the performance of large language models. It simplifies the process of setting up experiments and data collection via language models’ API, facilitating a smooth workflow for researchers in the field of machine behaviour.
Author: Xufeng Duan [aut, cre],
Shixuan Li [aut],
Zhenguang Cai [aut]
Maintainer: Xufeng Duan <dxfdxfdxf88@gmail.com>
Diff between MacBehaviour versions 1.2.4 dated 2024-07-01 and 1.2.6 dated 2024-09-02
DESCRIPTION | 21 - MD5 | 14 NEWS.md | 4 R/gpt.R | 80 +++ R/runExperiment.R | 1108 +++++++++++++++++++++++++----------------------------- R/tools.R | 63 ++- README.md | 64 ++- man/setKey.Rd | 9 8 files changed, 727 insertions(+), 636 deletions(-)
More information about TreatmentPatterns at CRAN
Permanent link
Title: A Modification of Fleiss' Kappa in Case of Nominal and Ordinal
Variables
Description: The kappa statistic implemented by Fleiss is a very popular index for assessing the reliability of agreement among multiple observers. It is used both in the psychological and in the psychiatric field. Other fields of application are typically medicine, biology and engineering. Unfortunately,the kappa statistic may behave inconsistently in case of strong agreement between raters, since this index assumes lower values than it would have been expected. We propose a modification kappa implemented by Fleiss in case of nominal and ordinal variables. Monte Carlo simulations are used both to testing statistical hypotheses and to calculating percentile bootstrap confidence intervals based on proposed statistic in case of nominal and ordinal data.
Author: Daniele Giardiello [cre],
Piero Quatto [aut],
Enrico Ripamonti [aut],
Stefano Vigliani [ctb]
Maintainer: Daniele Giardiello <daniele.giardiello1@gmail.com>
Diff between raters versions 2.1.0 dated 2024-07-18 and 2.1.1 dated 2024-09-02
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/concordance.R | 29 +++++++++++++++-------------- R/wquad.conc.R | 15 +++++---------- man/raters-package.Rd | 2 +- 5 files changed, 28 insertions(+), 32 deletions(-)
Title: Implementation of Random Variables
Description: Implements random variables by means of S4 classes and methods.
Author: Matthias Kohl [cre, cph, aut],
Peter Ruckdeschel [aut, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between RandVar versions 1.2.3 dated 2024-01-30 and 1.2.4 dated 2024-09-02
DESCRIPTION | 14 +-- MD5 | 10 +- build/vignette.rds |binary inst/doc/RandVar.pdf |binary man/0RandVar-package.Rd | 4 tests/tests.Rout.save | 202 ++++++++++++++++++++++++------------------------ 6 files changed, 115 insertions(+), 115 deletions(-)
Title: Add Ipea Editorial Standards to 'ggplot2' Graphics
Description: Convenient functions to create 'ggplot2' graphics following the
editorial guidelines of the Institute for Applied Economic
Research (Ipea).
Author: Pedro Ferreira [aut, cre],
Pedro Jorge [aut],
Daniel Lima [aut],
Gustavo Coelho [aut],
Rafael H. M. Pereira [aut],
Lucas Mation [aut],
Fabio Vaz [ctb],
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Pedro Ferreira <pedro.ferreira2@ipea.gov.br>
Diff between ipeaplot versions 0.3.1 dated 2024-04-18 and 0.4.0 dated 2024-09-02
ipeaplot-0.3.1/ipeaplot/R/fonts.R |only ipeaplot-0.3.1/ipeaplot/inst/doc/cookbook.R |only ipeaplot-0.3.1/ipeaplot/inst/doc/cookbook.Rmd |only ipeaplot-0.3.1/ipeaplot/inst/doc/cookbook.html |only ipeaplot-0.3.1/ipeaplot/inst/extdata |only ipeaplot-0.3.1/ipeaplot/vignettes/cookbook.Rmd |only ipeaplot-0.3.1/ipeaplot/vignettes/prints_intro_ipeaplot |only ipeaplot-0.3.1/ipeaplot/vignettes/prints_ipeaplot |only ipeaplot-0.3.1/ipeaplot/vignettes/prints_original |only ipeaplot-0.4.0/ipeaplot/DESCRIPTION | 14 + ipeaplot-0.4.0/ipeaplot/MD5 | 61 +------ ipeaplot-0.4.0/ipeaplot/NAMESPACE | 3 ipeaplot-0.4.0/ipeaplot/NEWS.md |only ipeaplot-0.4.0/ipeaplot/R/save_eps.R | 4 ipeaplot-0.4.0/ipeaplot/R/save_pdf.R |only ipeaplot-0.4.0/ipeaplot/R/theme_ipea.R | 54 +++--- ipeaplot-0.4.0/ipeaplot/README.md | 25 ++- ipeaplot-0.4.0/ipeaplot/build/vignette.rds |binary ipeaplot-0.4.0/ipeaplot/inst/doc/intro_ipeaplot.R | 128 +++++----------- ipeaplot-0.4.0/ipeaplot/inst/doc/intro_ipeaplot.Rmd | 99 +++--------- ipeaplot-0.4.0/ipeaplot/inst/doc/intro_ipeaplot.html | 84 +++++----- ipeaplot-0.4.0/ipeaplot/man/ipeaplot.Rd | 2 ipeaplot-0.4.0/ipeaplot/man/save_eps.Rd | 4 ipeaplot-0.4.0/ipeaplot/man/save_pdf.Rd |only ipeaplot-0.4.0/ipeaplot/vignettes/intro_ipeaplot.Rmd | 99 +++--------- 25 files changed, 226 insertions(+), 351 deletions(-)
Title: Easy Data Wrangling and Statistical Transformations
Description: A lightweight package to assist in key steps involved in any data
analysis workflow: (1) wrangling the raw data to get it in the needed form,
(2) applying preprocessing steps and statistical transformations, and
(3) compute statistical summaries of data properties and distributions.
It is also the data wrangling backend for packages in 'easystats' ecosystem.
References: Patil et al. (2022) <doi:10.21105/joss.04684>.
Author: Indrajeet Patil [aut] ,
Etienne Bacher [aut, cre] ,
Dominique Makowski [aut] ,
Daniel Luedecke [aut] ,
Mattan S. Ben-Shachar [aut] ,
Brenton M. Wiernik [aut] ,
Remi Theriault [ctb] ,
Thomas J. Faulkenberry [rev],
Robert Garrett [rev]
Maintainer: Etienne Bacher <etienne.bacher@protonmail.com>
Diff between datawizard versions 0.12.2 dated 2024-07-20 and 0.12.3 dated 2024-09-02
datawizard-0.12.2/datawizard/inst/doc/selection_syntax.R |only datawizard-0.12.2/datawizard/inst/doc/selection_syntax.Rmd |only datawizard-0.12.2/datawizard/inst/doc/selection_syntax.html |only datawizard-0.12.2/datawizard/inst/doc/standardize_data.R |only datawizard-0.12.2/datawizard/inst/doc/standardize_data.Rmd |only datawizard-0.12.2/datawizard/inst/doc/standardize_data.html |only datawizard-0.12.2/datawizard/inst/doc/tidyverse_translation.R |only datawizard-0.12.2/datawizard/inst/doc/tidyverse_translation.Rmd |only datawizard-0.12.2/datawizard/inst/doc/tidyverse_translation.html |only datawizard-0.12.2/datawizard/vignettes/selection_syntax.Rmd |only datawizard-0.12.2/datawizard/vignettes/standardize_data.Rmd |only datawizard-0.12.2/datawizard/vignettes/tidyverse_translation.Rmd |only datawizard-0.12.3/datawizard/DESCRIPTION | 8 datawizard-0.12.3/datawizard/MD5 | 30 datawizard-0.12.3/datawizard/NEWS.md | 1618 +++++----- datawizard-0.12.3/datawizard/R/demean.R | 133 datawizard-0.12.3/datawizard/build/vignette.rds |binary datawizard-0.12.3/datawizard/inst/WORDLIST | 4 datawizard-0.12.3/datawizard/inst/doc/overview_of_vignettes.R |only datawizard-0.12.3/datawizard/inst/doc/overview_of_vignettes.Rmd |only datawizard-0.12.3/datawizard/inst/doc/overview_of_vignettes.html |only datawizard-0.12.3/datawizard/man/demean.Rd | 64 datawizard-0.12.3/datawizard/tests/testthat/test-demean.R | 43 datawizard-0.12.3/datawizard/vignettes/overview_of_vignettes.Rmd |only 24 files changed, 1035 insertions(+), 865 deletions(-)
Title: Estimate and Manipulate Age-Depth Models
Description: Estimate age-depth models from stratigraphic and sedimentological data,
and transform data
between the time and stratigraphic domain.
Author: Niklas Hohmann [aut, cre]
Maintainer: Niklas Hohmann <N.H.Hohmann@uu.nl>
Diff between admtools versions 0.3.0 dated 2024-07-17 and 0.3.1 dated 2024-09-02
admtools-0.3.0/admtools/R/get_total_duration.adm.R |only admtools-0.3.0/admtools/R/get_total_duration.multiadm.R |only admtools-0.3.0/admtools/R/get_total_thickness.adm.R |only admtools-0.3.0/admtools/R/get_total_thickness.multiadm.R |only admtools-0.3.0/admtools/R/print.adm.R |only admtools-0.3.0/admtools/R/print.multiadm.R |only admtools-0.3.0/admtools/R/print.sac.R |only admtools-0.3.0/admtools/R/summary.adm.R |only admtools-0.3.0/admtools/R/summary.multiadm.R |only admtools-0.3.0/admtools/data/CarboCATLite_data.rda |only admtools-0.3.1/admtools/DESCRIPTION | 6 admtools-0.3.1/admtools/MD5 | 111 +-- admtools-0.3.1/admtools/NAMESPACE | 15 admtools-0.3.1/admtools/NEWS.md | 12 admtools-0.3.1/admtools/R/CarboCatLite_data.R | 4 admtools-0.3.1/admtools/R/get_L_tp.R |only admtools-0.3.1/admtools/R/get_T_tp.R |only admtools-0.3.1/admtools/R/get_total_duration.R | 37 + admtools-0.3.1/admtools/R/get_total_thickness.R | 50 + admtools-0.3.1/admtools/R/max_heigth.R | 17 admtools-0.3.1/admtools/R/max_time.R | 15 admtools-0.3.1/admtools/R/min_height.R | 16 admtools-0.3.1/admtools/R/min_time.R | 16 admtools-0.3.1/admtools/R/print.R |only admtools-0.3.1/admtools/R/sedrate_gen_helpers.R | 76 +- admtools-0.3.1/admtools/R/summary.R |only admtools-0.3.1/admtools/R/tp_to_adm.R | 2 admtools-0.3.1/admtools/R/tp_to_sac.R | 2 admtools-0.3.1/admtools/README.md | 20 admtools-0.3.1/admtools/build/partial.rdb |binary admtools-0.3.1/admtools/build/vignette.rds |binary admtools-0.3.1/admtools/data/CarboCatLite_data.rda |only admtools-0.3.1/admtools/inst/CITATION | 9 admtools-0.3.1/admtools/inst/doc/adm_from_sedrate.Rmd | 2 admtools-0.3.1/admtools/inst/doc/adm_from_sedrate.html | 18 admtools-0.3.1/admtools/inst/doc/adm_from_trace_cont.html | 12 admtools-0.3.1/admtools/inst/doc/adm_plotting.Rmd | 2 admtools-0.3.1/admtools/inst/doc/admtools.R | 12 admtools-0.3.1/admtools/inst/doc/admtools.Rmd | 50 - admtools-0.3.1/admtools/inst/doc/admtools.html | 290 +++++----- admtools-0.3.1/admtools/inst/doc/admtools_doc.Rmd | 20 admtools-0.3.1/admtools/inst/doc/admtools_doc.html | 33 - admtools-0.3.1/admtools/man/CarboCATLite_data.Rd | 4 admtools-0.3.1/admtools/man/get_L_tp.Rd |only admtools-0.3.1/admtools/man/get_T_tp.Rd |only admtools-0.3.1/admtools/man/get_total_duration.Rd | 8 admtools-0.3.1/admtools/man/get_total_thickness.Rd | 12 admtools-0.3.1/admtools/man/max_height.Rd | 40 - admtools-0.3.1/admtools/man/max_time.Rd | 40 - admtools-0.3.1/admtools/man/min_height.Rd | 37 - admtools-0.3.1/admtools/man/min_time.Rd | 40 - admtools-0.3.1/admtools/man/plot.stratlist.Rd | 40 - admtools-0.3.1/admtools/man/plot.timelist.Rd | 32 - admtools-0.3.1/admtools/man/sed_rate_from_matrix.Rd | 19 admtools-0.3.1/admtools/man/summary.adm.Rd | 2 admtools-0.3.1/admtools/man/summary.multiadm.Rd | 2 admtools-0.3.1/admtools/man/summary.sac.Rd |only admtools-0.3.1/admtools/man/tp_to_adm.Rd | 2 admtools-0.3.1/admtools/man/tp_to_sac.Rd | 3 admtools-0.3.1/admtools/tests/testthat/test_get_L_tp.R |only admtools-0.3.1/admtools/tests/testthat/test_get_T_tp.R |only admtools-0.3.1/admtools/tests/testthat/test_get_total_thickness.R | 5 admtools-0.3.1/admtools/tests/testthat/test_sedrate_gen_helpers.R |only admtools-0.3.1/admtools/vignettes/adm_from_sedrate.Rmd | 2 admtools-0.3.1/admtools/vignettes/adm_plotting.Rmd | 2 admtools-0.3.1/admtools/vignettes/admtools.Rmd | 50 - admtools-0.3.1/admtools/vignettes/admtools_doc.Rmd | 20 67 files changed, 729 insertions(+), 478 deletions(-)
Title: Compute, Handle and Plot Incidence of Dated Events
Description: Provides functions and classes to compute, handle and visualise
incidence from dated events for a defined time interval. Dates can be
provided in various standard formats. The class 'incidence2' is used to store
computed incidence and can be easily manipulated, subsetted, and plotted.
This package is part of the RECON (<https://www.repidemicsconsortium.org/>)
toolkit for outbreak analysis (<https://www.reconverse.org>).
Author: Tim Taylor [aut, cre] ,
Thibaut Jombart [ctb]
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between incidence2 versions 2.3.1 dated 2024-05-31 and 2.4.0 dated 2024-09-02
incidence2-2.3.1/incidence2/R/assertions.R |only incidence2-2.3.1/incidence2/R/error_types.R |only incidence2-2.3.1/incidence2/tests/testthat/test-coercion.R |only incidence2-2.4.0/incidence2/DESCRIPTION | 13 incidence2-2.4.0/incidence2/MD5 | 130 ++-- incidence2-2.4.0/incidence2/NAMESPACE | 11 incidence2-2.4.0/incidence2/NEWS.md | 14 incidence2-2.4.0/incidence2/R/accessors.R | 24 incidence2-2.4.0/incidence2/R/as.data.frame.R | 2 incidence2-2.4.0/incidence2/R/as_incidence.R | 2 incidence2-2.4.0/incidence2/R/bootstrap.R | 6 incidence2-2.4.0/incidence2/R/complete_dates.R | 33 - incidence2-2.4.0/incidence2/R/cumulate.R | 2 incidence2-2.4.0/incidence2/R/defunct.R | 35 - incidence2-2.4.0/incidence2/R/estimate_peak.R | 16 incidence2-2.4.0/incidence2/R/incidence.R | 225 ++++--- incidence2-2.4.0/incidence2/R/incidence2-package.R | 2 incidence2-2.4.0/incidence2/R/keep.R | 44 + incidence2-2.4.0/incidence2/R/mutate.R | 4 incidence2-2.4.0/incidence2/R/nest.R | 8 incidence2-2.4.0/incidence2/R/plot.R | 42 - incidence2-2.4.0/incidence2/R/rbind.R | 6 incidence2-2.4.0/incidence2/R/regroup.R | 26 incidence2-2.4.0/incidence2/R/select.R |only incidence2-2.4.0/incidence2/R/split.R | 4 incidence2-2.4.0/incidence2/R/summarise.R | 6 incidence2-2.4.0/incidence2/R/summary.R | 6 incidence2-2.4.0/incidence2/R/unnest.R |only incidence2-2.4.0/incidence2/R/unpack.R |only incidence2-2.4.0/incidence2/R/utils.R | 24 incidence2-2.4.0/incidence2/README.md | 6 incidence2-2.4.0/incidence2/build/vignette.rds |binary incidence2-2.4.0/incidence2/inst/doc/incidence2.R | 74 ++ incidence2-2.4.0/incidence2/inst/doc/incidence2.Rmd | 152 ++++- incidence2-2.4.0/incidence2/inst/doc/incidence2.html | 289 ++++++---- incidence2-2.4.0/incidence2/man/accessors.Rd | 8 incidence2-2.4.0/incidence2/man/incidence.Rd | 12 incidence2-2.4.0/incidence2/man/reexports.Rd | 9 incidence2-2.4.0/incidence2/tests/testthat/_snaps |only incidence2-2.4.0/incidence2/tests/testthat/test-accessors.R |only incidence2-2.4.0/incidence2/tests/testthat/test-as.data.frame.R |only incidence2-2.4.0/incidence2/tests/testthat/test-as.data.table.R |only incidence2-2.4.0/incidence2/tests/testthat/test-as_incidence.R |only incidence2-2.4.0/incidence2/tests/testthat/test-as_tibble.R |only incidence2-2.4.0/incidence2/tests/testthat/test-bootstrap.R | 67 -- incidence2-2.4.0/incidence2/tests/testthat/test-complete_dates.R | 52 + incidence2-2.4.0/incidence2/tests/testthat/test-cumulate.R | 8 incidence2-2.4.0/incidence2/tests/testthat/test-defunct.R |only incidence2-2.4.0/incidence2/tests/testthat/test-estimate_peak.R |only incidence2-2.4.0/incidence2/tests/testthat/test-incidence.R | 121 +--- incidence2-2.4.0/incidence2/tests/testthat/test-incidence_.R | 117 ++-- incidence2-2.4.0/incidence2/tests/testthat/test-keep.R | 20 incidence2-2.4.0/incidence2/tests/testthat/test-mutate.R | 8 incidence2-2.4.0/incidence2/tests/testthat/test-nest.R | 5 incidence2-2.4.0/incidence2/tests/testthat/test-plot.R |only incidence2-2.4.0/incidence2/tests/testthat/test-regroup.R | 47 + incidence2-2.4.0/incidence2/tests/testthat/test-regroup_.R | 19 incidence2-2.4.0/incidence2/tests/testthat/test-split.R | 7 incidence2-2.4.0/incidence2/tests/testthat/test-summarise.R | 8 incidence2-2.4.0/incidence2/vignettes/incidence2.Rmd | 152 ++++- 60 files changed, 1228 insertions(+), 638 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-04-02 1.0.8
2015-11-13 1.0.6
Title: Optimally Robust Estimation
Description: R infrastructure for optimally robust estimation in general smoothly
parameterized models using S4 classes and methods as described Kohl, M.,
Ruckdeschel, P., and Rieder, H. (2010), <doi:10.1007/s10260-010-0133-0>, and in
Rieder, H., Kohl, M., and Ruckdeschel, P. (2008), <doi:10.1007/s10260-007-0047-7>.
Author: Matthias Kohl [cre, cph] ,
Mykhailo Pupashenko [ctb] ,
Gerald Kroisandt [ctb] ,
Peter Ruckdeschel [aut, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between ROptEst versions 1.3.3 dated 2024-02-07 and 1.3.4 dated 2024-09-02
DESCRIPTION | 18 ++-- MD5 | 22 ++--- build/partial.rdb |binary inst/NEWS | 7 + man/0ROptEst-package.Rd | 174 +++++++++++++++++++++++----------------------- man/ORobEstimate-class.Rd | 2 man/asAnscombe-class.Rd | 122 ++++++++++++++++---------------- man/asL1-class.Rd | 88 +++++++++++------------ man/asL1.Rd | 62 ++++++++-------- man/asL4-class.Rd | 88 +++++++++++------------ man/asL4.Rd | 62 ++++++++-------- man/checkmakeIC.Rd | 2 12 files changed, 327 insertions(+), 320 deletions(-)
Title: Robust Asymptotic Statistics
Description: Base S4-classes and functions for robust asymptotic statistics.
Author: Matthias Kohl [cre, cph, aut],
Peter Ruckdeschel [aut, cph],
Mykhailo Pupashenko [ctb] ,
Gerald Kroisandt [ctb] ,
R Core Team [ctb, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between RobAStBase versions 1.2.5 dated 2024-02-02 and 1.2.6 dated 2024-09-02
DESCRIPTION | 16 +++--- MD5 | 12 ++-- inst/NEWS | 10 ++++ man/0RobAStBase-package.Rd | 110 ++++++++++++++++++++++----------------------- man/RobAStBaseMASK.Rd | 2 man/qqplot.Rd | 2 man/returnlevelplot.Rd | 2 7 files changed, 83 insertions(+), 71 deletions(-)
Title: Efficient Monitoring of Global Biodiversity Portfolios
Description: Biodiversity areas, especially primary forest, serve a
multitude of functions for local economy, regional functionality of
the ecosystems as well as the global health of our planet. Recently,
adverse changes in human land use practices and climatic responses to
increased greenhouse gas emissions, put these biodiversity areas under
a variety of different threats. The present package helps to analyse a
number of biodiversity indicators based on freely available
geographical datasets. It supports computational efficient routines
that allow the analysis of potentially global biodiversity portfolios.
The primary use case of the package is to support evidence based
reporting of an organization's effort to protect biodiversity areas
under threat and to identify regions were intervention is most duly
needed.
Author: Darius A. Goergen [aut, cre] ,
Om Prakash Bhandari [aut]
Maintainer: Darius A. Goergen <info@dariusgoergen.com>
Diff between mapme.biodiversity versions 0.9.0 dated 2024-08-27 and 0.9.1 dated 2024-09-02
DESCRIPTION | 24 +++++++++---------- MD5 | 26 +++++++++++++-------- NAMESPACE | 2 + NEWS.md | 12 +++++++++ R/calc_traveltime_2000.R |only R/get_accessibility_2000.R |only README.md | 2 + inst/doc/quickstart.html | 32 +++++++++++++------------- inst/res/accessibility_2000 |only man/accessibility_2000.Rd |only man/traveltime_2000.Rd |only tests/testthat/_snaps/calc_traveltime_2000.md |only tests/testthat/test-calc_gsw_time_series.R | 5 ++-- tests/testthat/test-calc_indicator.R | 2 - tests/testthat/test-calc_traveltime_2000.R |only tests/testthat/test-chunking.R | 20 ++++++++-------- tests/testthat/test-get_accessibility_2000.R |only tests/testthat/test-get_gsw_time_series.R | 11 ++++++++ 18 files changed, 85 insertions(+), 51 deletions(-)
More information about mapme.biodiversity at CRAN
Permanent link
Title: Extensions of Package 'distr'
Description: Extends package 'distr' by functionals, distances, and conditional distributions.
Author: Matthias Kohl [cre, cph],
Peter Ruckdeschel [aut, cph]
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between distrEx versions 2.9.3 dated 2024-08-22 and 2.9.5 dated 2024-09-02
DESCRIPTION | 14 +++++++------- MD5 | 10 +++++----- inst/NEWS | 10 ++++++++++ man/0distrEx-package.Rd | 6 +++--- man/distrExMASK.Rd | 2 ++ man/distrExMOVED.Rd | 2 ++ 6 files changed, 29 insertions(+), 15 deletions(-)
Title: R Interface to 'FishBase'
Description: A programmatic interface to 'FishBase', re-written
based on an accompanying 'RESTful' API. Access tables describing over 30,000
species of fish, their biology, ecology, morphology, and more. This package also
supports experimental access to 'SeaLifeBase' data, which contains
nearly 200,000 species records for all types of aquatic life not covered by
'FishBase.'
Author: Carl Boettiger [cre, aut] ,
Scott Chamberlain [aut] ,
Duncan Temple Lang [aut],
Peter Wainwright [aut],
Kevin Cazelles [ctb]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between rfishbase versions 4.1.2 dated 2023-06-02 and 5.0.0 dated 2024-09-02
rfishbase-4.1.2/rfishbase/R/available_releases.R |only rfishbase-4.1.2/rfishbase/R/cran-hacks.R |only rfishbase-4.1.2/rfishbase/R/docs.R |only rfishbase-4.1.2/rfishbase/R/duckdb-direct.R |only rfishbase-4.1.2/rfishbase/R/fb_import.R |only rfishbase-4.1.2/rfishbase/R/local_db.R |only rfishbase-4.1.2/rfishbase/R/parquet_db.R |only rfishbase-4.1.2/rfishbase/R/rstudio_pane.R |only rfishbase-4.1.2/rfishbase/R/species_list.R |only rfishbase-4.1.2/rfishbase/R/species_names.R |only rfishbase-4.1.2/rfishbase/data |only rfishbase-4.1.2/rfishbase/man/db_dir.Rd |only rfishbase-4.1.2/rfishbase/man/db_disconnect.Rd |only rfishbase-4.1.2/rfishbase/man/distribution.Rd |only rfishbase-4.1.2/rfishbase/man/docs.Rd |only rfishbase-4.1.2/rfishbase/man/fb_conn.Rd |only rfishbase-4.1.2/rfishbase/man/fb_import.Rd |only rfishbase-4.1.2/rfishbase/man/fishbase_pane.Rd |only rfishbase-4.1.2/rfishbase/man/occurrence.Rd |only rfishbase-4.1.2/rfishbase/man/rfishbase-package.Rd |only rfishbase-4.1.2/rfishbase/man/species_fields.Rd |only rfishbase-4.1.2/rfishbase/man/species_list.Rd |only rfishbase-4.1.2/rfishbase/tests/testthat/setup-test_db.R |only rfishbase-4.1.2/rfishbase/tests/testthat/teardown-tests.R |only rfishbase-4.1.2/rfishbase/tests/testthat/test_species_list.R |only rfishbase-5.0.0/rfishbase/DESCRIPTION | 17 rfishbase-5.0.0/rfishbase/MD5 | 149 ++---- rfishbase-5.0.0/rfishbase/NAMESPACE | 26 - rfishbase-5.0.0/rfishbase/NEWS.md | 26 + rfishbase-5.0.0/rfishbase/R/00-endpoint.R | 85 +-- rfishbase-5.0.0/rfishbase/R/common_names.R | 45 +- rfishbase-5.0.0/rfishbase/R/distribution.R | 82 +-- rfishbase-5.0.0/rfishbase/R/fb_tbl.R | 137 +++++- rfishbase-5.0.0/rfishbase/R/fishbase.R | 6 rfishbase-5.0.0/rfishbase/R/load_taxa.R | 88 ++-- rfishbase-5.0.0/rfishbase/R/species.R | 70 --- rfishbase-5.0.0/rfishbase/R/synonyms.R | 30 - rfishbase-5.0.0/rfishbase/README.md | 239 +++++------ rfishbase-5.0.0/rfishbase/inst/CITATION | 3 rfishbase-5.0.0/rfishbase/inst/WORDLIST | 20 rfishbase-5.0.0/rfishbase/man/available_releases.Rd | 14 rfishbase-5.0.0/rfishbase/man/brains.Rd | 19 rfishbase-5.0.0/rfishbase/man/c_code.Rd | 15 rfishbase-5.0.0/rfishbase/man/common_names.Rd | 24 - rfishbase-5.0.0/rfishbase/man/common_to_sci.Rd | 16 rfishbase-5.0.0/rfishbase/man/country.Rd | 24 - rfishbase-5.0.0/rfishbase/man/countrysub.Rd | 19 rfishbase-5.0.0/rfishbase/man/countrysubref.Rd | 10 rfishbase-5.0.0/rfishbase/man/diet.Rd | 19 rfishbase-5.0.0/rfishbase/man/ecology.Rd | 19 rfishbase-5.0.0/rfishbase/man/ecosystem.Rd | 17 rfishbase-5.0.0/rfishbase/man/estimate.Rd | 19 rfishbase-5.0.0/rfishbase/man/faoareas.Rd | 23 - rfishbase-5.0.0/rfishbase/man/fb_tables.Rd | 20 rfishbase-5.0.0/rfishbase/man/fb_tbl.Rd | 23 - rfishbase-5.0.0/rfishbase/man/fecundity.Rd | 19 rfishbase-5.0.0/rfishbase/man/fooditems.Rd | 19 rfishbase-5.0.0/rfishbase/man/genetics.Rd | 19 rfishbase-5.0.0/rfishbase/man/introductions.Rd | 19 rfishbase-5.0.0/rfishbase/man/larvae.Rd | 19 rfishbase-5.0.0/rfishbase/man/length_freq.Rd | 19 rfishbase-5.0.0/rfishbase/man/length_length.Rd | 21 rfishbase-5.0.0/rfishbase/man/length_weight.Rd | 31 - rfishbase-5.0.0/rfishbase/man/load_taxa.Rd | 19 rfishbase-5.0.0/rfishbase/man/maturity.Rd | 19 rfishbase-5.0.0/rfishbase/man/morphology.Rd | 19 rfishbase-5.0.0/rfishbase/man/morphometrics.Rd | 19 rfishbase-5.0.0/rfishbase/man/oxygen.Rd | 19 rfishbase-5.0.0/rfishbase/man/popchar.Rd | 21 rfishbase-5.0.0/rfishbase/man/popgrowth.Rd | 19 rfishbase-5.0.0/rfishbase/man/popqb.Rd | 19 rfishbase-5.0.0/rfishbase/man/predators.Rd | 19 rfishbase-5.0.0/rfishbase/man/ration.Rd | 19 rfishbase-5.0.0/rfishbase/man/reexports.Rd | 2 rfishbase-5.0.0/rfishbase/man/references.Rd | 15 rfishbase-5.0.0/rfishbase/man/reproduction.Rd | 19 rfishbase-5.0.0/rfishbase/man/spawning.Rd | 19 rfishbase-5.0.0/rfishbase/man/species.Rd | 23 - rfishbase-5.0.0/rfishbase/man/species_by_ecosystem.Rd | 14 rfishbase-5.0.0/rfishbase/man/species_names.Rd | 27 - rfishbase-5.0.0/rfishbase/man/speed.Rd | 19 rfishbase-5.0.0/rfishbase/man/stocks.Rd | 19 rfishbase-5.0.0/rfishbase/man/swimming.Rd | 19 rfishbase-5.0.0/rfishbase/man/synonyms.Rd | 16 rfishbase-5.0.0/rfishbase/man/validate_names.Rd | 10 rfishbase-5.0.0/rfishbase/tests/testthat/test_distribution.R | 7 rfishbase-5.0.0/rfishbase/tests/testthat/test_endpoint.R | 2 rfishbase-5.0.0/rfishbase/tests/testthat/test_species.R | 24 - 88 files changed, 850 insertions(+), 1047 deletions(-)
Title: Estimation and Additional Tools for Alternative Shared Frailty
Models
Description: Provide estimation and data generation tools for some new multivariate frailty models.
This version includes the gamma, inverse Gaussian, weighted Lindley, Birnbaum-Saunders,
truncated normal, mixture of inverse Gaussian and mixture of Birnbaum-Saunders as the
distribution for the frailty terms. For the basal model, it is considered a parametric
approach based on the exponential, Weibull and the piecewise exponential distributions
as well as a semiparametric approach.
For details, see Gallardo and Bourguignon (2022) <doi:10.48550/arXiv.2206.12973> and
Gallardo et al. (2024) <doi:10.1007/s11222-024-10458-w>.
Author: Diego Gallardo [aut, cre],
Marcelo Bourguignon [aut]
Maintainer: Diego Gallardo <dgallardo@ubiobio.cl>
Diff between extrafrail versions 1.10 dated 2024-06-16 and 1.11 dated 2024-09-02
DESCRIPTION | 18 - MD5 | 14 - NEWS.md | 5 R/frailty.fit.R | 652 +++++++++++++++++++++++++++++++++++++++++++++++- R/print.extrafrail.R | 17 + R/summary.extrafrail.R | 17 + man/frailty.fit.Rd | 9 man/tools.extrafrail.Rd | 4 8 files changed, 708 insertions(+), 28 deletions(-)
Title: An 'Armadillo' Interface
Description: Provides function declarations and inline function definitions that
facilitate communication between R and the 'Armadillo' 'C++' library for
linear algebra and scientific computing. This implementation is detailed
in Vargas Sepulveda and Schneider Malamud (2024)
<doi:10.48550/arXiv.2408.11074>.
Author: Mauricio Vargas Sepulveda [aut, cre]
,
Jonathan Schneider Malamud [ctb],
Conrad Sanderson [aut] )
Maintainer: Mauricio Vargas Sepulveda <m.sepulveda@mail.utoronto.ca>
Diff between cpp11armadillo versions 0.3.1 dated 2024-08-25 and 0.3.3 dated 2024-09-02
cpp11armadillo-0.3.1/cpp11armadillo/data |only cpp11armadillo-0.3.1/cpp11armadillo/inst/doc/intro.R |only cpp11armadillo-0.3.1/cpp11armadillo/inst/doc/intro.Rmd |only cpp11armadillo-0.3.1/cpp11armadillo/inst/doc/intro.html |only cpp11armadillo-0.3.1/cpp11armadillo/inst/extdata/LICENSE |only cpp11armadillo-0.3.1/cpp11armadillo/inst/extdata/LICENSE.md |only cpp11armadillo-0.3.1/cpp11armadillo/inst/extdata/R |only cpp11armadillo-0.3.1/cpp11armadillo/inst/extdata/dev/install_and_test.R |only cpp11armadillo-0.3.1/cpp11armadillo/inst/extdata/src/cpp11.cpp |only cpp11armadillo-0.3.1/cpp11armadillo/inst/extdata/src/demo.cpp |only cpp11armadillo-0.3.1/cpp11armadillo/inst/references.bib |only cpp11armadillo-0.3.1/cpp11armadillo/man/mtcars_mat.Rd |only cpp11armadillo-0.3.1/cpp11armadillo/vignettes/intro.Rmd |only cpp11armadillo-0.3.3/cpp11armadillo/DESCRIPTION | 21 ++- cpp11armadillo-0.3.3/cpp11armadillo/MD5 | 51 +++---- cpp11armadillo-0.3.3/cpp11armadillo/NEWS.md | 12 + cpp11armadillo-0.3.3/cpp11armadillo/R/cpp11armadillo-package.R | 11 - cpp11armadillo-0.3.3/cpp11armadillo/R/template.R | 4 cpp11armadillo-0.3.3/cpp11armadillo/R/vendor.R | 20 +- cpp11armadillo-0.3.3/cpp11armadillo/R/version.R | 24 +-- cpp11armadillo-0.3.3/cpp11armadillo/build/partial.rdb |only cpp11armadillo-0.3.3/cpp11armadillo/build/vignette.rds |binary cpp11armadillo-0.3.3/cpp11armadillo/inst/doc/usage.R |only cpp11armadillo-0.3.3/cpp11armadillo/inst/doc/usage.Rmd |only cpp11armadillo-0.3.3/cpp11armadillo/inst/doc/usage.html |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/README | 15 +- cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/dev/01_load_or_install.R |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/dev/02_test.R |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/dev/03_readme_and_license.R |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/dev/data.r |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/src/00_main.h |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/src/01_ols.cpp |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/src/02_your_functions.cpp |only cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/src/Makevars | 10 + cpp11armadillo-0.3.3/cpp11armadillo/inst/extdata/src/Makevars.win | 10 + cpp11armadillo-0.3.3/cpp11armadillo/inst/include/wrappers/vectors.hpp | 2 cpp11armadillo-0.3.3/cpp11armadillo/man/cpp11armadillo-package.Rd | 7 - cpp11armadillo-0.3.3/cpp11armadillo/vignettes/references.bib | 69 ---------- cpp11armadillo-0.3.3/cpp11armadillo/vignettes/usage.Rmd |only 39 files changed, 107 insertions(+), 149 deletions(-)
More information about cpp11armadillo at CRAN
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Title: Testing, Monitoring, and Dating Structural Changes
Description: Testing, monitoring and dating structural changes in (linear)
regression models. strucchange features tests/methods from
the generalized fluctuation test framework as well as from
the F test (Chow test) framework. This includes methods to
fit, plot and test fluctuation processes (e.g., CUSUM, MOSUM,
recursive/moving estimates) and F statistics, respectively.
It is possible to monitor incoming data online using
fluctuation processes.
Finally, the breakpoints in regression models with structural
changes can be estimated together with confidence intervals.
Emphasis is always given to methods for visualizing the data.
Author: Achim Zeileis [aut, cre] ,
Friedrich Leisch [aut],
Kurt Hornik [aut],
Christian Kleiber [aut],
Bruce Hansen [ctb],
Edgar C. Merkle [ctb],
Nikolaus Umlauf [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between strucchange versions 1.5-3 dated 2022-06-15 and 1.5-4 dated 2024-09-02
DESCRIPTION | 8 +-- MD5 | 16 +++--- NEWS | 5 ++ build/partial.rdb |binary build/vignette.rds |binary inst/doc/strucchange-intro.pdf |binary man/durab.Rd | 6 ++ man/sctest.Fstats.Rd | 2 tests/Examples/strucchange-Ex.Rout.save | 75 +++++++------------------------- 9 files changed, 41 insertions(+), 71 deletions(-)
Title: Simplifies Exploratory Data Analysis
Description: Interactive data exploration with one line of code, automated
reporting or use an easy to remember set of tidy functions for low
code exploratory data analysis.
Author: Roland Krasser [aut, cre]
Maintainer: Roland Krasser <roland.krasser@gmail.com>
Diff between explore versions 1.3.1 dated 2024-06-07 and 1.3.2 dated 2024-09-02
DESCRIPTION | 6 MD5 | 82 ++--- NEWS.md | 12 R/explore.R | 32 +- README.md | 5 build/vignette.rds |binary inst/doc/abtest.html | 99 +++--- inst/doc/clean-drop.html | 311 ++++++++++----------- inst/doc/data.html | 547 ++++++++++++++++++------------------- inst/doc/describe.html | 151 ++++------ inst/doc/explain.html | 159 +++++----- inst/doc/explore-mtcars.html | 155 +++++----- inst/doc/explore-penguins.html | 85 ++--- inst/doc/explore-titanic.html | 127 ++++---- inst/doc/explore.html | 405 +++++++++++++-------------- inst/doc/predict.html | 137 ++++----- inst/doc/report-target.html | 31 -- inst/doc/report-targetpct.html | 29 - inst/doc/report.html | 29 - inst/doc/tips-tricks.html | 229 +++++++-------- man/check_vec_low_variance.Rd | 50 +-- man/create_data_abtest.Rd | 90 +++--- man/create_data_esoteric.Rd | 72 ++-- man/cut_vec_num_avg.Rd | 38 +- man/drop_obs_if.Rd | 46 +-- man/drop_obs_with_na.Rd | 44 +- man/drop_var_by_names.Rd | 46 +-- man/drop_var_low_variance.Rd | 46 +-- man/drop_var_no_variance.Rd | 42 +- man/drop_var_not_numeric.Rd | 42 +- man/drop_var_with_na.Rd | 42 +- man/explore_all.Rd | 2 man/explore_bar.Rd | 2 man/explore_cor.Rd | 2 man/explore_count.Rd | 2 man/explore_density.Rd | 2 man/explore_shiny.Rd | 2 man/figures/explore-beer-plots.png |binary man/get_color.Rd | 72 ++-- man/interact.Rd | 54 +-- man/log_info_if.Rd | 38 +- man/show_color.Rd | 42 +- 42 files changed, 1665 insertions(+), 1742 deletions(-)
Title: Sparse Lightweight Arrays and Matrices
Description: Data structures and algorithms for sparse arrays and matrices,
based on index arrays and simple triplet representations, respectively.
Author: Kurt Hornik [aut, cre] ,
David Meyer [aut] ,
Christian Buchta [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between slam versions 0.1-52 dated 2024-07-31 and 0.1-53 dated 2024-09-02
DESCRIPTION | 12 +++++++----- MD5 | 12 ++++++------ R/array.R | 2 +- R/matrix.R | 2 +- man/foreign.Rd | 4 ++-- src/dll.c | 6 +++++- src/util.c | 35 +++++++++++++++++++++++++++++++++++ 7 files changed, 57 insertions(+), 16 deletions(-)
Title: Spherical k-Means Clustering
Description: Algorithms to compute spherical k-means partitions.
Features several methods, including a genetic and a fixed-point
algorithm and an interface to the CLUTO vcluster program.
Author: Kurt Hornik [aut, cre] ,
Ingo Feinerer [aut] ,
Martin Kober [aut]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between skmeans versions 0.2-16 dated 2023-09-23 and 0.2-17 dated 2024-09-02
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/skmeans.R | 2 +- build/partial.rdb |binary man/skmeans.Rd | 15 ++++++++------- 5 files changed, 16 insertions(+), 15 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-24 1.2.0
2022-05-24 1.1.0
2021-11-16 1.0.0
2021-02-23 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-28 2.1-1
2022-08-16 2.1-0
2022-03-10 2.0-2
2022-03-05 2.0-1
2022-02-22 2.0-0
Title: Analysis Results Data
Description: Construct CDISC (Clinical Data Interchange Standards
Consortium) compliant Analysis Results Data objects. These objects are
used and re-used to construct summary tables, visualizations, and
written reports. The package also exports utilities for working with
these objects and creating new Analysis Results Data objects.
Author: Daniel D. Sjoberg [aut, cre] ,
Becca Krouse [aut],
Emily de la Rua [aut],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline Research & Development Limited [cph]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between cards versions 0.2.1 dated 2024-08-17 and 0.2.2 dated 2024-09-02
DESCRIPTION | 6 MD5 | 97 +++++++------- NAMESPACE | 5 NEWS.md | 24 +++ R/add_calculated_row.R |only R/apply_fmt_fn.R | 21 ++- R/ard_attributes.R | 8 - R/ard_categorical.R | 8 - R/ard_complex.R | 5 R/ard_continuous.R | 8 - R/ard_dichotomous.R | 4 R/ard_hierarchical.R | 18 +- R/ard_missing.R | 5 R/ard_total_n.R | 17 ++ R/as_card.R |only R/bind_ard.R | 57 ++++++-- R/import-standalone-checks.R | 179 ++++++++++++++++++++------ R/import-standalone-cli_call_env.R | 2 R/print_ard_conditions.R | 19 +- R/selectors.R | 27 +++ R/shuffle_ard.R | 66 +++++++++ R/tidy_as_ard.R | 4 inst/WORDLIST | 1 man/add_calculated_row.Rd |only man/apply_fmt_fn.Rd | 6 man/ard_hierarchical.Rd | 6 man/ard_total_n.Rd | 7 - man/as_card.Rd |only man/bind_ard.Rd | 26 +++ man/dot-fill_overall_grp_values.Rd |only man/selectors.Rd | 17 +- tests/testthat/_snaps/add_calculated_row.md |only tests/testthat/_snaps/apply_fmt_fn.md | 28 ++++ tests/testthat/_snaps/ard_hierarchical.md | 16 +- tests/testthat/_snaps/ard_total_n.md | 4 tests/testthat/_snaps/as_card.md |only tests/testthat/_snaps/bind_ard.md | 28 +++- tests/testthat/_snaps/print_ard_conditions.md | 19 ++ tests/testthat/_snaps/shuffle_ard.md | 80 +++++++++++ tests/testthat/test-add_calculated_row.R |only tests/testthat/test-apply_fmt_fn.R | 17 ++ tests/testthat/test-ard_categorical.R | 10 + tests/testthat/test-ard_complex.R | 13 + tests/testthat/test-ard_continuous.R | 9 + tests/testthat/test-ard_dichotomous.R | 9 + tests/testthat/test-ard_hierarchical.R | 47 ++++-- tests/testthat/test-ard_missing.R | 9 + tests/testthat/test-ard_stack.R | 41 +++++ tests/testthat/test-ard_total_n.R | 7 + tests/testthat/test-as_card.R |only tests/testthat/test-bind_ard.R | 16 ++ tests/testthat/test-print_ard_conditions.R | 40 +++++ tests/testthat/test-selectors.R | 35 +++++ tests/testthat/test-shuffle_ard.R | 68 +++++++++ 54 files changed, 950 insertions(+), 189 deletions(-)