Title: Access the Bioconductor Project Package Repository
Description: A convenient tool to install and update Bioconductor packages.
Author: Martin Morgan [aut] ,
Marcel Ramos [ctb, cre]
Maintainer: Marcel Ramos <marcel.ramos@roswellpark.org>
Diff between BiocManager versions 1.30.19 dated 2022-10-25 and 1.30.20 dated 2023-02-23
DESCRIPTION | 8 +-- MD5 | 26 ++++++------ NEWS | 18 ++++++++ R/install.R | 19 +++++---- R/repositories.R | 64 +++++++++++++++++++++--------- R/version.R | 48 +++++++++++------------ README.md | 2 inst/doc/BiocManager.Rmd | 2 inst/doc/BiocManager.html | 13 +++--- man/repositories.Rd | 30 ++++++++++---- tests/testthat/test_install.R | 60 ++++++++++++++++++++++++++++ tests/testthat/test_repositories.R | 35 +++++++++++++++- tests/testthat/test_version.R | 77 +++++++++++++++++++++++++++++++++++++ vignettes/BiocManager.Rmd | 2 14 files changed, 317 insertions(+), 87 deletions(-)
Title: Utilities to Output CDISC SDTM/ADaM XPT Files
Description: Tools to build CDISC compliant data sets and check for CDISC compliance.
Author: Eli Miller [aut, cre] ,
Vignesh Thanikachalam [aut],
Ben Straub [aut],
Ross Didenko [aut],
Zelos Zhu [aut],
Atorus/GSK JPT [cph]
Maintainer: Eli Miller <Eli.Miller@AtorusResearch.com>
Diff between xportr versions 0.1.0 dated 2022-06-21 and 0.2.0 dated 2023-02-23
DESCRIPTION | 13 - MD5 | 22 +- NEWS.md | 4 R/format.R | 17 + R/utils-xportr.R | 204 ++++++++++++++----- R/zzz.R | 4 README.md | 11 - build/vignette.rds |binary inst/doc/xportr.html | 435 ++++++++++++++++++++++------------------- man/xportr-package.Rd | 1 tests/testthat/test-metadata.R | 35 ++- tests/testthat/test-write.R | 16 + 12 files changed, 484 insertions(+), 278 deletions(-)
Title: Functions for Tabular Reporting
Description: Use a grammar for creating and customizing pretty tables.
The following formats are supported: 'HTML', 'PDF', 'RTF',
'Microsoft Word', 'Microsoft PowerPoint' and R 'Grid Graphics'.
'R Markdown', 'Quarto' and the package 'officer' can be used to produce
the result files. The syntax is the same for the user regardless of
the type of output to be produced. A set of functions allows the
creation, definition of cell arrangement, addition of headers or
footers, formatting and definition of cell content with text and
or images. The package also offers a set of high-level functions
that allow tabular reporting of statistical models and the
creation of complex cross tabulations.
Author: David Gohel [aut, cre],
ArData [cph],
Clementine Jager [ctb],
Panagiotis Skintzos [aut],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb] ,
Titouan Robert [ctb],
Michael Barrowman [ctb] ,
Atsushi Yasumoto [ctb] ,
Paul Julian [ctb] ,
Sean Browning [ctb] , [...truncated...]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.8.5 dated 2023-01-29 and 0.8.6 dated 2023-02-23
flextable-0.8.5/flextable/R/a_flextable_package.R |only flextable-0.8.5/flextable/inst/web_1.1.2 |only flextable-0.8.6/flextable/DESCRIPTION | 33 flextable-0.8.6/flextable/MD5 | 283 +-- flextable-0.8.6/flextable/NAMESPACE | 26 flextable-0.8.6/flextable/NEWS.md | 45 flextable-0.8.6/flextable/R/01_fpstruct.R | 35 flextable-0.8.6/flextable/R/05_content.R | 22 flextable-0.8.6/flextable/R/append_chunk.R | 4 flextable-0.8.6/flextable/R/as_flextable.R | 29 flextable-0.8.6/flextable/R/as_flextable.tabular.R |only flextable-0.8.6/flextable/R/as_flextable_gam.R | 3 flextable-0.8.6/flextable/R/as_flextable_tabulator.R | 6 flextable-0.8.6/flextable/R/augment_rows.R | 2 flextable-0.8.6/flextable/R/body_add_flextable.R | 30 flextable-0.8.6/flextable/R/border_fix.R | 2 flextable-0.8.6/flextable/R/borders.R | 26 flextable-0.8.6/flextable/R/captions.R | 361 +--- flextable-0.8.6/flextable/R/chunk_images.R | 29 flextable-0.8.6/flextable/R/compose.R | 2 flextable-0.8.6/flextable/R/defaults.R | 30 flextable-0.8.6/flextable/R/df_printer.R | 7 flextable-0.8.6/flextable/R/docx_str.R | 4 flextable-0.8.6/flextable/R/flextable-package.R |only flextable-0.8.6/flextable/R/flextable.R | 55 flextable-0.8.6/flextable/R/flextable_sizes.R | 4 flextable-0.8.6/flextable/R/footnote.R | 2 flextable-0.8.6/flextable/R/formatters.R | 18 flextable-0.8.6/flextable/R/html_str.R | 91 - flextable-0.8.6/flextable/R/latex-borders.R | 2 flextable-0.8.6/flextable/R/latex_chunks.R | 2 flextable-0.8.6/flextable/R/latex_str.R | 62 flextable-0.8.6/flextable/R/merge_flextable.R | 2 flextable-0.8.6/flextable/R/ph_with.R | 2 flextable-0.8.6/flextable/R/printers.R | 847 ++++------- flextable-0.8.6/flextable/R/proc_freq.R | 2 flextable-0.8.6/flextable/R/rtf_str.R |only flextable-0.8.6/flextable/R/runs_as_functions.R | 295 ++- flextable-0.8.6/flextable/R/styles.R | 6 flextable-0.8.6/flextable/R/summarizor.R | 14 flextable-0.8.6/flextable/R/themes.R | 23 flextable-0.8.6/flextable/R/utils.R | 26 flextable-0.8.6/flextable/R/xtable_to_flextable.R | 2 flextable-0.8.6/flextable/README.md | 20 flextable-0.8.6/flextable/inst/web_1.1.3 |only flextable-0.8.6/flextable/man/add_latex_dep.Rd | 2 flextable-0.8.6/flextable/man/append_chunks.Rd | 2 flextable-0.8.6/flextable/man/as_b.Rd | 2 flextable-0.8.6/flextable/man/as_bracket.Rd | 2 flextable-0.8.6/flextable/man/as_chunk.Rd | 2 flextable-0.8.6/flextable/man/as_equation.Rd | 2 flextable-0.8.6/flextable/man/as_flextable.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.data.frame.Rd | 5 flextable-0.8.6/flextable/man/as_flextable.gam.Rd | 19 flextable-0.8.6/flextable/man/as_flextable.glm.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.grouped_data.Rd | 8 flextable-0.8.6/flextable/man/as_flextable.htest.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.kmeans.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.lm.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.merMod.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.pam.Rd | 4 flextable-0.8.6/flextable/man/as_flextable.summarizor.Rd | 6 flextable-0.8.6/flextable/man/as_flextable.tabular.Rd |only flextable-0.8.6/flextable/man/as_flextable.tabulator.Rd | 6 flextable-0.8.6/flextable/man/as_flextable.xtable.Rd | 4 flextable-0.8.6/flextable/man/as_grouped_data.Rd | 2 flextable-0.8.6/flextable/man/as_highlight.Rd | 2 flextable-0.8.6/flextable/man/as_i.Rd | 2 flextable-0.8.6/flextable/man/as_image.Rd | 2 flextable-0.8.6/flextable/man/as_paragraph.Rd | 2 flextable-0.8.6/flextable/man/as_raster.Rd | 16 flextable-0.8.6/flextable/man/as_sub.Rd | 2 flextable-0.8.6/flextable/man/as_sup.Rd | 2 flextable-0.8.6/flextable/man/before.Rd | 2 flextable-0.8.6/flextable/man/body_add_flextable.Rd | 2 flextable-0.8.6/flextable/man/border.Rd | 2 flextable-0.8.6/flextable/man/border_inner.Rd | 2 flextable-0.8.6/flextable/man/border_inner_h.Rd | 2 flextable-0.8.6/flextable/man/border_inner_v.Rd | 2 flextable-0.8.6/flextable/man/border_outer.Rd | 2 flextable-0.8.6/flextable/man/border_remove.Rd | 2 flextable-0.8.6/flextable/man/chunk_dataframe.Rd | 2 flextable-0.8.6/flextable/man/colformat_char.Rd | 2 flextable-0.8.6/flextable/man/colformat_date.Rd | 2 flextable-0.8.6/flextable/man/colformat_datetime.Rd | 2 flextable-0.8.6/flextable/man/colformat_double.Rd | 2 flextable-0.8.6/flextable/man/colformat_image.Rd | 2 flextable-0.8.6/flextable/man/colformat_int.Rd | 2 flextable-0.8.6/flextable/man/colformat_lgl.Rd | 2 flextable-0.8.6/flextable/man/colformat_num.Rd | 2 flextable-0.8.6/flextable/man/colorize.Rd | 2 flextable-0.8.6/flextable/man/continuous_summary.Rd | 2 flextable-0.8.6/flextable/man/delete_part.Rd | 2 flextable-0.8.6/flextable/man/df_printer.Rd | 3 flextable-0.8.6/flextable/man/empty_blanks.Rd | 2 flextable-0.8.6/flextable/man/fit_to_width.Rd | 2 flextable-0.8.6/flextable/man/fix_border_issues.Rd | 2 flextable-0.8.6/flextable/man/flextable-package.Rd | 20 flextable-0.8.6/flextable/man/flextable_dim.Rd | 2 flextable-0.8.6/flextable/man/flextable_to_rmd.Rd | 118 - flextable-0.8.6/flextable/man/fmt_2stats.Rd | 2 flextable-0.8.6/flextable/man/fmt_avg_dev.Rd | 2 flextable-0.8.6/flextable/man/fmt_header_n.Rd | 2 flextable-0.8.6/flextable/man/fmt_n_percent.Rd | 2 flextable-0.8.6/flextable/man/footers_flextable_at_bkm.Rd | 3 flextable-0.8.6/flextable/man/footnote.Rd | 2 flextable-0.8.6/flextable/man/fp_border_default.Rd | 2 flextable-0.8.6/flextable/man/gen_grob.Rd | 3 flextable-0.8.6/flextable/man/gg_chunk.Rd | 2 flextable-0.8.6/flextable/man/headers_flextable_at_bkm.Rd | 3 flextable-0.8.6/flextable/man/hline.Rd | 2 flextable-0.8.6/flextable/man/hline_bottom.Rd | 2 flextable-0.8.6/flextable/man/hline_top.Rd | 2 flextable-0.8.6/flextable/man/htmltools_value.Rd | 9 flextable-0.8.6/flextable/man/knit_print.flextable.Rd | 158 -- flextable-0.8.6/flextable/man/labelizor.Rd | 2 flextable-0.8.6/flextable/man/linerange.Rd | 2 flextable-0.8.6/flextable/man/lollipop.Rd | 2 flextable-0.8.6/flextable/man/merge_h_range.Rd | 2 flextable-0.8.6/flextable/man/minibar.Rd | 2 flextable-0.8.6/flextable/man/ph_with.flextable.Rd | 2 flextable-0.8.6/flextable/man/plot.flextable.Rd | 42 flextable-0.8.6/flextable/man/plot_chunk.Rd | 2 flextable-0.8.6/flextable/man/prepend_chunks.Rd | 2 flextable-0.8.6/flextable/man/print.flextable.Rd | 3 flextable-0.8.6/flextable/man/proc_freq.Rd | 2 flextable-0.8.6/flextable/man/reexports.Rd |only flextable-0.8.6/flextable/man/rotate.Rd | 2 flextable-0.8.6/flextable/man/rtf_add.flextable.Rd |only flextable-0.8.6/flextable/man/save_as_docx.Rd | 5 flextable-0.8.6/flextable/man/save_as_html.Rd | 9 flextable-0.8.6/flextable/man/save_as_image.Rd | 51 flextable-0.8.6/flextable/man/save_as_pptx.Rd | 5 flextable-0.8.6/flextable/man/set_caption.Rd | 2 flextable-0.8.6/flextable/man/set_flextable_defaults.Rd | 13 flextable-0.8.6/flextable/man/set_formatter.Rd | 2 flextable-0.8.6/flextable/man/set_table_properties.Rd | 4 flextable-0.8.6/flextable/man/summarizor.Rd | 2 flextable-0.8.6/flextable/man/tabulator_colnames.Rd | 2 flextable-0.8.6/flextable/man/to_html.flextable.Rd |only flextable-0.8.6/flextable/man/use_df_printer.Rd | 2 flextable-0.8.6/flextable/man/vline.Rd | 2 flextable-0.8.6/flextable/man/vline_left.Rd | 2 flextable-0.8.6/flextable/man/vline_right.Rd | 2 flextable-0.8.6/flextable/tests/testthat/rmd/borders.Rmd | 8 flextable-0.8.6/flextable/tests/testthat/test-captions-rmd.R | 6 flextable-0.8.6/flextable/tests/testthat/test-dimensions.R | 8 147 files changed, 1472 insertions(+), 1675 deletions(-)
Title: Two-Way Tests in Independent Groups Designs
Description: Performs two-way tests in independent groups designs. These are two-way ANOVA, two-way ANOVA under heteroscedasticity: parametric bootstrap based generalized test and generalized pivotal quantity based generalized test (Ananda et al., 2022) <doi:10.1080/03610926.2022.2059682>, two-way ANOVA for medians, trimmed means, M-estimators (Wilcox, 2011; ISBN:978-0-12-386983-8). The package performs descriptive statistics and graphical approaches. Moreover, it assesses variance homogeneity and normality of data in each group via tests and plots. All 'twowaytests' functions are designed for two-way layout.
Author: Osman Dag [aut, cre], Sam Weerahandi [aut], Malwane Ananda [aut], Muhammed Ali Yilmaz [aut], Merve Kasikci [aut]
Maintainer: Osman Dag <osman.dag@outlook.com>
Diff between twowaytests versions 1.1 dated 2021-05-04 and 1.2 dated 2023-02-23
DESCRIPTION | 15 ++- MD5 | 48 ++++++++---- NAMESPACE | 13 ++- R/MestTwoWay.R |only R/aovTwoWay.R |only R/contrastmatrix.R |only R/gpTwoWay.R | 64 ++++++++-------- R/gplotTwoWay.R | 146 ++++++++++++++++++++----------------- R/groupping.R |only R/homogtestTwoWay.R | 189 ++++++++++++++++++++++++------------------------- R/medTwoWay.R |only R/med_abs_dev.R |only R/medsems.R |only R/mom_est.R |only R/nortestTwoWay.R | 58 +++++++-------- R/onestep_est.R |only R/optimalf.R |only R/p_value_fon.R |only R/paircompTwoWay.R |only R/projected_dist.R |only R/tmeanTwoWay.R |only R/winsorvar.R |only data/alveolar.rda |binary man/MestTwoWay.Rd |only man/alveolar.Rd | 2 man/aovTwoWay.Rd |only man/descTwoWay.Rd | 6 - man/gpTwoWay.Rd | 31 +++----- man/gplotTwoWay.Rd | 45 ++++++++--- man/homogtestTwoWay.Rd | 8 +- man/medTwoWay.Rd |only man/nortestTwoWay.Rd | 4 - man/paircompTwoWay.Rd |only man/tmeanTwoWay.Rd |only man/twowaytests.Rd | 2 35 files changed, 340 insertions(+), 291 deletions(-)
Title: Download and Measure Global Trends Through Google Search Volumes
Description: Google offers public access to global search volumes from its
search engine through the Google Trends portal. The package downloads
these search volumes provided by Google Trends and uses them to
measure and analyze the distribution of search scores across countries
or within countries. The package allows researchers and analysts to
use these search scores to investigate global trends based on patterns
within these scores. This offers insights such as degree of
internationalization of firms and organizations or dissemination of
political, social, or technological trends across the globe or within
single countries. An outline of the package's methodological
foundations and potential applications is available as a working
paper: <https://papers.ssrn.com/sol3/papers.cfm?abstract_id=3969013>.
Author: Harald Puhr [aut, cre],
Jakob Muellner [ccp]
Maintainer: Harald Puhr <harald.puhr@gmail.com>
Diff between globaltrends versions 0.0.12 dated 2022-06-23 and 0.0.13 dated 2023-02-23
DESCRIPTION | 57 ++++----- MD5 | 86 +++++++------ NAMESPACE | 4 NEWS.md | 71 ++++++++++- R/add_keywords.r | 20 ++- R/add_locations.r | 21 +-- R/compute_doi.r | 22 +-- R/compute_score.r | 90 +++++++------- R/data.r | 147 +++++++++++++++++++++++ R/database_functions.r | 29 +--- R/download_control.r | 3 R/download_object.r | 3 R/export_data.r | 25 +--- R/get_abnorm_hist.r | 48 +++---- R/globals.r |only R/helper_functions.r | 8 - R/plot_map.r | 28 +--- R/plot_voi_doi.r | 12 - R/remove_data.r | 22 ++- R/zzz.r | 2 README.md | 178 ++++++++++++++-------------- build/vignette.rds |binary data/countries.rda |only data/countries_wdi.rda |only data/us_states.rda |only inst/CITATION | 26 ++-- inst/doc/globaltrends.R | 9 - inst/doc/globaltrends.Rmd | 49 +++++-- inst/doc/globaltrends.html | 230 ++++++++++++++++++++++--------------- man/add_keyword.Rd | 4 man/add_locations.Rd | 2 man/add_synonym.Rd | 6 man/countries.Rd |only man/countries_wdi.Rd |only man/gt.env.Rd | 84 ++++++------- man/initialize_db.Rd | 2 man/remove_data.Rd | 7 + man/us_states.Rd |only tests/testthat/test-abnorm.R | 8 - tests/testthat/test-computations.R | 18 ++ tests/testthat/test-downloads.R | 12 + tests/testthat/test-export.R | 8 - tests/testthat/test-locations.R | 93 ++------------ tests/testthat/test-synonyms.R | 14 +- vignettes/globaltrends.Rmd | 49 +++++-- vignettes/hex-globaltrends.png |only vignettes/plot_sample01.png |only vignettes/plot_sample02.png |only vignettes/plot_sample03.png |only vignettes/plot_sample04.png |only 50 files changed, 891 insertions(+), 606 deletions(-)
Title: Automatic Structural Time Series Models
Description: Automatic model selection for structural time series decomposition into trend, cycle, and seasonal components, plus optionality for structural interpolation, using the Kalman filter.
Koopman, Siem Jan and Marius Ooms (2012) "Forecasting Economic Time Series Using Unobserved Components Time Series Models" <doi:10.1093/oxfordhb/9780195398649.013.0006>.
Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" <doi:10.7551/mitpress/6444.001.0001><http://econ.korea.ac.kr/~cjkim/>.
Author: Alex Hubbard [aut, cre]
Maintainer: Alex Hubbard <hubbard.alex@gmail.com>
Diff between autostsm versions 3.0.3 dated 2022-09-23 and 3.0.4 dated 2023-02-23
DESCRIPTION | 11 ++- MD5 | 8 +- NEWS.md | 8 ++ R/stsm_forecast.R | 116 ++++++++++++++++++++-------------------- inst/doc/autostsm_vignette.html | 111 ++++++++++++++++++-------------------- 5 files changed, 130 insertions(+), 124 deletions(-)
Title: Air Quality Evaluation
Description: Developed for use by those tasked with the routine detection,
characterisation and quantification of discrete changes in air quality
time-series, such as identifying the impacts of air quality policy
interventions. The main functions use signal isolation then
break-point/segment (BP/S) methods based on 'strucchange' and 'segmented'
methods to detect and quantify change events (Ropkins & Tate, 2021,
<doi:10.1016/j.scitotenv.2020.142374>).
Author: Karl Ropkins [aut, cre] ,
Anthony Walker [aut] ,
James Tate [aut]
Maintainer: Karl Ropkins <k.ropkins@its.leeds.ac.uk>
Diff between AQEval versions 0.4.5 dated 2022-04-14 and 0.5.2 dated 2023-02-23
AQEval-0.4.5/AQEval/README.md |only AQEval-0.5.2/AQEval/DESCRIPTION | 37 +++++++++---------- AQEval-0.5.2/AQEval/MD5 | 19 ++++------ AQEval-0.5.2/AQEval/NEWS.md | 20 ++++++++-- AQEval-0.5.2/AQEval/R/AQEval-package.R | 1 AQEval-0.5.2/AQEval/R/aqe.misc.R | 54 +++++++++++++++++++++++++---- AQEval-0.5.2/AQEval/R/quantify.breaks.R | 34 +++++++++++++++--- AQEval-0.5.2/AQEval/build/partial.rdb |binary AQEval-0.5.2/AQEval/inst/CITATION | 28 ++++++++------- AQEval-0.5.2/AQEval/man/AQEval.Rd | 2 - AQEval-0.5.2/AQEval/man/quantify.breaks.Rd | 24 ++++++++++++ 11 files changed, 156 insertions(+), 63 deletions(-)
Title: Setting the Critical Path
Description: Solving the problem of project management using CPM (Critical Path Method), PERT (Program Evaluation and Review Technique)
and LESS (Least Cost Estimating and Scheduling) methods. The package sets the critical path,
schedule and Gantt chart. In addition, it allows you to draw a graph with marked critical activities. For more information about
project management, see: Taha H. A. (2017, ISBN:978-1-292-16554-7), Konarzewska I., Jewczak M., Kucharski A. (2020, ISBN:978-83-8220-112-3),
Rama Murthy P. (2007, ISBN:978-81-224-2944-2).
Author: Adam Kucharski
Maintainer: Adam Kucharski <aqcharski@interia.pl>
Diff between critpath versions 0.1.4 dated 2021-07-31 and 0.1.5 dated 2023-02-23
critpath-0.1.4/critpath/man/plot_crit_pathAOA.Rd |only critpath-0.1.5/critpath/DESCRIPTION | 10 critpath-0.1.5/critpath/MD5 | 33 critpath-0.1.5/critpath/NAMESPACE | 3 critpath-0.1.5/critpath/NEWS | 5 critpath-0.1.5/critpath/R/criticalpath_methodsAOE.R | 125 + critpath-0.1.5/critpath/build/vignette.rds |binary critpath-0.1.5/critpath/inst/doc/CPMandPERT.R | 11 critpath-0.1.5/critpath/inst/doc/CPMandPERT.Rmd | 17 critpath-0.1.5/critpath/inst/doc/CPMandPERT.html | 1869 ++++++++++++++++++-- critpath-0.1.5/critpath/inst/doc/LESS.R | 2 critpath-0.1.5/critpath/inst/doc/LESS.Rmd | 2 critpath-0.1.5/critpath/inst/doc/LESS.html | 1647 ++++++++++++++++- critpath-0.1.5/critpath/man/PERT_newprob.Rd |only critpath-0.1.5/critpath/man/PERT_newtime.Rd |only critpath-0.1.5/critpath/man/plot_graphAOA.Rd | 17 critpath-0.1.5/critpath/man/solve_pathAOA.Rd | 2 critpath-0.1.5/critpath/vignettes/CPMandPERT.Rmd | 17 critpath-0.1.5/critpath/vignettes/LESS.Rmd | 2 19 files changed, 3439 insertions(+), 323 deletions(-)
Title: Armadillo Client for the Armadillo Service
Description: A set of functions to manage data shared on a
'MOLGENIS Armadillo' server.
Author: Mariska Slofstra [aut, cre] ,
Sido Haakma [aut] ,
Tommy de Boer [aut] ,
Fleur Kelpin [aut] ,
Morris Swertz [aut]
Maintainer: Mariska Slofstra <m.k.slofstra@umcg.nl>
Diff between MolgenisArmadillo versions 1.1.3 dated 2022-04-01 and 2.0.0 dated 2023-02-23
MolgenisArmadillo-1.1.3/MolgenisArmadillo/man/armadillo.assume_role_with_web_identity.Rd |only MolgenisArmadillo-1.1.3/MolgenisArmadillo/man/armadillo.set_credentials.Rd |only MolgenisArmadillo-1.1.3/MolgenisArmadillo/man/armadillo.whitelist_packages.Rd |only MolgenisArmadillo-1.1.3/MolgenisArmadillo/tests/testthat/test-auth.R |only MolgenisArmadillo-2.0.0/MolgenisArmadillo/DESCRIPTION | 18 MolgenisArmadillo-2.0.0/MolgenisArmadillo/MD5 | 74 - MolgenisArmadillo-2.0.0/MolgenisArmadillo/NAMESPACE | 20 MolgenisArmadillo-2.0.0/MolgenisArmadillo/NEWS.md | 2 MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/MolgenisArmadillo-package.R | 3 MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/auth.R | 118 -- MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/object.R | 194 ++- MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/package.R | 116 -- MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/project.R | 68 - MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/resource.R | 13 MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/table.R | 12 MolgenisArmadillo-2.0.0/MolgenisArmadillo/R/utils.R | 126 +- MolgenisArmadillo-2.0.0/MolgenisArmadillo/README.md | 48 MolgenisArmadillo-2.0.0/MolgenisArmadillo/inst/doc/MolgenisArmadillo.html | 13 MolgenisArmadillo-2.0.0/MolgenisArmadillo/inst/doc/create_resources.html | 13 MolgenisArmadillo-2.0.0/MolgenisArmadillo/inst/doc/creating_data_subsets.html | 13 MolgenisArmadillo-2.0.0/MolgenisArmadillo/inst/doc/install_packages.html | 13 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/MolgenisArmadillo-package.Rd | 3 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.copy_resource.Rd | 4 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.copy_table.Rd | 4 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.delete_resource.Rd | 3 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.delete_table.Rd | 3 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.get_token.Rd | 2 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.install_packages.Rd | 4 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.login.Rd | 15 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.login_basic.Rd |only MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.move_resource.Rd | 4 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.move_table.Rd | 4 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.upload_resource.Rd | 3 MolgenisArmadillo-2.0.0/MolgenisArmadillo/man/armadillo.upload_table.Rd | 3 MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat.R | 1 MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat/setup.R |only MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat/test-object.R | 516 ++++------ MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat/test-package.R | 125 -- MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat/test-project.R | 85 + MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat/test-resource.R | 2 MolgenisArmadillo-2.0.0/MolgenisArmadillo/tests/testthat/test-table.R | 2 41 files changed, 685 insertions(+), 962 deletions(-)
More information about MolgenisArmadillo at CRAN
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More information about worldriskpollr at CRAN
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Title: Population and Evolutionary Genetics Analysis System
Description: Functions for reading, writing, plotting, analysing, and manipulating allelic and haplotypic data, including from VCF files, and for the analysis of population nucleotide sequences and micro-satellites including coalescent analyses, linkage disequilibrium, population structure (Fst, Amova) and equilibrium (HWE), haplotype networks, minimum spanning tree and network, and median-joining networks.
Author: Emmanuel Paradis [aut, cre, cph]
,
Thibaut Jombart [aut, cph] ,
Zhian N. Kamvar [aut, cph] ,
Brian Knaus [aut, cph] ,
Klaus Schliep [aut, cph] ,
Alastair Potts [aut, cph] ,
David Winter [aut, cph]
Maintainer: Emmanuel Paradis <Emmanuel.Paradis@ird.fr>
Diff between pegas versions 1.1 dated 2021-12-16 and 1.2 dated 2023-02-23
DESCRIPTION | 8 ++-- MD5 | 50 ++++++++++++++--------------- NAMESPACE | 9 ++--- NEWS | 40 +++++++++++++++++++++++ R/IO.R | 7 ++-- R/MMD.R | 10 +++-- R/VCFloci.R | 24 ++++++++++--- R/amova.R | 44 ++++++++++++------------- R/conversion.R | 24 ++++++++++++- R/dist.asd.R | 35 +++++++++++++++----- R/haplotype.R | 19 +++++------ R/mjn.R | 79 +++++++++++++++++++--------------------------- R/theta.R | 6 +-- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 22 +++++------- inst/doc/PlotHaploNet.pdf |binary inst/doc/ReadingFiles.pdf |binary man/MMD.Rd | 15 +++++++- man/dist.asd.Rd | 17 ++++++--- man/haploNet.Rd | 19 +++++++++-- man/mjn.Rd | 5 ++ man/na.omit.loci.Rd | 21 ++++++++---- man/read.gtx.Rd | 2 - man/replot.Rd | 17 +++++++++ man/theta.s.Rd | 4 -- 26 files changed, 307 insertions(+), 170 deletions(-)
Title: Fast Multivariate Normal and Student's t Methods
Description: Provides computationally efficient tools related to the
multivariate normal and Student's t distributions. The main functionalities
are: simulating multivariate random vectors, evaluating multivariate normal or
Student's t densities and Mahalanobis distances. These tools are very efficient
thanks to the use of C++ code and of the OpenMP API.
Author: Matteo Fasiolo [aut, cre],
Thijs van den Berg [ctb]
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>
Diff between mvnfast versions 0.2.7 dated 2021-05-20 and 0.2.8 dated 2023-02-23
ChangeLog |only DESCRIPTION | 12 +++--- MD5 | 43 +++++++++++---------- R/dmixt.R | 2 - R/rmixn.R | 2 - R/rmixt.R | 2 - R/rmvn.R | 2 - R/rmvt.R | 2 - build/vignette.rds |binary inst/CITATION | 22 ++++------- inst/doc/mvnfast.Rmd | 2 - inst/doc/mvnfast.html | 98 ++++++++++++++++++++++++++------------------------ src/Makevars | 1 src/Makevars.win | 1 src/dmixtCpp.cpp | 16 ++++++++ src/dmvtCpp.cpp | 16 ++++++++ src/mahaCpp.cpp | 16 ++++++++ src/msCpp.cpp | 16 ++++++++ src/rmixnCpp.cpp | 16 ++++++++ src/rmixtCpp.cpp | 16 ++++++++ src/rmvnCpp.cpp | 16 ++++++++ src/rmvtCpp.cpp | 16 ++++++++ vignettes/mvnfast.Rmd | 2 - 23 files changed, 223 insertions(+), 96 deletions(-)
Title: Latent Variable Models
Description: A general implementation of Structural Equation Models
with latent variables (MLE, 2SLS, and composite likelihood
estimators) with both continuous, censored, and ordinal
outcomes (Holst and Budtz-Joergensen (2013) <doi:10.1007/s00180-012-0344-y>).
Mixture latent variable models and non-linear latent variable models
(Holst and Budtz-Joergensen (2020) <doi:10.1093/biostatistics/kxy082>).
The package also provides methods for graph exploration (d-separation,
back-door criterion), simulation of general non-linear latent variable
models, and estimation of influence functions for a broad range of
statistical models.
Author: Klaus K. Holst [aut, cre],
Brice Ozenne [ctb],
Thomas Gerds [ctb]
Maintainer: Klaus K. Holst <klaus@holst.it>
Diff between lava versions 1.7.1 dated 2023-01-06 and 1.7.2 dated 2023-02-23
DESCRIPTION | 8 INDEX | 112 MD5 | 45 NAMESPACE | 3 NEWS.md | 67 R/IC.R | 6 R/addhook.R | 35 R/contr.R | 8 R/distribution.R | 19 R/estimate.default.R | 22 R/eventTime.R | 56 R/lava-package.R | 2 R/merge.R | 8 R/onload.R | 3 R/spaghetti.R | 8 R/utils.R | 6 README.md | 2 inst/CITATION | 12 inst/doc/correlation.html | 5795 +--------------------------------------- inst/doc/nonlinear.html | 526 +-- man/contr.Rd | 1 man/eventTime.Rd | 27 tests/testthat/test-inference.R | 13 tests/testthat/test-influence.R |only 24 files changed, 752 insertions(+), 6032 deletions(-)
Title: High Performance Algorithms for Vine Copula Modeling
Description: Provides an interface to 'vinecopulib', a C++ library for vine
copula modeling. The 'rvinecopulib' package implements the core features of the
popular 'VineCopula' package, in particular inference algorithms for both vine
copula and bivariate copula models. Advantages over 'VineCopula' are a sleeker
and more modern API, improved performances, especially in high dimensions,
nonparametric and multi-parameter families, and the ability to model discrete
variables. The 'rvinecopulib' package includes 'vinecopulib' as header-only
C++ library (currently version 0.6.2). Thus users do not need to install
'vinecopulib' itself in order to use 'rvinecopulib'. Since their initial
releases, 'vinecopulib' is licensed under the MIT License, and 'rvinecopulib'
is licensed under the GNU GPL version 3.
Author: Thomas Nagler [aut, cre],
Thibault Vatter [aut]
Maintainer: Thomas Nagler <info@vinecopulib.org>
Diff between rvinecopulib versions 0.6.3.1.0 dated 2023-02-20 and 0.6.3.1.1 dated 2023-02-23
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ src/Makevars | 2 +- src/Makevars.win | 3 +-- 5 files changed, 13 insertions(+), 10 deletions(-)
Title: Optimal Channel Networks
Description: Generate and analyze Optimal Channel Networks (OCNs):
oriented spanning trees reproducing all scaling features characteristic
of real, natural river networks. As such, they can be used in a variety
of numerical experiments in the fields of hydrology, ecology and
epidemiology. See Carraro et al. (2020) <doi:10.1002/ece3.6479>
for a presentation of the package; Rinaldo et al. (2014)
<doi:10.1073/pnas.1322700111> for a theoretical overview on the OCN
concept; Furrer and Sain (2010) <doi:10.18637/jss.v036.i10> for the
construct used.
Author: Luca Carraro [aut, cre],
Florian Altermatt [ctb],
Emanuel A. Fronhofer [ctb],
Reinhard Furrer [ctb],
Isabelle Gounand [ctb],
Andrea Rinaldo [ctb],
Enrico Bertuzzo [aut]
Maintainer: Luca Carraro <luca.carraro@hotmail.it>
Diff between OCNet versions 0.6.0 dated 2023-02-02 and 0.7.0 dated 2023-02-23
DESCRIPTION | 6 MD5 | 56 ++++---- NEWS.md | 16 ++ R/OCN_to_SSN.R | 2 R/OCN_to_igraph.R | 2 R/aggregate_OCN.R | 238 ++++++++++++++++++++++++++--------- R/create_OCN.R | 41 +++++- R/draw_contour_OCN.R | 10 - R/draw_elev2D_OCN.R | 24 ++- R/draw_elev3D_OCN.R | 6 R/draw_elev3Drgl_OCN.R | 4 R/draw_simple_OCN.R | 8 - R/draw_subcatchments_OCN.R | 151 ++++++++++++++-------- R/draw_thematic_OCN.R | 61 ++++---- R/landscape_OCN.R | 17 +- R/paths_OCN.R | 285 +++++++++++++++++++++--------------------- R/rivergeometry_OCN.R | 2 inst/doc/OCNet.Rmd | 2 inst/doc/OCNet.html | 14 +- man/aggregate_OCN.Rd | 5 man/draw_contour_OCN.Rd | 5 man/draw_elev2D_OCN.Rd | 10 + man/draw_elev3D_OCN.Rd | 4 man/draw_elev3Drgl_OCN.Rd | 5 man/draw_simple_OCN.Rd | 5 man/draw_subcatchments_OCN.Rd | 22 ++- man/draw_thematic_OCN.Rd | 14 -- man/paths_OCN.Rd | 4 vignettes/OCNet.Rmd | 2 29 files changed, 656 insertions(+), 365 deletions(-)
Title: Nonparametric Preprocessing for Parametric Causal Inference
Description: Selects matched samples of the original treated and
control groups with similar covariate distributions -- can be
used to match exactly on covariates, to match on propensity
scores, or perform a variety of other matching procedures. The
package also implements a series of recommendations offered in
Ho, Imai, King, and Stuart (2007) <DOI:10.1093/pan/mpl013>. (The
'gurobi' package, which is not on CRAN, is optional and comes with
an installation of the Gurobi Optimizer, available at
<https://www.gurobi.com>.)
Author: Daniel Ho [aut] ,
Kosuke Imai [aut] ,
Gary King [aut] ,
Elizabeth Stuart [aut] ,
Alex Whitworth [ctb],
Noah Greifer [cre, aut]
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between MatchIt versions 4.5.0 dated 2022-11-16 and 4.5.1 dated 2023-02-23
DESCRIPTION | 17 MD5 | 88 ++-- NAMESPACE | 3 NEWS.md | 14 R/MatchIt-package.R | 9 R/RcppExports.R | 8 R/aux_functions.R | 5 R/dist_functions.R | 31 + R/distance2_methods.R | 72 --- R/input_processing.R | 21 - R/matchit.R | 6 R/matchit2cardinality.R | 131 ++++-- R/matchit2cem.R | 23 - R/matchit2nearest.R | 30 + R/matchit2optimal.R | 8 R/weights.subclass.R | 58 -- build/MatchIt.pdf |binary build/vignette.rds |binary inst/CITATION | 38 - inst/doc/MatchIt.R | 25 - inst/doc/MatchIt.Rmd | 27 - inst/doc/MatchIt.html | 74 +-- inst/doc/assessing-balance.R | 18 inst/doc/assessing-balance.Rmd | 18 inst/doc/assessing-balance.html | 83 ++-- inst/doc/estimating-effects.R | 81 +--- inst/doc/estimating-effects.Rmd | 150 +++---- inst/doc/estimating-effects.html | 780 +++++++++++++++++++-------------------- inst/doc/matching-methods.Rmd | 18 inst/doc/matching-methods.html | 77 ++- inst/doc/sampling-weights.R | 11 inst/doc/sampling-weights.Rmd | 13 inst/doc/sampling-weights.html | 80 ++-- man/method_cardinality.Rd | 50 +- man/method_optimal.Rd | 8 src/Makevars |only src/Makevars.win |only src/RcppExports.cpp | 35 + src/energy_match.cpp |only src/nn_matchC.cpp | 12 src/nn_matchC_vec.cpp |only vignettes/MatchIt.Rmd | 27 - vignettes/assessing-balance.Rmd | 18 vignettes/estimating-effects.Rmd | 150 +++---- vignettes/matching-methods.Rmd | 18 vignettes/references.bib | 19 vignettes/sampling-weights.Rmd | 13 47 files changed, 1201 insertions(+), 1166 deletions(-)
Title: Automatic Differentiation of Simple Functions
Description: Implementation of automatically computing derivatives
of functions (see Mailund Thomas (2017) <doi:10.1007/978-1-4842-2881-4>). Moreover, calculating gradients, Hessian and Jacobian matrices is possible.
Author: Thomas Mailund [aut],
Konrad Kraemer [aut, cre]
Maintainer: Konrad Kraemer <konrad_kraemer@yahoo.de>
Diff between dfdr versions 0.1.0 dated 2022-12-21 and 0.2.0 dated 2023-02-23
dfdr-0.1.0/dfdr/tests/testthat |only dfdr-0.1.0/dfdr/tests/testthat.R |only dfdr-0.2.0/dfdr/DESCRIPTION | 9 +-- dfdr-0.2.0/dfdr/MD5 | 46 +++++++-------- dfdr-0.2.0/dfdr/NAMESPACE | 2 dfdr-0.2.0/dfdr/R/differentiate.R | 60 ++++---------------- dfdr-0.2.0/dfdr/R/fct_deriv_pairs.R | 74 ------------------------- dfdr-0.2.0/dfdr/R/gradient.R | 30 ---------- dfdr-0.2.0/dfdr/R/helper.R | 28 ++++----- dfdr-0.2.0/dfdr/R/jacobian.R | 104 +++++++----------------------------- dfdr-0.2.0/dfdr/R/simplify.R | 9 --- dfdr-0.2.0/dfdr/inst |only dfdr-0.2.0/dfdr/man/d.Rd | 7 -- dfdr-0.2.0/dfdr/man/fcts.Rd | 2 dfdr-0.2.0/dfdr/man/fcts_add_fct.Rd | 2 dfdr-0.2.0/dfdr/man/gradient.Rd | 2 dfdr-0.2.0/dfdr/man/hessian.Rd | 2 dfdr-0.2.0/dfdr/man/jacobian.Rd | 7 +- dfdr-0.2.0/dfdr/man/simplify.Rd | 2 dfdr-0.2.0/dfdr/tests/tinytest.R |only 20 files changed, 85 insertions(+), 301 deletions(-)
Title: Algorithm for Computation of the Intersection Areas of N Circles
Description: Implementation of Librino, Levorato, and Zorzi (2014) <doi:10.1002/wcm.2305>
algorithm for computation of the intersection areas of an arbitrary number of circles.
Author: Hugo Salinas [aut, cre]
Maintainer: Hugo Salinas <hugosal@comunidad.unam.mx>
Diff between CirclesIntersections versions 1.0 dated 2022-08-18 and 1.1 dated 2023-02-23
DESCRIPTION | 6 +++--- LICENSE | 2 +- MD5 | 6 +++--- R/intersections_two_three_circles.R | 18 ++++++++++-------- 4 files changed, 17 insertions(+), 15 deletions(-)
More information about CirclesIntersections at CRAN
Permanent link
Title: 'tidymodels' Integration with 'h2o'
Description: Create and evaluate models using 'tidymodels' and 'h2o' <https://h2o.ai/>. The
package enables users to specify 'h2o' as an engine for several
modeling methods.
Author: Max Kuhn [aut] ,
Qiushi Yan [aut, cre],
Steven Pawley [aut],
RStudio [cph]
Maintainer: Qiushi Yan <qiushi.yann@gmail.com>
Diff between agua versions 0.1.1 dated 2023-02-09 and 0.1.2 dated 2023-02-23
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- NEWS.md | 2 ++ R/auto-ml.R | 15 +++++++++------ R/h2o_predict.R | 6 +++--- R/h2o_train.R | 29 ++++++++++++++--------------- R/plot.R | 2 +- R/server.R | 2 ++ R/utils.R | 20 ++++++++++++++++++++ man/automl-autoplot.Rd | 2 ++ man/automl-tools.Rd | 16 ++++++++++------ man/h2o-server.Rd | 2 ++ man/h2o_predict.Rd | 6 ++++-- man/h2o_train.Rd | 29 +++++++++++++++-------------- 14 files changed, 100 insertions(+), 63 deletions(-)
More information about translate.logit at CRAN
Permanent link
Title: A Common API to Clustering
Description: A common interface to specifying clustering models, in the
same style as 'parsnip'. Creates unified interface across different
functions and computational engines.
Author: Emil Hvitfeldt [aut, cre] ,
Kelly Bodwin [aut],
Posit Software, PBC. [cph, fnd]
Maintainer: Emil Hvitfeldt <emil.hvitfeldt@posit.co>
Diff between tidyclust versions 0.1.1 dated 2022-12-19 and 0.1.2 dated 2023-02-23
DESCRIPTION | 15 MD5 | 20 NAMESPACE | 5 NEWS.md | 4 R/tidyclust-package.R | 1 R/tunable.R | 12 R/tune_args.R | 4 R/tune_helpers.R | 3 R/zzz.R | 26 man/figures/README-comparison-1.svg | 8088 ++++++++++++++++++------------------ man/tidyclust-package.Rd | 1 11 files changed, 4081 insertions(+), 4098 deletions(-)
Title: Convert Between R Objects and Geometric Structures
Description: Geometry shapes in 'R' are typically represented by matrices (points, lines), with more complex
shapes being lists of matrices (polygons). 'Geometries' will convert various 'R' objects into these shapes.
Conversion functions are available at both the 'R' level, and through 'Rcpp'.
Author: David Cooley [aut, cre]
Maintainer: David Cooley <david.cooley.au@gmail.com>
Diff between geometries versions 0.2.0 dated 2020-11-26 and 0.2.1 dated 2023-02-23
DESCRIPTION | 15 MD5 | 38 - NEWS.md | 8 R/RcppExports.R | 16 README.md | 12 build/vignette.rds |binary inst/doc/geometries.html | 759 ++++++++++----------- inst/include/geometries/coordinates/dimensions.hpp | 58 + inst/include/geometries/nest/nest.hpp | 68 + inst/include/geometries/utils/reshape/reshape.hpp | 84 +- inst/include/geometries/utils/sexp/sexp.hpp | 24 inst/include/geometries/utils/vectors/vectors.hpp | 12 inst/tinytest/test_coordinates.R | 74 ++ inst/tinytest/test_nest.R | 72 + src/Makevars | 2 src/Makevars.win | 2 src/RcppExports.cpp | 55 + src/lists.cpp |only src/nest.cpp |only src/shapes.cpp | 35 src/utils.cpp | 8 21 files changed, 802 insertions(+), 540 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-12-15 0.6.6
2022-06-21 0.6.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-12-05 0.3.3
2019-12-20 0.3.2
2019-11-25 0.3.0
2019-11-13 0.2.0
2019-07-24 0.1.4
2018-11-29 0.1.2
2018-11-19 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-11 0.7.0
2020-06-12 0.6.0
2019-07-27 0.5.0
2018-12-05 0.4.0
2018-06-19 0.3.0
2016-04-14 0.2.0
2015-11-12 0.1.0