Title: Download Weather Data from Japan Meteorological Agency Website
Description: Provides features that allow users to download
weather data published by the Japan Meteorological Agency (JMA) website
(<https://www.jma.go.jp/jma/index.html>). The data includes information
dating back to 1976 and aligns with the categories available on the website.
Additionally, users can process the best track data of typhoons and easily
handle earthquake record files.
Author: Shinya Uryu [aut, cph, cre]
Maintainer: Shinya Uryu <suika1127@gmail.com>
Diff between jmastats versions 0.2.2 dated 2024-08-01 and 0.3.0 dated 2025-01-27
DESCRIPTION | 6 MD5 | 26 +-- NEWS.md | 10 + R/data.R | 2 R/jma_collect.R | 271 ++++++++++++++++++++++++++++++++++------ R/track.R | 2 README.md | 16 +- data/earthquake_station.rda |binary data/stations.rda |binary data/tide_station.rda |binary man/earthquake_station.Rd | 2 man/jma_collect.Rd | 12 + tests/testthat/test-data.R | 2 tests/testthat/test-internals.R | 20 ++ 14 files changed, 298 insertions(+), 71 deletions(-)
Title: High Dimensional Time Series Analysis Tools
Description: An implementation for high-dimensional time series analysis methods, including factor model for vector time series
proposed by Lam and Yao (2012) <doi:10.1214/12-AOS970> and Chang, Guo and Yao (2015)
<doi:10.1016/j.jeconom.2015.03.024>, martingale difference test proposed by
Chang, Jiang and Shao (2023) <doi:10.1016/j.jeconom.2022.09.001>, principal
component analysis for vector time series proposed by Chang, Guo and Yao (2018) <doi:10.1214/17-AOS1613>,
cointegration analysis proposed by Zhang, Robinson and Yao (2019)
<doi:10.1080/01621459.2018.1458620>, unit root test proposed by Chang, Cheng and Yao (2022)
<doi:10.1093/biomet/asab034>, white noise test proposed by Chang, Yao and Zhou (2017)
<doi:10.1093/biomet/asw066>, CP-decomposition for matrix time
series proposed by Chang et al. (2023) <doi:10.1093/jrsssb/qkac011> and
Chang et al. (2024) <doi:10.48550/arXiv.2410.05634>, and statistical inference for
spectral density matrix pro [...truncated...]
Author: Jinyuan Chang [aut],
Jing He [aut],
Chen Lin [aut, cre],
Qiwei Yao [aut]
Maintainer: Chen Lin <linchen@smail.swufe.edu.cn>
Diff between HDTSA versions 1.0.5 dated 2024-12-02 and 1.0.5-1 dated 2025-01-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/Makevars | 4 ++-- src/Makevars.win | 4 ++-- 4 files changed, 11 insertions(+), 11 deletions(-)
Title: Easily Apply Formats to Data
Description: Contains a set of functions that can be used to apply
formats to data frames or vectors. The package aims to provide
functionality similar to that of SAS® formats. Formats are assigned to
the format attribute on data frame columns. Then when the fdata()
function is called, a new data frame is created with the column data
formatted as specified. The package also contains a value() function
to create a user-defined format, similar to a SAS® user-defined format.
Author: David Bosak [aut, cre]
Maintainer: David Bosak <dbosak01@gmail.com>
Diff between fmtr versions 1.6.5 dated 2024-06-13 and 1.6.8 dated 2025-01-27
DESCRIPTION | 14 +++- MD5 | 36 ++++++------ NEWS.md | 4 + R/descriptions.R | 111 ++++++++++++++++++++++++++++++++++++- R/helpers.R | 2 build/vignette.rds |binary inst/doc/fmtr-convenience.html | 4 - inst/doc/fmtr-example1.html | 4 - inst/doc/fmtr-example2.html | 4 - inst/doc/fmtr-fapply.html | 6 +- inst/doc/fmtr-fapply2.html | 6 +- inst/doc/fmtr-faq.html | 2 inst/doc/fmtr-fcat.html | 6 +- inst/doc/fmtr-fdata.html | 6 +- inst/doc/fmtr-helpers.html | 4 - inst/doc/fmtr.html | 2 man/descriptions.Rd | 7 ++ man/fmtr.Rd | 4 + tests/testthat/test-descriptions.R | 43 ++++++++++++++ 19 files changed, 215 insertions(+), 50 deletions(-)
Title: NNG (Nanomsg Next Gen) Lightweight Messaging Library
Description: R binding for NNG (Nanomsg Next Gen), a successor to ZeroMQ. NNG is
a socket library for reliable, high-performance messaging over in-process,
IPC, TCP, WebSocket and secure TLS transports. Implements 'Scalability
Protocols', a standard for common communications patterns including
publish/subscribe, request/reply and service discovery. As its own threaded
concurrency framework, provides a toolkit for asynchronous programming and
distributed computing. Intuitive 'aio' objects resolve automatically when
asynchronous operations complete, and synchronisation primitives allow R to
wait upon events signalled by concurrent threads.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph],
R Consortium [fnd]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between nanonext versions 1.4.0 dated 2024-12-02 and 1.5.0 dated 2025-01-27
nanonext-1.4.0/nanonext/man/dot-dispatcher.Rd |only nanonext-1.4.0/nanonext/man/dot-online.Rd |only nanonext-1.4.0/nanonext/src/mbedtls-daca7a3.tar.xz |only nanonext-1.4.0/nanonext/src/nng-190.tar.xz |only nanonext-1.5.0/nanonext/DESCRIPTION | 21 - nanonext-1.5.0/nanonext/MD5 | 64 +-- nanonext-1.5.0/nanonext/NAMESPACE | 2 nanonext-1.5.0/nanonext/NEWS.md | 14 nanonext-1.5.0/nanonext/R/messenger.R | 4 nanonext-1.5.0/nanonext/R/nano.R | 29 + nanonext-1.5.0/nanonext/R/nanonext-package.R | 18 - nanonext-1.5.0/nanonext/R/socket.R | 8 nanonext-1.5.0/nanonext/R/sync.R | 32 - nanonext-1.5.0/nanonext/R/tls.R | 6 nanonext-1.5.0/nanonext/README.md | 26 - nanonext-1.5.0/nanonext/configure | 8 nanonext-1.5.0/nanonext/configure.ucrt | 4 nanonext-1.5.0/nanonext/inst/CITATION | 2 nanonext-1.5.0/nanonext/inst/doc/nanonext.Rmd | 41 +- nanonext-1.5.0/nanonext/inst/doc/nanonext.html | 96 +++-- nanonext-1.5.0/nanonext/man/nano.Rd | 4 nanonext-1.5.0/nanonext/man/nanonext-package.Rd | 16 nanonext-1.5.0/nanonext/man/reap.Rd | 6 nanonext-1.5.0/nanonext/man/write_cert.Rd | 4 nanonext-1.5.0/nanonext/src/Makevars.win | 6 nanonext-1.5.0/nanonext/src/comms.c | 18 - nanonext-1.5.0/nanonext/src/init.c | 4 nanonext-1.5.0/nanonext/src/mbedtls-362.tar.xz |only nanonext-1.5.0/nanonext/src/nanonext.h | 21 - nanonext-1.5.0/nanonext/src/nng-110.tar.xz |only nanonext-1.5.0/nanonext/src/proto.c | 2 nanonext-1.5.0/nanonext/src/sync.c | 4 nanonext-1.5.0/nanonext/src/thread.c | 356 --------------------- nanonext-1.5.0/nanonext/src/tls.c | 21 - nanonext-1.5.0/nanonext/tests/tests.R | 46 -- nanonext-1.5.0/nanonext/vignettes/nanonext.Rmd | 41 +- 36 files changed, 268 insertions(+), 656 deletions(-)
Title: Thematic Maps
Description: Thematic maps are geographical maps in which spatial data
distributions are visualized. This package offers a flexible,
layer-based, and easy to use approach to create thematic maps, such as
choropleths and bubble maps.
Author: Martijn Tennekes [aut, cre],
Jakub Nowosad [ctb],
Joel Gombin [ctb],
Sebastian Jeworutzki [ctb],
Kent Russell [ctb],
Richard Zijdeman [ctb],
John Clouse [ctb],
Robin Lovelace [ctb],
Jannes Muenchow [ctb],
Olivier Roy [ctb],
Edzer Pebesma [ctb],
Hugh [...truncated...]
Maintainer: Martijn Tennekes <mtennekes@gmail.com>
Diff between tmap versions 3.3-4 dated 2023-09-12 and 4.0 dated 2025-01-27
tmap-3.3-4/tmap/NEWS |only tmap-3.3-4/tmap/R/cellplot.R |only tmap-3.3-4/tmap/R/deprecated.R |only tmap-3.3-4/tmap/R/get_sf_coordinates.R |only tmap-3.3-4/tmap/R/grid_shp.R |only tmap-3.3-4/tmap/R/map_cat2pal.R |only tmap-3.3-4/tmap/R/map_cat2shape.R |only tmap-3.3-4/tmap/R/map_num2pal.R |only tmap-3.3-4/tmap/R/map_num2shape.R |only tmap-3.3-4/tmap/R/misc_grid.R |only tmap-3.3-4/tmap/R/misc_sf.R |only tmap-3.3-4/tmap/R/plot_1.R |only tmap-3.3-4/tmap/R/plot_attributes.R |only tmap-3.3-4/tmap/R/plot_grid.R |only tmap-3.3-4/tmap/R/plot_legend.R |only tmap-3.3-4/tmap/R/plot_legend_hist.R |only tmap-3.3-4/tmap/R/plot_legend_prepare.R |only tmap-3.3-4/tmap/R/plot_map.R |only tmap-3.3-4/tmap/R/plot_meta.R |only tmap-3.3-4/tmap/R/plot_n.R |only tmap-3.3-4/tmap/R/plot_symbol_misc.R |only tmap-3.3-4/tmap/R/plot_symbols.R |only tmap-3.3-4/tmap/R/plot_text.R |only tmap-3.3-4/tmap/R/plot_text_pointLabelGrid.R |only tmap-3.3-4/tmap/R/pre_check_shape.R |only tmap-3.3-4/tmap/R/pre_gather_shape_info.R |only tmap-3.3-4/tmap/R/pre_order_x.R |only tmap-3.3-4/tmap/R/pre_prepare_vp.R |only tmap-3.3-4/tmap/R/pre_process_facet_layout.R |only tmap-3.3-4/tmap/R/pre_process_gt.R |only tmap-3.3-4/tmap/R/pre_process_shapes.R |only tmap-3.3-4/tmap/R/pre_split_x.R |only tmap-3.3-4/tmap/R/print_shortcut.R |only tmap-3.3-4/tmap/R/print_tmap.R |only tmap-3.3-4/tmap/R/process_add_data_to_gps.R |only tmap-3.3-4/tmap/R/process_aes.R |only tmap-3.3-4/tmap/R/process_color_aes.R |only tmap-3.3-4/tmap/R/process_data.R |only tmap-3.3-4/tmap/R/process_determine_asp_ratios.R |only tmap-3.3-4/tmap/R/process_facet_layout.R |only tmap-3.3-4/tmap/R/process_fill.R |only tmap-3.3-4/tmap/R/process_get_arrangement.R |only tmap-3.3-4/tmap/R/process_gps.R |only tmap-3.3-4/tmap/R/process_layers.R |only tmap-3.3-4/tmap/R/process_limit_nx.R |only tmap-3.3-4/tmap/R/process_lines.R |only tmap-3.3-4/tmap/R/process_lwd_aes.R |only tmap-3.3-4/tmap/R/process_raster.R |only tmap-3.3-4/tmap/R/process_shape_aes.R |only tmap-3.3-4/tmap/R/process_shapes.R |only tmap-3.3-4/tmap/R/process_size_aes.R |only tmap-3.3-4/tmap/R/process_split_g.R |only tmap-3.3-4/tmap/R/process_symbols.R |only tmap-3.3-4/tmap/R/process_text.R |only tmap-3.3-4/tmap/R/process_text_just.R |only tmap-3.3-4/tmap/R/process_textsize_aes.R |only tmap-3.3-4/tmap/R/process_tiles.R |only tmap-3.3-4/tmap/R/process_tm.R |only tmap-3.3-4/tmap/R/process_varnames.R |only tmap-3.3-4/tmap/R/split_tm.R |only tmap-3.3-4/tmap/R/tm_layers.R |only tmap-3.3-4/tmap/R/tm_misc_elements.R |only tmap-3.3-4/tmap/R/tm_view.R |only tmap-3.3-4/tmap/R/tmap_grob.R |only tmap-3.3-4/tmap/R/view_add_leaflet_titles.R |only tmap-3.3-4/tmap/R/view_add_legend.R |only tmap-3.3-4/tmap/R/view_set_bounds.R |only tmap-3.3-4/tmap/R/view_tmap.R |only tmap-3.3-4/tmap/R/xxx_raster.R |only tmap-3.3-4/tmap/R/xxx_scales.R |only tmap-3.3-4/tmap/build/create_NLD.R |only tmap-3.3-4/tmap/build/create_land.R |only tmap-3.3-4/tmap/build/create_metro.R |only tmap-3.3-4/tmap/build/create_rivers.R |only tmap-3.3-4/tmap/build/create_world.R |only tmap-3.3-4/tmap/build/fix_world.R |only tmap-3.3-4/tmap/build/vignette.rds |only tmap-3.3-4/tmap/data/datalist |only tmap-3.3-4/tmap/data/rivers.rda |only tmap-3.3-4/tmap/inst/doc |only tmap-3.3-4/tmap/inst/img/tmap.png |only tmap-3.3-4/tmap/inst/tips.txt |only tmap-3.3-4/tmap/man/Shapes.Rd |only tmap-3.3-4/tmap/man/axis_labels.Rd |only tmap-3.3-4/tmap/man/deprecated_functions.Rd |only tmap-3.3-4/tmap/man/plus-.tmap.Rd |only tmap-3.3-4/tmap/man/rivers.Rd |only tmap-3.3-4/tmap/man/tm_tiles.Rd |only tmap-3.3-4/tmap/man/tmap_format.Rd |only tmap-3.3-4/tmap/man/tmap_grob.Rd |only tmap-3.3-4/tmap/vignettes |only tmap-4.0/tmap/DESCRIPTION | 79 + tmap-4.0/tmap/MD5 | 420 ++++---- tmap-4.0/tmap/NAMESPACE | 465 ++++++++- tmap-4.0/tmap/NEWS.md |only tmap-4.0/tmap/R/check_fix.R |only tmap-4.0/tmap/R/data.R |only tmap-4.0/tmap/R/docs.R |only tmap-4.0/tmap/R/global-variables.R |only tmap-4.0/tmap/R/messages.R |only tmap-4.0/tmap/R/messages_deprecated.R |only tmap-4.0/tmap/R/messages_v4_v3.R |only tmap-4.0/tmap/R/misc_crs.R |only tmap-4.0/tmap/R/misc_from_mapview.R |only tmap-4.0/tmap/R/misc_options.R |only tmap-4.0/tmap/R/misc_other.R |only tmap-4.0/tmap/R/misc_pointLabel.R |only tmap-4.0/tmap/R/misc_stars.R | 210 ++-- tmap-4.0/tmap/R/misc_symbols.R |only tmap-4.0/tmap/R/misc_text.R | 164 +-- tmap-4.0/tmap/R/misc_trans_data.R |only tmap-4.0/tmap/R/onLoad.R | 76 + tmap-4.0/tmap/R/pkg.R | 251 ----- tmap-4.0/tmap/R/print.R | 152 +-- tmap-4.0/tmap/R/process_breaks.R | 224 +++- tmap-4.0/tmap/R/process_color.R | 52 - tmap-4.0/tmap/R/process_legend_format.R | 90 - tmap-4.0/tmap/R/process_meta.R | 997 +++++++++++--------- tmap-4.0/tmap/R/qtm.R | 455 ++++----- tmap-4.0/tmap/R/shapeTM.R |only tmap-4.0/tmap/R/shiny.R | 93 + tmap-4.0/tmap/R/shp_functions.R |only tmap-4.0/tmap/R/spatial_non_supported.R |only tmap-4.0/tmap/R/spatial_raster.R |only tmap-4.0/tmap/R/spatial_sf.R |only tmap-4.0/tmap/R/spatial_sp.R |only tmap-4.0/tmap/R/spatial_stars.R |only tmap-4.0/tmap/R/spatial_terra.R |only tmap-4.0/tmap/R/step1_helper_facets.R |only tmap-4.0/tmap/R/step1_helper_meta.R |only tmap-4.0/tmap/R/step1_rearrange.R |only tmap-4.0/tmap/R/step2_data.R |only tmap-4.0/tmap/R/step2_helper_data.R |only tmap-4.0/tmap/R/step2_helper_facets.R |only tmap-4.0/tmap/R/step3_trans.R |only tmap-4.0/tmap/R/step4_helper_legends.R |only tmap-4.0/tmap/R/step4_plot.R |only tmap-4.0/tmap/R/submit_symbol.R |only tmap-4.0/tmap/R/sysdata.rda |only tmap-4.0/tmap/R/theme_ps.R | 168 ++- tmap-4.0/tmap/R/tm_add_legend.R | 139 +- tmap-4.0/tmap/R/tm_chart.R |only tmap-4.0/tmap/R/tm_components.R |only tmap-4.0/tmap/R/tm_crs.R |only tmap-4.0/tmap/R/tm_element.R |only tmap-4.0/tmap/R/tm_facets.R |only tmap-4.0/tmap/R/tm_group.R |only tmap-4.0/tmap/R/tm_layers_aux.R |only tmap-4.0/tmap/R/tm_layers_iso.R |only tmap-4.0/tmap/R/tm_layers_lines.R |only tmap-4.0/tmap/R/tm_layers_polygons.R |only tmap-4.0/tmap/R/tm_layers_raster.R |only tmap-4.0/tmap/R/tm_layers_rgb.R |only tmap-4.0/tmap/R/tm_layers_sf.R |only tmap-4.0/tmap/R/tm_layers_symbols.R |only tmap-4.0/tmap/R/tm_layers_text.R |only tmap-4.0/tmap/R/tm_layout.R | 412 +++----- tmap-4.0/tmap/R/tm_legend.R |only tmap-4.0/tmap/R/tm_options.R |only tmap-4.0/tmap/R/tm_plot_order.R |only tmap-4.0/tmap/R/tm_pos.R |only tmap-4.0/tmap/R/tm_scale_.R |only tmap-4.0/tmap/R/tm_scale_bivariate.R |only tmap-4.0/tmap/R/tm_shape.R | 158 ++- tmap-4.0/tmap/R/tm_vars.R |only tmap-4.0/tmap/R/tm_xylab.R |only tmap-4.0/tmap/R/tmapChart.R |only tmap-4.0/tmap/R/tmapGpar.R |only tmap-4.0/tmap/R/tmapGridArrange.R |only tmap-4.0/tmap/R/tmapGridAux.R |only tmap-4.0/tmap/R/tmapGridComp.R |only tmap-4.0/tmap/R/tmapGridComp_charts.R |only tmap-4.0/tmap/R/tmapGridComp_funs.R |only tmap-4.0/tmap/R/tmapGridComp_leg_landscape.R |only tmap-4.0/tmap/R/tmapGridComp_leg_portrait.R |only tmap-4.0/tmap/R/tmapGridInit.R |only tmap-4.0/tmap/R/tmapGridLines.R |only tmap-4.0/tmap/R/tmapGridPolygons.R |only tmap-4.0/tmap/R/tmapGridRaster.R |only tmap-4.0/tmap/R/tmapGridRun.R |only tmap-4.0/tmap/R/tmapGridShape.R |only tmap-4.0/tmap/R/tmapGridSymbols.R |only tmap-4.0/tmap/R/tmapGridText.R |only tmap-4.0/tmap/R/tmapGridWrap.R |only tmap-4.0/tmap/R/tmapGridXYlab.R |only tmap-4.0/tmap/R/tmapGrid_misc.R |only tmap-4.0/tmap/R/tmapLeaflet.R |only tmap-4.0/tmap/R/tmapLeafletArrange.R |only tmap-4.0/tmap/R/tmapLeafletAux.R |only tmap-4.0/tmap/R/tmapLeafletComp.R |only tmap-4.0/tmap/R/tmapLeafletComp_charts.R |only tmap-4.0/tmap/R/tmapLeafletComp_funs.R |only tmap-4.0/tmap/R/tmapLeafletComp_leg_portrait.R |only tmap-4.0/tmap/R/tmapLeafletInit.R |only tmap-4.0/tmap/R/tmapLeafletRun.R |only tmap-4.0/tmap/R/tmapLeafletShape.R |only tmap-4.0/tmap/R/tmapLeafletShiny.R |only tmap-4.0/tmap/R/tmapLeafletXYlab.R |only tmap-4.0/tmap/R/tmapLeaflet_layers.R |only tmap-4.0/tmap/R/tmapScaleAsIs.R |only tmap-4.0/tmap/R/tmapScaleBivariate.R |only tmap-4.0/tmap/R/tmapScaleCategorical.R |only tmap-4.0/tmap/R/tmapScaleContinuous.R |only tmap-4.0/tmap/R/tmapScaleDiscrete.R |only tmap-4.0/tmap/R/tmapScaleIntervals.R |only tmap-4.0/tmap/R/tmapScaleRGB.R |only tmap-4.0/tmap/R/tmapScaleRank.R |only tmap-4.0/tmap/R/tmapScale_.R |only tmap-4.0/tmap/R/tmapScale_defaults.R |only tmap-4.0/tmap/R/tmapScale_misc.R |only tmap-4.0/tmap/R/tmapShape.R |only tmap-4.0/tmap/R/tmapShape_misc.R |only tmap-4.0/tmap/R/tmapShape_simplification.R |only tmap-4.0/tmap/R/tmapSplitShp.R |only tmap-4.0/tmap/R/tmapTrans.R |only tmap-4.0/tmap/R/tmap_animation.R | 72 - tmap-4.0/tmap/R/tmap_arrange.R | 191 ++- tmap-4.0/tmap/R/tmap_export.R |only tmap-4.0/tmap/R/tmap_format.R | 81 - tmap-4.0/tmap/R/tmap_icons.R | 128 +- tmap-4.0/tmap/R/tmap_mode.R | 214 +++- tmap-4.0/tmap/R/tmap_options.R | 1036 +++++++++++---------- tmap-4.0/tmap/R/tmap_options_defaults.R |only tmap-4.0/tmap/R/tmap_palettes.R |only tmap-4.0/tmap/R/tmap_save.R | 330 +++--- tmap-4.0/tmap/R/tmap_style.R | 117 +- tmap-4.0/tmap/R/tmap_style_catalogue.R | 51 - tmap-4.0/tmap/R/tmap_tip.R | 91 - tmap-4.0/tmap/R/tme_graphics.R |only tmap-4.0/tmap/R/view_format_popups.R | 46 tmap-4.0/tmap/R/view_functions.R | 291 ++---- tmap-4.0/tmap/build/partial.rdb |binary tmap-4.0/tmap/data/NLD_dist.rda |only tmap-4.0/tmap/data/NLD_muni.rda |binary tmap-4.0/tmap/data/NLD_prov.rda |binary tmap-4.0/tmap/data/World.rda |binary tmap-4.0/tmap/data/World_rivers.rda |only tmap-4.0/tmap/data/land.rda |binary tmap-4.0/tmap/data/metro.rda |binary tmap-4.0/tmap/inst/ieee.csl |only tmap-4.0/tmap/inst/img/compass_4star.png |only tmap-4.0/tmap/inst/img/compass_8star.png |only tmap-4.0/tmap/inst/img/compass_arrow.png |only tmap-4.0/tmap/inst/img/compass_radar.png |only tmap-4.0/tmap/inst/img/compass_rose.png |only tmap-4.0/tmap/inst/tmap.bib |only tmap-4.0/tmap/man/Netherlands.Rd |only tmap-4.0/tmap/man/World.Rd |only tmap-4.0/tmap/man/World_rivers.Rd |only tmap-4.0/tmap/man/figures |only tmap-4.0/tmap/man/get_fact_levels_na.Rd |only tmap-4.0/tmap/man/get_scale_defaults.Rd |only tmap-4.0/tmap/man/land.Rd | 12 tmap-4.0/tmap/man/make_by_vars.Rd |only tmap-4.0/tmap/man/metro.Rd | 10 tmap-4.0/tmap/man/print.tm_element.Rd |only tmap-4.0/tmap/man/print.tmap.Rd | 30 tmap-4.0/tmap/man/qtm.Rd | 162 +-- tmap-4.0/tmap/man/reexports.Rd | 2 tmap-4.0/tmap/man/renderTmap.Rd | 103 +- tmap-4.0/tmap/man/shapeTM.Rd |only tmap-4.0/tmap/man/theme_ps.Rd | 3 tmap-4.0/tmap/man/tm_add_legend.Rd | 119 -- tmap-4.0/tmap/man/tm_basemap.Rd |only tmap-4.0/tmap/man/tm_chart.Rd |only tmap-4.0/tmap/man/tm_compass.Rd | 92 + tmap-4.0/tmap/man/tm_const.Rd |only tmap-4.0/tmap/man/tm_credits.Rd | 94 + tmap-4.0/tmap/man/tm_crs.Rd |only tmap-4.0/tmap/man/tm_extra_innner_margin.Rd |only tmap-4.0/tmap/man/tm_facets.Rd | 332 ++---- tmap-4.0/tmap/man/tm_grid.Rd | 188 ++- tmap-4.0/tmap/man/tm_group.Rd |only tmap-4.0/tmap/man/tm_iso.Rd | 38 tmap-4.0/tmap/man/tm_layout.Rd | 972 +++++++++++++++----- tmap-4.0/tmap/man/tm_legend.Rd |only tmap-4.0/tmap/man/tm_lines.Rd | 268 ++--- tmap-4.0/tmap/man/tm_logo.Rd | 69 - tmap-4.0/tmap/man/tm_minimap.Rd | 63 + tmap-4.0/tmap/man/tm_mouse_coordinates.Rd | 17 tmap-4.0/tmap/man/tm_options.Rd |only tmap-4.0/tmap/man/tm_plot.Rd |only tmap-4.0/tmap/man/tm_plot_order.Rd |only tmap-4.0/tmap/man/tm_polygons.Rd | 358 +++---- tmap-4.0/tmap/man/tm_pos.Rd |only tmap-4.0/tmap/man/tm_raster.Rd | 254 +---- tmap-4.0/tmap/man/tm_rgb.Rd |only tmap-4.0/tmap/man/tm_scale.Rd |only tmap-4.0/tmap/man/tm_scale_asis.Rd |only tmap-4.0/tmap/man/tm_scale_bar.Rd | 75 - tmap-4.0/tmap/man/tm_scale_bivariate.Rd |only tmap-4.0/tmap/man/tm_scale_categorical.Rd |only tmap-4.0/tmap/man/tm_scale_continuous.Rd |only tmap-4.0/tmap/man/tm_scale_discrete.Rd |only tmap-4.0/tmap/man/tm_scale_intervals.Rd |only tmap-4.0/tmap/man/tm_scale_rank.Rd |only tmap-4.0/tmap/man/tm_scale_rgb.Rd |only tmap-4.0/tmap/man/tm_scalebar.Rd |only tmap-4.0/tmap/man/tm_seq.Rd |only tmap-4.0/tmap/man/tm_sf.Rd | 163 ++- tmap-4.0/tmap/man/tm_shape.Rd | 137 -- tmap-4.0/tmap/man/tm_symbols.Rd | 711 +++++++------- tmap-4.0/tmap/man/tm_text.Rd | 506 ++++++---- tmap-4.0/tmap/man/tm_title.Rd |only tmap-4.0/tmap/man/tm_vars.Rd |only tmap-4.0/tmap/man/tm_view.Rd | 108 -- tmap-4.0/tmap/man/tm_xlab.Rd |only tmap-4.0/tmap/man/tmap-deprecated.Rd |only tmap-4.0/tmap/man/tmap-element.Rd | 70 - tmap-4.0/tmap/man/tmap-package.Rd | 122 -- tmap-4.0/tmap/man/tmapAddLayerOptions.Rd |only tmap-4.0/tmap/man/tmapGetShapeMeta1.Rd |only tmap-4.0/tmap/man/tmapGetShapeMeta2.Rd |only tmap-4.0/tmap/man/tmapMode.Rd |only tmap-4.0/tmap/man/tmapShape.Rd |only tmap-4.0/tmap/man/tmapSplitShp.Rd |only tmap-4.0/tmap/man/tmapSubsetShp.Rd |only tmap-4.0/tmap/man/tmap_animation.Rd | 47 tmap-4.0/tmap/man/tmap_arrange.Rd | 55 - tmap-4.0/tmap/man/tmap_design_mode.Rd | 11 tmap-4.0/tmap/man/tmap_devel_mode.Rd |only tmap-4.0/tmap/man/tmap_icons.Rd | 26 tmap-4.0/tmap/man/tmap_internal.Rd |only tmap-4.0/tmap/man/tmap_last.Rd | 36 tmap-4.0/tmap/man/tmap_leaflet.Rd | 84 - tmap-4.0/tmap/man/tmap_mode.Rd | 113 +- tmap-4.0/tmap/man/tmap_options.Rd | 1102 ++++++++++++++++++++--- tmap-4.0/tmap/man/tmap_save.Rd | 106 +- tmap-4.0/tmap/man/tmap_style.Rd | 45 tmap-4.0/tmap/man/tmap_style_catalogue.Rd | 2 tmap-4.0/tmap/man/tmap_tip.Rd | 14 331 files changed, 8009 insertions(+), 5963 deletions(-)
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 0.2.3 dated 2024-07-02 and 0.2.4 dated 2025-01-27
DESCRIPTION | 16 MD5 | 174 ++++----- NEWS.md | 4 R/aaa.R | 46 ++ R/append.R | 54 +-- R/arguments.R | 16 R/augment.R | 2 R/cluster_spec.R | 14 R/compat-purrr.R | 15 R/control.R | 4 R/convert_data.R | 60 +-- R/dials-params.R | 8 R/engine_docs.R | 10 R/engines.R | 38 +- R/extract.R | 2 R/extract_cluster_assignment.R | 44 +- R/extract_fit_summary.R | 45 +- R/extract_parameter_set_dials.R | 8 R/finalize.R | 4 R/fit.R | 136 +++---- R/fit_helpers.R | 8 R/hier_clust.R | 48 +- R/hier_clust_data.R | 9 R/k_means.R | 60 +-- R/k_means_data.R | 38 -- R/load_ns.R | 18 - R/metric-aaa.R | 68 +-- R/metric-helpers.R | 46 +- R/metric-silhouette.R | 53 ++ R/metric-sse.R | 153 ++++++-- R/misc.R | 11 R/model_object_docs.R | 1 R/predict.R | 51 +- R/predict_cluster.R | 2 R/predict_helpers.R | 57 ++- R/predict_raw.R | 2 R/print.R | 3 R/pull.R | 10 R/reconcile_clusterings.R | 35 - R/required_pkgs.R | 4 R/translate.R | 26 - R/tunable.R | 38 -- R/tune_args.R | 34 - R/tune_cluster.R | 360 ++++++++++---------- R/tune_helpers.R | 113 +++--- man/dot-hier_clust_fit_stats.Rd | 2 man/get_centroid_dists.Rd | 12 man/prep_data_dist.Rd | 7 man/set_mode.cluster_spec.Rd | 4 man/silhouette.Rd | 7 man/silhouette_avg.Rd | 2 man/sse_ratio.Rd | 10 man/sse_total.Rd | 10 man/sse_within.Rd | 9 man/sse_within_total.Rd | 10 tests/testthat/_snaps/arguments.md | 15 tests/testthat/_snaps/cluster_metric_set.md | 17 tests/testthat/_snaps/engines.md | 3 tests/testthat/_snaps/extract_centroids.md | 9 tests/testthat/_snaps/extract_cluster_assignment.md | 9 tests/testthat/_snaps/extract_fit_summary.md | 3 tests/testthat/_snaps/fiting.md | 4 tests/testthat/_snaps/hier_clust.md | 4 tests/testthat/_snaps/k_means.md | 4 tests/testthat/_snaps/metric-silhouette.md | 6 tests/testthat/_snaps/metric-sse.md | 3 tests/testthat/_snaps/predict.md | 9 tests/testthat/_snaps/reconcile_clusterings.md | 2 tests/testthat/_snaps/tune_cluster.md | 11 tests/testthat/_snaps/workflows.md | 6 tests/testthat/helper-tidyclust-package.R | 12 tests/testthat/test-augment.R | 28 + tests/testthat/test-cluster_metric_set.R | 14 tests/testthat/test-extract_centroids.R | 2 tests/testthat/test-extract_cluster_assignment.R | 2 tests/testthat/test-extract_fit_summary.R | 2 tests/testthat/test-fiting.R | 10 tests/testthat/test-hier_clust-stats.R | 15 tests/testthat/test-k_means-clustMixType.R | 1 tests/testthat/test-k_means-clusterR.R | 8 tests/testthat/test-k_means-klaR.R | 14 tests/testthat/test-k_means.R | 6 tests/testthat/test-k_means_diagnostics.R | 9 tests/testthat/test-predict.R | 2 tests/testthat/test-predict_formats.R | 4 tests/testthat/test-reconcile_clusterings.R | 16 tests/testthat/test-tune_cluster.R | 21 - tests/testthat/test-workflows.R | 4 88 files changed, 1332 insertions(+), 964 deletions(-)
Title: Code Storage and Execution Class for 'teal' Applications
Description: Introduction of 'qenv' S4 class, that facilitates code
execution and reproducibility in 'teal' applications.
Author: Dawid Kaledkowski [aut, cre],
Aleksander Chlebowski [aut],
Marcin Kosinski [aut],
Pawel Rucki [aut],
Nikolas Burkoff [aut],
Mahmoud Hallal [aut],
Maciej Nasinski [aut],
Konrad Pagacz [aut],
Junlue Zhao [aut],
Chendi Liao [rev],
Dony Unardi [rev],
F. [...truncated...]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal.code versions 0.5.0 dated 2024-01-11 and 0.6.0 dated 2025-01-27
teal.code-0.5.0/teal.code/tests/testthat/test-qenv-within.R |only teal.code-0.6.0/teal.code/DESCRIPTION | 37 teal.code-0.6.0/teal.code/MD5 | 93 - teal.code-0.6.0/teal.code/NAMESPACE | 10 teal.code-0.6.0/teal.code/NEWS.md | 18 teal.code-0.6.0/teal.code/R/qenv-c.R |only teal.code-0.6.0/teal.code/R/qenv-class.R | 63 teal.code-0.6.0/teal.code/R/qenv-concat.R | 7 teal.code-0.6.0/teal.code/R/qenv-constructor.R | 104 - teal.code-0.6.0/teal.code/R/qenv-errors.R | 8 teal.code-0.6.0/teal.code/R/qenv-eval_code.R | 72 teal.code-0.6.0/teal.code/R/qenv-extract.R |only teal.code-0.6.0/teal.code/R/qenv-get_code.R | 119 + teal.code-0.6.0/teal.code/R/qenv-get_env.R | 15 teal.code-0.6.0/teal.code/R/qenv-get_messages.r |only teal.code-0.6.0/teal.code/R/qenv-get_var.R | 36 teal.code-0.6.0/teal.code/R/qenv-get_warnings.R | 33 teal.code-0.6.0/teal.code/R/qenv-join.R | 104 - teal.code-0.6.0/teal.code/R/qenv-length.R |only teal.code-0.6.0/teal.code/R/qenv-show.R | 33 teal.code-0.6.0/teal.code/R/qenv-within.R | 18 teal.code-0.6.0/teal.code/R/utils-get_code_dependency.R |only teal.code-0.6.0/teal.code/R/utils.R | 32 teal.code-0.6.0/teal.code/README.md | 21 teal.code-0.6.0/teal.code/build/vignette.rds |binary teal.code-0.6.0/teal.code/inst/doc/qenv.R | 32 teal.code-0.6.0/teal.code/inst/doc/qenv.Rmd | 61 teal.code-0.6.0/teal.code/inst/doc/qenv.html | 277 +-- teal.code-0.6.0/teal.code/inst/doc/teal-code.Rmd | 2 teal.code-0.6.0/teal.code/inst/doc/teal-code.html | 3 teal.code-0.6.0/teal.code/man/dot-check_joinable.Rd | 2 teal.code-0.6.0/teal.code/man/eval_code.Rd |only teal.code-0.6.0/teal.code/man/get_code.Rd |only teal.code-0.6.0/teal.code/man/get_code_dependency.Rd |only teal.code-0.6.0/teal.code/man/get_env.Rd | 7 teal.code-0.6.0/teal.code/man/get_messages.Rd |only teal.code-0.6.0/teal.code/man/get_var.Rd | 9 teal.code-0.6.0/teal.code/man/get_warn_message_util.Rd |only teal.code-0.6.0/teal.code/man/join.Rd | 51 teal.code-0.6.0/teal.code/man/qenv-class.Rd | 21 teal.code-0.6.0/teal.code/man/qenv.Rd | 142 - teal.code-0.6.0/teal.code/man/subset-qenv.Rd |only teal.code-0.6.0/teal.code/tests/testthat/setup-options.R |only teal.code-0.6.0/teal.code/tests/testthat/test-qenv-class.R |only teal.code-0.6.0/teal.code/tests/testthat/test-qenv_concat.R | 20 teal.code-0.6.0/teal.code/tests/testthat/test-qenv_constructor.R | 72 teal.code-0.6.0/teal.code/tests/testthat/test-qenv_eval_code.R | 161 + teal.code-0.6.0/teal.code/tests/testthat/test-qenv_extract.R |only teal.code-0.6.0/teal.code/tests/testthat/test-qenv_get_code.R | 923 +++++++++- teal.code-0.6.0/teal.code/tests/testthat/test-qenv_get_messages.R |only teal.code-0.6.0/teal.code/tests/testthat/test-qenv_get_var.R | 40 teal.code-0.6.0/teal.code/tests/testthat/test-qenv_get_warnings.R | 40 teal.code-0.6.0/teal.code/tests/testthat/test-qenv_join.R | 127 - teal.code-0.6.0/teal.code/tests/testthat/test-qenv_within.R |only teal.code-0.6.0/teal.code/vignettes/qenv.Rmd | 61 teal.code-0.6.0/teal.code/vignettes/teal-code.Rmd | 2 56 files changed, 1938 insertions(+), 938 deletions(-)
Title: PD-Clustering and Related Methods
Description: Probabilistic distance clustering (PD-clustering) is an iterative, distribution-free, probabilistic clustering method. PD-clustering assigns units to a cluster according to their probability of membership under the constraint that the product of the probability and the distance of each point to any cluster center is a constant. PD-clustering is a flexible method that can be used with elliptical clusters, outliers, or noisy data. PDQ is an extension of the algorithm for clusters of different sizes. GPDC and TPDC use a dissimilarity measure based on densities. Factor PD-clustering (FPDC) is a factor clustering method that involves a linear transformation of variables and a cluster optimizing the PD-clustering criterion. It works on high-dimensional data sets.
Author: Cristina Tortora [aut, cre, cph],
Noe Vidales [aut],
Francesco Palumbo [aut],
Tina Kalra [aut],
Paul D. McNicholas [fnd]
Maintainer: Cristina Tortora <grikris1@gmail.com>
Diff between FPDclustering versions 2.3.2 dated 2024-12-12 and 2.3.3 dated 2025-01-27
DESCRIPTION | 10 +++++----- MD5 | 15 ++++++++------- NAMESPACE | 2 ++ R/s3.r | 7 ++++++- man/FPDC.Rd | 6 +++--- man/Silh.Rd | 6 +++--- man/TuckerFactors.Rd | 2 +- man/plot.FPDclustering.Rd | 2 +- man/print.FPDclustering.Rd |only 9 files changed, 29 insertions(+), 21 deletions(-)
Title: Statistical Transformations for Post-Processing Climate Model
Output
Description: Empirical adjustment of the distribution of variables originating from (regional) climate model simulations using quantile mapping.
Author: Lukas Gudmundsson [aut, cre]
Maintainer: Lukas Gudmundsson <lukas.gudmundsson@env.ethz.ch>
Diff between qmap versions 1.0-4 dated 2016-05-04 and 1.0-5 dated 2025-01-27
ChangeLog | 5 ++++ DESCRIPTION | 14 ++++++++---- MD5 | 38 +++++++++++++++++----------------- R/doQmapPTF.R | 43 ++++++++++++++++++-------------------- R/doQmapQUANT.R | 14 +++++++----- R/doQmapRQUANT.R | 14 ++++++------ R/doQmapSSPLIN.R | 13 ++++++----- R/fitQmapPTF.R | 53 ++++++++++++++++++++++++++++++------------------ R/fitQmapSSPLIN.R | 17 +++++++-------- inst/CITATION | 20 ++++++++---------- man/berngamma.Rd | 4 --- man/bernlnorm.Rd | 4 --- man/bernweibull.Rd | 4 --- man/fitqmapdist.Rd | 19 +++++++++++------ man/obsprecip.Rd | 3 -- man/qmap-package.Rd | 19 ++++++++++++----- man/startbernexp.Rd | 4 +-- man/startberngamma.Rd | 4 +-- man/startbernlnorm.Rd | 4 +-- man/startbernweibull.Rd | 4 +-- 20 files changed, 165 insertions(+), 135 deletions(-)
Title: Missing Morphometric Data Simulation and Estimation
Description: Functions for simulating missing morphometric
data randomly, with taxonomic bias and with anatomical bias. LOST also
includes functions for estimating linear and geometric morphometric data.
Author: J. Arbour [aut, cre],
C. Brown [aut]
Maintainer: J. Arbour <jessica.arbour@mtsu.edu>
Diff between LOST versions 2.1.1 dated 2024-07-03 and 2.1.2 dated 2025-01-27
DESCRIPTION | 19 ++++--- MD5 | 6 +- R/unbend.tps.poly.R | 131 ++++++++++++++++++++++++++++++++++++------------- man/unbend.tps.poly.Rd | 12 ++-- 4 files changed, 120 insertions(+), 48 deletions(-)
Title: Handwriting Analysis with Random Forests
Description: Perform forensic handwriting analysis of two scanned handwritten documents. This package implements the statistical method described by Madeline Johnson and Danica Ommen (2021) <doi:10.1002/sam.11566>. Similarity measures and a random forest produce a score-based likelihood ratio that quantifies the strength of the evidence in favor of the documents being written by the same writer or different writers.
Author: Iowa State University of Science and Technology on behalf of its Center
for Statistics and Applications in Forensic Evidence [aut, cph,
fnd],
Stephanie Reinders [aut, cre]
Maintainer: Stephanie Reinders <reinders.stephanie@gmail.com>
Diff between handwriterRF versions 1.0.2 dated 2024-11-03 and 1.1.0 dated 2025-01-27
handwriterRF-1.0.2/handwriterRF/data/cfr.rda |only handwriterRF-1.0.2/handwriterRF/inst/doc/handwriterRF.Rmd |only handwriterRF-1.0.2/handwriterRF/inst/doc/handwriterRF.html |only handwriterRF-1.0.2/handwriterRF/inst/extdata/w0030_s01_pWOZ_r01.png |only handwriterRF-1.0.2/handwriterRF/inst/extdata/w0030_s01_pWOZ_r02.png |only handwriterRF-1.0.2/handwriterRF/inst/extdata/w0238_s01_pWOZ_r02.png |only handwriterRF-1.0.2/handwriterRF/inst/extdata/w0238_s01_pWOZ_r03.png |only handwriterRF-1.0.2/handwriterRF/man/cfr.Rd |only handwriterRF-1.0.2/handwriterRF/man/get_csafe_train_set.Rd |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/samples |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/slrs_same_filename |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/slrs_w0030/clusters/all_clusters.rds |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/slrs_w0030/slr.rds |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/slrs_w0030_v_w0238 |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/slrs_w0238 |only handwriterRF-1.0.2/handwriterRF/tests/testthat/fixtures/train |only handwriterRF-1.0.2/handwriterRF/vignettes/handwriterRF.Rmd |only handwriterRF-1.1.0/handwriterRF/DESCRIPTION | 14 handwriterRF-1.1.0/handwriterRF/MD5 | 194 ++- handwriterRF-1.1.0/handwriterRF/NAMESPACE | 7 handwriterRF-1.1.0/handwriterRF/NEWS.md | 19 handwriterRF-1.1.0/handwriterRF/R/clusters.R | 24 handwriterRF-1.1.0/handwriterRF/R/compare.R |only handwriterRF-1.1.0/handwriterRF/R/data.R | 490 ++++++---- handwriterRF-1.1.0/handwriterRF/R/distances.R | 143 +- handwriterRF-1.1.0/handwriterRF/R/globals.R | 1 handwriterRF-1.1.0/handwriterRF/R/handwriterRF-package.R |only handwriterRF-1.1.0/handwriterRF/R/plots.R |only handwriterRF-1.1.0/handwriterRF/R/scores.R | 94 + handwriterRF-1.1.0/handwriterRF/R/slrs.R | 253 ++--- handwriterRF-1.1.0/handwriterRF/R/train.R | 178 +-- handwriterRF-1.1.0/handwriterRF/R/utils.R | 57 - handwriterRF-1.1.0/handwriterRF/README.md | 74 - handwriterRF-1.1.0/handwriterRF/build/partial.rdb |only handwriterRF-1.1.0/handwriterRF/build/vignette.rds |binary handwriterRF-1.1.0/handwriterRF/data/cfc.rda |binary handwriterRF-1.1.0/handwriterRF/data/random_forest.rda |binary handwriterRF-1.1.0/handwriterRF/data/ref_scores.rda |only handwriterRF-1.1.0/handwriterRF/data/templateK40.rda |binary handwriterRF-1.1.0/handwriterRF/data/test.rda |only handwriterRF-1.1.0/handwriterRF/data/train.rda |only handwriterRF-1.1.0/handwriterRF/data/validation.rda |only handwriterRF-1.1.0/handwriterRF/inst/doc/introduction-to-slr-model.R |only handwriterRF-1.1.0/handwriterRF/inst/doc/introduction-to-slr-model.Rmd |only handwriterRF-1.1.0/handwriterRF/inst/doc/introduction-to-slr-model.html |only handwriterRF-1.1.0/handwriterRF/inst/doc/training-slr-model.R |only handwriterRF-1.1.0/handwriterRF/inst/doc/training-slr-model.Rmd |only handwriterRF-1.1.0/handwriterRF/inst/doc/training-slr-model.html |only handwriterRF-1.1.0/handwriterRF/inst/extdata/clusters |only handwriterRF-1.1.0/handwriterRF/inst/extdata/docs |only handwriterRF-1.1.0/handwriterRF/man/calculate_slr.Rd | 64 - handwriterRF-1.1.0/handwriterRF/man/cfc.Rd | 91 - handwriterRF-1.1.0/handwriterRF/man/compare_documents.Rd |only handwriterRF-1.1.0/handwriterRF/man/compare_writer_profiles.Rd |only handwriterRF-1.1.0/handwriterRF/man/figures |only handwriterRF-1.1.0/handwriterRF/man/get_cluster_fill_rates.Rd | 10 handwriterRF-1.1.0/handwriterRF/man/get_distances.Rd | 15 handwriterRF-1.1.0/handwriterRF/man/get_rates_of_misleading_slrs.Rd |only handwriterRF-1.1.0/handwriterRF/man/get_ref_scores.Rd |only handwriterRF-1.1.0/handwriterRF/man/handwriterRF-package.Rd |only handwriterRF-1.1.0/handwriterRF/man/interpret_slr.Rd | 2 handwriterRF-1.1.0/handwriterRF/man/pipe.Rd | 2 handwriterRF-1.1.0/handwriterRF/man/plot_scores.Rd |only handwriterRF-1.1.0/handwriterRF/man/random_forest.Rd | 30 handwriterRF-1.1.0/handwriterRF/man/ref_scores.Rd |only handwriterRF-1.1.0/handwriterRF/man/templateK40.Rd | 40 handwriterRF-1.1.0/handwriterRF/man/test.Rd |only handwriterRF-1.1.0/handwriterRF/man/train.Rd |only handwriterRF-1.1.0/handwriterRF/man/train_rf.Rd | 39 handwriterRF-1.1.0/handwriterRF/man/validation.Rd |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/clusters |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/compare |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/distances |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/expand_docname |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/make_fixtures.R | 126 ++ handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/samples1 |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/scores |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/slrs |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/slrs_same_filename_example |only handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/slrs_w0030/clusters/w0030_s01_pWOZ_r01.rds |binary handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/slrs_w0030/clusters/w0030_s01_pWOZ_r02.rds |binary handwriterRF-1.1.0/handwriterRF/tests/testthat/fixtures/slrs_w0030/graphs/problems.txt |only handwriterRF-1.1.0/handwriterRF/tests/testthat/test-compare.R |only handwriterRF-1.1.0/handwriterRF/tests/testthat/test-distances.R | 85 - handwriterRF-1.1.0/handwriterRF/tests/testthat/test-plots.R |only handwriterRF-1.1.0/handwriterRF/tests/testthat/test-scores.R | 33 handwriterRF-1.1.0/handwriterRF/tests/testthat/test-slrs.R | 179 ++- handwriterRF-1.1.0/handwriterRF/tests/testthat/test-train.R | 17 handwriterRF-1.1.0/handwriterRF/tests/testthat/test-utils.R | 10 handwriterRF-1.1.0/handwriterRF/vignettes/introduction-to-slr-model.Rmd |only handwriterRF-1.1.0/handwriterRF/vignettes/training-slr-model.Rmd |only 91 files changed, 1304 insertions(+), 987 deletions(-)
Title: A Bayesian Hierarchical Model that Controls for Non-Adherence in
Mobile Menstrual Cycle Tracking
Description: Implements a Bayesian hierarchical model designed to identify skips in mobile menstrual cycle self-tracking on mobile apps. Future developments will allow for the inclusion of covariates affecting cycle mean and regularity, as well as extra information regarding tracking non-adherence. Main methods to be outlined in a forthcoming paper, with alternative models from Li et al. (2022) <doi:10.1093/jamia/ocab182>.
Author: Luke Duttweiler [aut, cre, cph]
Maintainer: Luke Duttweiler <lduttweiler@hsph.harvard.edu>
Diff between skipTrack versions 0.1.0 dated 2024-05-16 and 0.1.2 dated 2025-01-27
DESCRIPTION | 6 - MD5 | 42 +++++----- NEWS.md | 12 ++ R/diagnostics.R | 70 ++++++++-------- R/fit.R | 12 +- R/liMCMC.R | 20 ++++ R/results.R | 4 R/simulate.R | 28 ++++-- README.md | 129 +++++++++++++++++-------------- inst/doc/skipTrack_intro.R | 13 ++- inst/doc/skipTrack_intro.Rmd | 24 +++++ inst/doc/skipTrack_intro.html | 121 +++++++++++++++-------------- man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/liMCMC.Rd | 5 - man/liSim.Rd | 4 man/mixSim.Rd | 4 man/skipTrack.diagnostics.Rd | 16 +-- man/skipTrack.results.Rd | 2 man/skipTrack.simulate.Rd | 5 - man/stSim.Rd | 4 vignettes/skipTrack_intro.Rmd | 24 +++++ 22 files changed, 331 insertions(+), 214 deletions(-)
Title: Fast and Simple 'MongoDB' Client for R
Description: High-performance MongoDB client based on 'mongo-c-driver' and 'jsonlite'.
Includes support for aggregation, indexing, map-reduce, streaming, encryption,
enterprise authentication, and GridFS. The online user manual provides an overview
of the available methods in the package: <https://jeroen.github.io/mongolite/>.
Author: Jeroen Ooms [aut, cre] ,
MongoDB, Inc [cph]
Maintainer: Jeroen Ooms <jeroenooms@gmail.com>
Diff between mongolite versions 2.8.2 dated 2024-12-02 and 3.0.0 dated 2025-01-27
mongolite-2.8.2/mongolite/src/utf8proc/LICENSE.md |only mongolite-3.0.0/mongolite/DESCRIPTION | 6 mongolite-3.0.0/mongolite/MD5 | 704 +-- mongolite-3.0.0/mongolite/NEWS | 4 mongolite-3.0.0/mongolite/src/Makevars.win | 7 mongolite-3.0.0/mongolite/src/bson/bcon.c | 62 mongolite-3.0.0/mongolite/src/bson/bcon.h | 160 mongolite-3.0.0/mongolite/src/bson/bson-atomic.c | 60 mongolite-3.0.0/mongolite/src/bson/bson-atomic.h | 749 +-- mongolite-3.0.0/mongolite/src/bson/bson-clock.c | 2 mongolite-3.0.0/mongolite/src/bson/bson-clock.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-cmp.h | 136 mongolite-3.0.0/mongolite/src/bson/bson-compat.h | 27 mongolite-3.0.0/mongolite/src/bson/bson-context-private.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-context.c | 38 mongolite-3.0.0/mongolite/src/bson/bson-context.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-decimal128.c | 123 mongolite-3.0.0/mongolite/src/bson/bson-decimal128.h | 6 mongolite-3.0.0/mongolite/src/bson/bson-endian.h | 30 mongolite-3.0.0/mongolite/src/bson/bson-error.c | 5 mongolite-3.0.0/mongolite/src/bson/bson-error.h | 8 mongolite-3.0.0/mongolite/src/bson/bson-iso8601-private.h | 11 mongolite-3.0.0/mongolite/src/bson/bson-iso8601.c | 54 mongolite-3.0.0/mongolite/src/bson/bson-iter.c | 98 mongolite-3.0.0/mongolite/src/bson/bson-iter.h | 126 mongolite-3.0.0/mongolite/src/bson/bson-json-private.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-json.c | 627 +-- mongolite-3.0.0/mongolite/src/bson/bson-json.h | 24 mongolite-3.0.0/mongolite/src/bson/bson-keys.c | 165 mongolite-3.0.0/mongolite/src/bson/bson-keys.h | 7 mongolite-3.0.0/mongolite/src/bson/bson-macros.h | 113 mongolite-3.0.0/mongolite/src/bson/bson-md5.h | 4 mongolite-3.0.0/mongolite/src/bson/bson-memory.c | 36 mongolite-3.0.0/mongolite/src/bson/bson-memory.h | 8 mongolite-3.0.0/mongolite/src/bson/bson-oid.c | 137 mongolite-3.0.0/mongolite/src/bson/bson-oid.h | 13 mongolite-3.0.0/mongolite/src/bson/bson-prelude.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-private.h | 18 mongolite-3.0.0/mongolite/src/bson/bson-reader.c | 33 mongolite-3.0.0/mongolite/src/bson/bson-reader.h | 9 mongolite-3.0.0/mongolite/src/bson/bson-string-private.h |only mongolite-3.0.0/mongolite/src/bson/bson-string.c | 193 mongolite-3.0.0/mongolite/src/bson/bson-string.h | 23 mongolite-3.0.0/mongolite/src/bson/bson-timegm-private.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-timegm.c | 93 mongolite-3.0.0/mongolite/src/bson/bson-types.h | 87 mongolite-3.0.0/mongolite/src/bson/bson-utf8.c | 265 + mongolite-3.0.0/mongolite/src/bson/bson-utf8.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-value.c | 85 mongolite-3.0.0/mongolite/src/bson/bson-value.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-version-functions.c | 2 mongolite-3.0.0/mongolite/src/bson/bson-version-functions.h | 2 mongolite-3.0.0/mongolite/src/bson/bson-version.h | 8 mongolite-3.0.0/mongolite/src/bson/bson-writer.c | 5 mongolite-3.0.0/mongolite/src/bson/bson-writer.h | 8 mongolite-3.0.0/mongolite/src/bson/bson.c | 1956 ++++------ mongolite-3.0.0/mongolite/src/bson/bson.h | 425 -- mongolite-3.0.0/mongolite/src/common/common-atomic-private.h |only mongolite-3.0.0/mongolite/src/common/common-atomic.c |only mongolite-3.0.0/mongolite/src/common/common-b64-private.h | 19 mongolite-3.0.0/mongolite/src/common/common-b64.c | 11 mongolite-3.0.0/mongolite/src/common/common-bson-dsl-private.h |only mongolite-3.0.0/mongolite/src/common/common-cmp-private.h |only mongolite-3.0.0/mongolite/src/common/common-macros-private.h | 60 mongolite-3.0.0/mongolite/src/common/common-md5-private.h | 8 mongolite-3.0.0/mongolite/src/common/common-md5.c | 9 mongolite-3.0.0/mongolite/src/common/common-prelude.h | 5 mongolite-3.0.0/mongolite/src/common/common-string-private.h |only mongolite-3.0.0/mongolite/src/common/common-thread-private.h | 24 mongolite-3.0.0/mongolite/src/common/common-thread.c | 17 mongolite-3.0.0/mongolite/src/kms/kms_crypto_windows.c | 24 mongolite-3.0.0/mongolite/src/kms/kms_gcp_request.c | 2 mongolite-3.0.0/mongolite/src/kms/kms_kmip_reader_writer.c | 17 mongolite-3.0.0/mongolite/src/kms/kms_kmip_reader_writer_private.h | 6 mongolite-3.0.0/mongolite/src/kms/kms_kmip_request.c | 212 + mongolite-3.0.0/mongolite/src/kms/kms_kmip_response.c | 163 mongolite-3.0.0/mongolite/src/kms/kms_kmip_tag_type_private.h | 3 mongolite-3.0.0/mongolite/src/kms/kms_message.c | 2 mongolite-3.0.0/mongolite/src/kms/kms_message_private.h | 4 mongolite-3.0.0/mongolite/src/kms/kms_request.c | 6 mongolite-3.0.0/mongolite/src/kms/kms_request_str.c | 2 mongolite-3.0.0/mongolite/src/kms/kms_response_parser.c | 8 mongolite-3.0.0/mongolite/src/mongoc/mcd-azure.c | 54 mongolite-3.0.0/mongolite/src/mongoc/mcd-azure.h | 14 mongolite-3.0.0/mongolite/src/mongoc/mcd-integer.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mcd-nsinfo.c |only mongolite-3.0.0/mongolite/src/mongoc/mcd-nsinfo.h |only mongolite-3.0.0/mongolite/src/mongoc/mcd-rpc.c | 628 +-- mongolite-3.0.0/mongolite/src/mongoc/mcd-rpc.h | 99 mongolite-3.0.0/mongolite/src/mongoc/mcd-time.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-aggregate-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-aggregate.c | 103 mongolite-3.0.0/mongolite/src/mongoc/mongoc-apm-private.h | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-apm.c | 322 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-apm.h | 279 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-array-private.h | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-array.c | 10 mongolite-3.0.0/mongolite/src/mongoc/mongoc-async-cmd-private.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-async-cmd.c | 114 mongolite-3.0.0/mongolite/src/mongoc/mongoc-async-private.h | 12 mongolite-3.0.0/mongolite/src/mongoc/mongoc-async.c | 49 mongolite-3.0.0/mongolite/src/mongoc/mongoc-buffer-private.h | 27 mongolite-3.0.0/mongolite/src/mongoc/mongoc-buffer.c | 65 mongolite-3.0.0/mongolite/src/mongoc/mongoc-bulk-operation-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-bulk-operation.c | 194 mongolite-3.0.0/mongolite/src/mongoc/mongoc-bulk-operation.h | 59 mongolite-3.0.0/mongolite/src/mongoc/mongoc-bulkwrite.c |only mongolite-3.0.0/mongolite/src/mongoc/mongoc-bulkwrite.h |only mongolite-3.0.0/mongolite/src/mongoc/mongoc-change-stream-private.h | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-change-stream.c | 163 mongolite-3.0.0/mongolite/src/mongoc/mongoc-change-stream.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-pool-private.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-pool.c | 216 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-pool.h | 31 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-private.h | 36 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-session-private.h | 26 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-session.c | 384 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-session.h | 85 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-side-encryption-private.h | 30 mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-side-encryption.c | 1158 ++--- mongolite-3.0.0/mongolite/src/mongoc/mongoc-client-side-encryption.h | 275 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-client.c | 853 +--- mongolite-3.0.0/mongolite/src/mongoc/mongoc-client.h | 131 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-aws-private.h | 17 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-aws.c | 409 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-cyrus-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-cyrus.c | 28 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-private.h | 77 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-sasl-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-sasl.c | 15 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-sspi-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster-sspi.c | 88 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cluster.c | 1359 ++---- mongolite-3.0.0/mongolite/src/mongoc/mongoc-cmd-private.h | 52 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cmd.c | 301 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-collection-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-collection.c | 1014 +---- mongolite-3.0.0/mongolite/src/mongoc/mongoc-collection.h | 157 mongolite-3.0.0/mongolite/src/mongoc/mongoc-compression-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-compression.c | 96 mongolite-3.0.0/mongolite/src/mongoc/mongoc-counters-private.h | 119 mongolite-3.0.0/mongolite/src/mongoc/mongoc-counters.c | 41 mongolite-3.0.0/mongolite/src/mongoc/mongoc-counters.defs | 3 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypt-private.h | 48 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypt.c | 522 +- mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-cng-private.h | 23 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-cng.c | 221 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-common-crypto-private.h | 22 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-common-crypto.c | 63 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-openssl-private.h | 22 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-openssl.c | 91 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto-private.h | 36 mongolite-3.0.0/mongolite/src/mongoc/mongoc-crypto.c | 31 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-array.c | 18 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-change-stream.c | 28 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-cmd-deprecated.c | 17 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-cmd.c | 45 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-find-cmd.c | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-find-opquery.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-find.c | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-legacy.c | 153 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor-private.h | 88 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor.c | 394 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-cursor.h | 34 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cyrus-private.h | 11 mongolite-3.0.0/mongolite/src/mongoc/mongoc-cyrus.c | 169 mongolite-3.0.0/mongolite/src/mongoc/mongoc-database-private.h | 25 mongolite-3.0.0/mongolite/src/mongoc/mongoc-database.c | 312 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-database.h | 74 mongolite-3.0.0/mongolite/src/mongoc/mongoc-deprioritized-servers-private.h | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-deprioritized-servers.c | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-errno-private.h | 16 mongolite-3.0.0/mongolite/src/mongoc/mongoc-error-private.h | 20 mongolite-3.0.0/mongolite/src/mongoc/mongoc-error.c | 55 mongolite-3.0.0/mongolite/src/mongoc/mongoc-error.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-find-and-modify-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-find-and-modify.c | 45 mongolite-3.0.0/mongolite/src/mongoc/mongoc-find-and-modify.h | 45 mongolite-3.0.0/mongolite/src/mongoc/mongoc-flags-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-flags.c | 53 mongolite-3.0.0/mongolite/src/mongoc/mongoc-flags.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-generation-map-private.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-generation-map.c | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-bucket-file-private.h | 10 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-bucket-file.c | 76 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-bucket-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-bucket.c | 103 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-bucket.h | 18 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-list-private.h | 10 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-list.c | 19 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-list.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-page-private.h | 20 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-page.c | 22 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-page.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file-private.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file.c | 194 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-file.h | 21 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs-private.h | 7 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs.c | 61 mongolite-3.0.0/mongolite/src/mongoc/mongoc-gridfs.h | 26 mongolite-3.0.0/mongolite/src/mongoc/mongoc-handshake-compiler-private.h | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-handshake-os-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-handshake-private.h | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-handshake.c | 215 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-handshake.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-host-list-private.h | 28 mongolite-3.0.0/mongolite/src/mongoc/mongoc-host-list.c | 116 mongolite-3.0.0/mongolite/src/mongoc/mongoc-host-list.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-http-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-http.c | 123 mongolite-3.0.0/mongolite/src/mongoc/mongoc-index.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-index.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-init.c | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-init.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-interrupt-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-interrupt.c | 46 mongolite-3.0.0/mongolite/src/mongoc/mongoc-iovec.h | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-libressl-private.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-libressl.c | 11 mongolite-3.0.0/mongolite/src/mongoc/mongoc-linux-distro-scanner-private.h | 11 mongolite-3.0.0/mongolite/src/mongoc/mongoc-linux-distro-scanner.c | 49 mongolite-3.0.0/mongolite/src/mongoc/mongoc-list-private.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-list.c | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-log-private.h | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-log.c | 99 mongolite-3.0.0/mongolite/src/mongoc/mongoc-log.h | 30 mongolite-3.0.0/mongolite/src/mongoc/mongoc-macros.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-matcher-op-private.h | 10 mongolite-3.0.0/mongolite/src/mongoc/mongoc-matcher-op.c | 51 mongolite-3.0.0/mongolite/src/mongoc/mongoc-matcher-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-matcher.c | 108 mongolite-3.0.0/mongolite/src/mongoc/mongoc-matcher.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-memcmp-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ocsp-cache-private.h | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ocsp-cache.c | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-opcode.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-opcode.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-openssl-private.h | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-openssl.c | 182 mongolite-3.0.0/mongolite/src/mongoc/mongoc-optional.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-optional.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-opts-helpers-private.h | 63 mongolite-3.0.0/mongolite/src/mongoc/mongoc-opts-helpers.c | 90 mongolite-3.0.0/mongolite/src/mongoc/mongoc-opts-private.h | 16 mongolite-3.0.0/mongolite/src/mongoc/mongoc-prelude.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-queue-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-queue.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rand-cng.c | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rand-common-crypto.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rand-openssl.c | 4 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rand-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rand.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-read-concern-private.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-read-concern.c | 21 mongolite-3.0.0/mongolite/src/mongoc/mongoc-read-concern.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-read-prefs-private.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-read-prefs.c | 55 mongolite-3.0.0/mongolite/src/mongoc/mongoc-read-prefs.h | 23 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rpc-private.h | 10 mongolite-3.0.0/mongolite/src/mongoc/mongoc-rpc.c | 86 mongolite-3.0.0/mongolite/src/mongoc/mongoc-sasl-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-sasl.c | 28 mongolite-3.0.0/mongolite/src/mongoc/mongoc-scram-private.h | 346 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-scram.c | 593 +-- mongolite-3.0.0/mongolite/src/mongoc/mongoc-secure-channel-private.h | 42 mongolite-3.0.0/mongolite/src/mongoc/mongoc-secure-channel.c | 499 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-secure-transport-private.h | 22 mongolite-3.0.0/mongolite/src/mongoc/mongoc-secure-transport.c | 150 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-api-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-api.c | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-api.h | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-description-private.h | 66 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-description.c | 189 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-description.h | 20 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-monitor-private.h | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-monitor.c | 503 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-stream-private.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-server-stream.c | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-set-private.h | 40 mongolite-3.0.0/mongolite/src/mongoc/mongoc-set.c | 138 mongolite-3.0.0/mongolite/src/mongoc/mongoc-shared-private.h | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-shared.c | 20 mongolite-3.0.0/mongolite/src/mongoc/mongoc-sleep.h | 4 mongolite-3.0.0/mongolite/src/mongoc/mongoc-socket-private.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-socket.c | 126 mongolite-3.0.0/mongolite/src/mongoc/mongoc-socket.h | 46 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ssl-private.h | 17 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ssl.c | 114 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ssl.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-sspi-private.h | 15 mongolite-3.0.0/mongolite/src/mongoc/mongoc-sspi.c | 83 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-buffered.c | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-buffered.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-file.c | 19 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-file.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-gridfs-download-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-gridfs-download.c | 21 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-gridfs-upload-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-gridfs-upload.c | 19 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-gridfs.c | 14 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-gridfs.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-private.h | 9 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-socket.c | 28 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-socket.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-libressl-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-libressl.c | 98 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-libressl.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-bio-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-bio.c | 49 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-openssl-private.h | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-openssl.c | 273 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-openssl.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-private.h | 21 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel.c | 297 - mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-secure-channel.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport.c | 180 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls-secure-transport.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls.c | 104 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream-tls.h | 19 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream.c | 60 mongolite-3.0.0/mongolite/src/mongoc/mongoc-stream.h | 57 mongolite-3.0.0/mongolite/src/mongoc/mongoc-thread-private.h | 13 mongolite-3.0.0/mongolite/src/mongoc/mongoc-timeout-private.h | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-timeout.c | 2 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-background-monitoring-private.h | 11 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-background-monitoring.c | 73 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-description-apm-private.h | 31 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-description-apm.c | 28 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-description-private.h | 111 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-description.c | 720 +-- mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-description.h | 21 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-private.h | 105 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-scanner-private.h | 101 mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology-scanner.c | 405 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-topology.c | 517 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-trace-private.h | 119 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ts-pool-private.h | 188 mongolite-3.0.0/mongolite/src/mongoc/mongoc-ts-pool.c | 68 mongolite-3.0.0/mongolite/src/mongoc/mongoc-uri-private.h | 33 mongolite-3.0.0/mongolite/src/mongoc/mongoc-uri.c | 835 +--- mongolite-3.0.0/mongolite/src/mongoc/mongoc-uri.h | 87 mongolite-3.0.0/mongolite/src/mongoc/mongoc-util-private.h | 64 mongolite-3.0.0/mongolite/src/mongoc/mongoc-util.c | 136 mongolite-3.0.0/mongolite/src/mongoc/mongoc-version-functions.c | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-version-functions.h | 6 mongolite-3.0.0/mongolite/src/mongoc/mongoc-version.h | 8 mongolite-3.0.0/mongolite/src/mongoc/mongoc-write-command-private.h | 26 mongolite-3.0.0/mongolite/src/mongoc/mongoc-write-command.c | 479 -- mongolite-3.0.0/mongolite/src/mongoc/mongoc-write-concern-private.h | 5 mongolite-3.0.0/mongolite/src/mongoc/mongoc-write-concern.c | 88 mongolite-3.0.0/mongolite/src/mongoc/mongoc-write-concern.h | 41 mongolite-3.0.0/mongolite/src/mongoc/mongoc.h | 3 mongolite-3.0.0/mongolite/src/mongoc/service-gcp.c | 24 mongolite-3.0.0/mongolite/src/mongoc/service-gcp.h | 12 mongolite-3.0.0/mongolite/src/mongoc/uthash.h |only mongolite-3.0.0/mongolite/src/mongoc/utlist.h | 851 ---- mongolite-3.0.0/mongolite/src/uthash-2.3.0 |only 359 files changed, 12414 insertions(+), 18941 deletions(-)
Title: Parallel Implementation of 'ETERNA 3.40' for Prediction and
Analysis of Earth Tides
Description: This is a port of 'Fortran ETERNA 3.4'
<http://igets.u-strasbg.fr/soft_and_tool.php> by H.G. Wenzel
for calculating synthetic Earth tides using the
Hartmann and Wenzel (1994) <doi:10.1029/95GL03324> or
Kudryavtsev (2004) <doi:10.1007/s00190-003-0361-2> tidal catalogs.
Author: Jonathan Kennel [aut, cre, trl],
Beth Parker [ths],
Wenzel Hans-Georg [ctb]
Maintainer: Jonathan Kennel <jkennel@uoguelph.ca>
Diff between earthtide versions 0.1.5 dated 2024-07-16 and 0.1.7 dated 2025-01-27
DESCRIPTION | 10 ++-- MD5 | 32 +++++++------ NEWS.md | 4 + R/calc_earthtide.R | 24 +++++++--- R/earthtide_class.R | 36 +++++++++++++-- R/sysdata.rda |binary build/partial.rdb |binary build/vignette.rds |binary inst/doc/Benchmarks.R |only inst/doc/Benchmarks.Rmd |only inst/doc/Benchmarks.html |only inst/doc/introduction.Rmd | 9 +++ inst/doc/introduction.html | 25 ++++++---- man/Earthtide_class.Rd | 3 + man/calc_earthtide.Rd | 4 + tests/testthat/test-earthtide.R | 91 +++++++++++++++++++++++++++++++++++++++ tests/testthat/test-et_predict.R | 44 ++++++++++++++++++ vignettes/Benchmarks.Rmd |only vignettes/introduction.Rmd | 9 +++ 19 files changed, 250 insertions(+), 41 deletions(-)
Title: The Chained Difference-in-Differences
Description: Extends the 'did' package to improve efficiency and handling of unbalanced panel data. Bellego, Benatia, and Dortet-Bernadet (2024), "The Chained Difference-in-Differences", Journal of Econometrics, <doi:10.1016/j.jeconom.2024.105783>.
Author: David Benatia [cre, aut],
Christophe Bellego [aut],
Joel Cuerrier [aut],
Vincent Dortet-Bernadet [aut]
Maintainer: David Benatia <david.benatia@hec.ca>
Diff between cdid versions 0.1.0 dated 2025-01-08 and 0.1.1 dated 2025-01-27
DESCRIPTION | 6 +-- MD5 | 10 +++--- R/GMM_compute_delta_att.R | 3 + R/GMM_convert_delta_to_att.R | 69 ++++++++++++++++++++++++++----------------- build/vignette.rds |binary inst/doc/vignettes.html | 4 +- 6 files changed, 55 insertions(+), 37 deletions(-)
Title: Client for World Banks's 'Indicators' and 'Poverty and
Inequality Platform (PIP)' APIs
Description: Download and search data from the 'World Bank Indicators
API', which provides access to nearly 16,000 time series indicators.
See
<https://datahelpdesk.worldbank.org/knowledgebase/articles/889392-about-the-indicators-api-documentation>
for further details about the API.
Author: Maximilian Muecke [aut, cre]
Maintainer: Maximilian Muecke <muecke.maximilian@gmail.com>
Diff between worldbank versions 0.4.0 dated 2024-12-09 and 0.5.0 dated 2025-01-27
DESCRIPTION | 6 - MD5 | 52 +++++++------- NAMESPACE | 1 NEWS.md | 5 + R/assertions.R | 12 +-- R/fone.R | 18 ++-- R/indicators.R | 140 ++++++++++++++++++++------------------ R/pip.R | 31 ++++---- R/utils.R | 2 R/worldbank-package.R | 7 - README.md | 42 +---------- man/figures/README-plotting-1.png |binary man/fone.Rd | 10 +- man/pip_aux.Rd | 11 +- man/pip_citation.Rd | 9 +- man/pip_data.Rd | 25 +++--- man/pip_group.Rd | 27 +++---- man/pip_valid_params.Rd | 11 +- man/wb_country.Rd | 4 - man/wb_country_indicator.Rd | 25 +++--- man/wb_income_level.Rd | 4 - man/wb_indicator.Rd | 4 - man/wb_lending_type.Rd | 4 - man/wb_region.Rd | 4 - man/wb_source.Rd | 4 - man/wb_topic.Rd | 4 - tests/testthat/test-utils.R | 36 ++++----- 27 files changed, 249 insertions(+), 249 deletions(-)
Title: Facilitate Analysis of Proteomic Data from Olink
Description: A collection of functions to facilitate analysis of proteomic
data from Olink, primarily NPX data that has been exported from Olink
Software. The functions also work on QUANT data from
Olink by log- transforming the QUANT data. The functions are focused
on reading data, facilitating data wrangling and quality control
analysis, performing statistical analysis and generating figures to
visualize the results of the statistical analysis. The goal of this
package is to help users extract biological insights from proteomic
data run on the Olink platform.
Author: Kathleen Nevola [aut, cre] ,
Marianne Sandin [aut] ,
Jamey Guess [aut] ,
Simon Forsberg [aut] ,
Christoffer Cambronero [aut] ,
Pascal Pucholt [aut] ,
Boxi Zhang [aut] ,
Masoumeh Sheikhi [aut] ,
Klev Diamanti [aut] ,
Amrita Kar [aut] ,
Lei Conze [aut] [...truncated...]
Maintainer: Kathleen Nevola <biostattools@olink.com>
Diff between OlinkAnalyze versions 4.0.2 dated 2024-11-22 and 4.1.2 dated 2025-01-27
DESCRIPTION | 8 MD5 | 118 +-- NAMESPACE | 1 NEWS.md | 28 R/Olink_anova.R | 51 - R/Olink_one_non_parametric.R | 94 ++ R/Olink_plate_randomizer.R | 43 - R/Read_NPX_data.R | 22 R/olink_bridgeability_plot.R |only R/olink_normalization.R | 17 R/olink_normalization_n.R | 6 R/olink_normalization_product.R | 146 +++ R/olink_normalization_utils.R | 2 R/read_npx_csv.R | 5 R/read_npx_parquet.R | 79 -- inst/doc/LOD.R | 58 - inst/doc/LOD.Rmd | 35 inst/doc/LOD.html | 26 inst/doc/OutlierExclusion.R | 132 +-- inst/doc/OutlierExclusion.Rmd | 24 inst/doc/OutlierExclusion.html | 31 inst/doc/Vignett.R | 493 +++++++----- inst/doc/Vignett.Rmd | 860 ++++++++++++---------- inst/doc/Vignett.html | 607 ++++++++------- inst/doc/bridging_E3072toEHT.R | 328 ++++---- inst/doc/bridging_E3072toEHT.Rmd | 152 +++ inst/doc/bridging_E3072toEHT.html | 657 ++++++++++++++-- inst/doc/bridging_introduction.R | 18 inst/doc/bridging_introduction.Rmd | 20 inst/doc/bridging_introduction.html | 110 +- inst/doc/plate_randomizer.R | 28 inst/doc/plate_randomizer.Rmd | 42 - inst/doc/plate_randomizer.html | 55 + man/figures/bridgeable_plt_MedianCenter.png |only man/figures/olink_boxplot.png |only man/figures/olink_boxplot_anova_posthoc.png |only man/figures/olink_fill_discrete_boxplot.png |only man/figures/olink_heatmap_plot.png |only man/figures/olink_lmer_plot.png |only man/figures/olink_pathway_heatmap_gsea.png |only man/figures/olink_pathway_heatmap_ora.png |only man/figures/olink_umap_plot.png |only man/figures/olink_volcano_plot.png |only man/figures/set_plot_theme_boxplot.png |only man/olink_bridgeability_plot.Rd |only man/olink_normalization.Rd | 10 man/olink_normalization_bridge.Rd | 3 man/olink_normalization_n.Rd | 4 man/olink_normalization_product_format.Rd |only man/olink_normalization_qs.Rd | 3 man/olink_normalization_subset.Rd | 3 man/olink_one_non_parametric_posthoc.Rd | 3 man/olink_plate_randomizer.Rd | 11 tests/testthat/data/refResults.R | 1 tests/testthat/data/refResults.RData |binary tests/testthat/helper-get_example_olink_data.R | 2 tests/testthat/test-Olink_anova.R | 67 + tests/testthat/test-Olink_one_non_parametric.R | 1 tests/testthat/test-Read_NPX_data.R | 57 + tests/testthat/test-olink_normalization_product.R | 181 ++++ tests/testthat/test-olink_normalization_utils.R | 39 vignettes/LOD.Rmd | 35 vignettes/OutlierExclusion.Rmd | 24 vignettes/Vignett.Rmd | 860 ++++++++++++---------- vignettes/bridging_E3072toEHT.Rmd | 152 +++ vignettes/bridging_introduction.Rmd | 20 vignettes/plate_randomizer.Rmd | 42 - 67 files changed, 3854 insertions(+), 1960 deletions(-)
Title: Download Map Data from GISCO API - Eurostat
Description: Tools to download data from the GISCO (Geographic Information
System of the Commission) Eurostat database
<https://ec.europa.eu/eurostat/web/gisco>. Global and European map
data available. This package is in no way officially related to or
endorsed by Eurostat.
Author: Diego Hernangomez [aut, cre, cph]
,
EuroGeographics [cph]
Maintainer: Diego Hernangomez <diego.hernangomezherrero@gmail.com>
Diff between giscoR versions 0.6.0 dated 2024-08-28 and 0.6.1 dated 2025-01-27
DESCRIPTION | 22 ++---- MD5 | 34 +++++----- NEWS.md | 4 + R/gisco_cache.R | 6 - R/gisco_check_access.R | 100 +++++++++++++++---------------- R/gisco_get_lau.R | 2 R/gisco_get_units.R | 4 - R/utils_names.R | 4 - README.md | 8 +- build/vignette.rds |binary data/gisco_coastallines.rda |binary data/gisco_countries.rda |binary data/gisco_countrycode.rda |binary data/gisco_db.rda |binary data/gisco_nuts.rda |binary inst/schemaorg.json | 10 --- man/giscoR-package.Rd | 63 +++++++++---------- tests/testthat/test-gisco_get_communes.R | 15 +--- 18 files changed, 130 insertions(+), 142 deletions(-)
Title: Interface to the 'VIAF' ('Virtual International Authority File')
API
Description: Provides direct access to linked names for the same entity across the world's major name authority files, including national and regional variations in language, character set, and spelling. For more information go to <https://viaf.org/>.
Author: Stefanie Schneider [cre, aut]
Maintainer: Stefanie Schneider <stefanie.schneider@itg.uni-muenchen.de>
Diff between viafr versions 0.3.1 dated 2024-08-28 and 0.3.2 dated 2025-01-27
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 5 +++++ R/search.R | 15 ++++++++------- R/utils.R | 3 +++ tests/testthat/test_search.R | 7 +++++-- 6 files changed, 29 insertions(+), 17 deletions(-)
More information about superspreading at CRAN
Permanent link
Title: Parameterized Unit Testing
Description: This is an extension of the 'testthat' package that
lets you add parameters to your unit tests. Parameterized unit tests
are often easier to read and more reliable, since they follow the DNRY
(do not repeat yourself) rule.
Author: Michael Quinn [aut, cre],
Michael Chirico [ctb]
Maintainer: Michael Quinn <msquinn@google.com>
Diff between patrick versions 0.2.0 dated 2022-10-13 and 0.3.0 dated 2025-01-27
DESCRIPTION | 23 +++++---- MD5 | 18 +++---- NAMESPACE | 2 NEWS.md | 24 +++++++++ R/patrick-package.R | 2 R/with_parameters.R | 69 +++++++++++++++++++++------- README.md | 3 - man/patrick-package.Rd | 5 ++ man/with_parameters_test_that.Rd | 7 ++ tests/testthat/test-with_parameters.R | 82 ++++++++++++++++++++++++++++++---- 10 files changed, 187 insertions(+), 48 deletions(-)
Title: Workflow for Cluster Randomised Trials with Spillover
Description: Design, workflow and statistical analysis of Cluster Randomised Trials of (health) interventions where there may be spillover between the arms (see <https://thomasasmith.github.io/index.html>).
Author: Thomas Smith [aut, cre, cph] ,
Lea Multerer [ctb],
Mariah Silkey [ctb]
Maintainer: Thomas Smith <Thomas-a.Smith@unibas.ch>
Diff between CRTspat versions 1.3.0 dated 2024-07-25 and 1.3.2 dated 2025-01-27
DESCRIPTION | 12 +- MD5 | 92 +++++++-------- NAMESPACE | 2 NEWS.md | 6 + R/CRTspat-package.R | 2 R/analyseCRT.R | 84 ++++++++++---- R/designCRT.R | 4 R/simulateCRT.R | 6 - build/vignette.rds |binary inst/doc/Usecase1.Rmd | 17 -- inst/doc/Usecase1.html | 43 +++---- inst/doc/Usecase2.Rmd | 60 ++++++---- inst/doc/Usecase2.html | 96 +++++++++------- inst/doc/Usecase3.Rmd | 254 +++++++++++++++++++++++++++++++++++++++++++- inst/doc/Usecase3.html | 108 ++++++++++++++++++ inst/doc/Usecase4.Rmd | 118 ++++++++++++++++++-- inst/doc/Usecase4.html | 156 +++++++++++++++++---------- inst/doc/Usecase5.Rmd | 134 +++++++++++------------ inst/doc/Usecase5.html | 145 ++++++++++++------------- inst/doc/Usecase6.Rmd | 32 ++--- inst/doc/Usecase6.html | 42 +++---- inst/doc/Usecase7.Rmd | 22 +-- inst/doc/Usecase7.html | 24 +--- inst/doc/Usecase8.Rmd | 9 - inst/doc/Usecase8.html | 139 +++++++++++------------- man/CRTanalysis.Rd | 2 man/CRTpower.Rd | 2 man/compute_mesh.Rd | 1 man/figures/manual.pdf |binary tests/testthat/test4_8..R | 6 - tests/testthat/test9.R | 4 vignettes/Usecase1.Rmd | 17 -- vignettes/Usecase1.Rmd.orig | 8 - vignettes/Usecase2.Rmd | 60 ++++++---- vignettes/Usecase2.Rmd.orig | 8 - vignettes/Usecase3.Rmd | 254 +++++++++++++++++++++++++++++++++++++++++++- vignettes/Usecase3.Rmd.orig | 4 vignettes/Usecase4.Rmd | 118 ++++++++++++++++++-- vignettes/Usecase4.Rmd.orig | 18 +-- vignettes/Usecase5.Rmd | 134 +++++++++++------------ vignettes/Usecase5.Rmd.orig | 10 - vignettes/Usecase6.Rmd | 32 ++--- vignettes/Usecase6.Rmd.orig | 14 +- vignettes/Usecase7.Rmd | 22 +-- vignettes/Usecase7.Rmd.orig | 22 +-- vignettes/Usecase8.Rmd | 9 - vignettes/Usecase8.Rmd.orig | 3 47 files changed, 1627 insertions(+), 728 deletions(-)
Title: Multicountry Term Structure of Interest Rates Models
Description: Estimation routines for several classes of affine term structure of interest rates models. All the models are based on the single-country unspanned macroeconomic risk framework from Joslin, Priebsch, and Singleton (2014, JF) <doi:10.1111/jofi.12131>. Multicountry extensions such as the ones of Jotikasthira, Le, and Lundblad (2015, JFE) <doi:10.1016/j.jfineco.2014.09.004>, Candelon and Moura (2023, EM) <doi:10.1016/j.econmod.2023.106453>, and Candelon and Moura (Forthcoming, JFEC) <doi:10.1093/jjfinec/nbae008> are also available.
Author: Rubens Moura [aut, cre]
Maintainer: Rubens Moura <rubens.gtmoura@gmail.com>
Diff between MultiATSM versions 1.1.0 dated 2024-12-16 and 1.2.0 dated 2025-01-27
MultiATSM-1.1.0/MultiATSM/man/FEVDandGFEVDbs_jointQ.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDandGFEVDbs_jointQ_Ortho.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDandGFEVDbs_sepQ.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDgraphsJLLOrtho.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDgraphsJoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDgraphsSep.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDjoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDjointOrthogoJLL.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDjointOrthogoJLL_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDjoint_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDsep.Rd |only MultiATSM-1.1.0/MultiATSM/man/FEVDsep_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDgraphsJLLOrtho.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDgraphsJoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDgraphsSep.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDjoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDjointOrthoJLL.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDjointOrthoJLL_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDjoint_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDsep.Rd |only MultiATSM-1.1.0/MultiATSM/man/GFEVDsep_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/IRFandGIRFbs_jointQ.Rd |only MultiATSM-1.1.0/MultiATSM/man/IRFandGIRFbs_jointQ_Ortho.Rd |only MultiATSM-1.1.0/MultiATSM/man/IRFandGIRFbs_sepQ.Rd |only MultiATSM-1.1.0/MultiATSM/man/OutputConstructionJoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/OutputConstructionJoint_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/OutputConstructionSep.Rd |only MultiATSM-1.1.0/MultiATSM/man/OutputConstructionSep_BS.Rd |only MultiATSM-1.1.0/MultiATSM/man/TPDecompGraphJoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/TPDecompGraphSep.Rd |only MultiATSM-1.1.0/MultiATSM/man/TermPremiaDecompJoint.Rd |only MultiATSM-1.1.0/MultiATSM/man/TermPremiaDecompSep.Rd |only MultiATSM-1.2.0/MultiATSM/DESCRIPTION | 12 MultiATSM-1.2.0/MultiATSM/MD5 | 102 MultiATSM-1.2.0/MultiATSM/NAMESPACE | 1 MultiATSM-1.2.0/MultiATSM/R/A0N__BnAn.R | 12 MultiATSM-1.2.0/MultiATSM/R/ConfidenceBoundsBootstrap.R | 2027 +++------ MultiATSM-1.2.0/MultiATSM/R/GraphicalOutputs.R | 1360 ++---- MultiATSM-1.2.0/MultiATSM/R/InputsForOpt.R | 9 MultiATSM-1.2.0/MultiATSM/R/MLEdensity.R | 1 MultiATSM-1.2.0/MultiATSM/R/NumOutputs.R | 2250 +++------- MultiATSM-1.2.0/MultiATSM/R/NumOutputsBootstrap.R | 1134 ----- MultiATSM-1.2.0/MultiATSM/inst/doc/Guidelines.html | 4 MultiATSM-1.2.0/MultiATSM/inst/doc/Paper-Replications.html | 4 MultiATSM-1.2.0/MultiATSM/man/AdjustPathFEVDs.Rd |only MultiATSM-1.2.0/MultiATSM/man/Boot_DataGraphFact_perShock.Rd |only MultiATSM-1.2.0/MultiATSM/man/Boot_DataGraphYield_perShock.Rd |only MultiATSM-1.2.0/MultiATSM/man/Boot_Fac_Graphs.Rd |only MultiATSM-1.2.0/MultiATSM/man/Boot_Yields_Graphs.Rd |only MultiATSM-1.2.0/MultiATSM/man/Boot_graph_template.Rd |only MultiATSM-1.2.0/MultiATSM/man/BootstrapBoundsSet.Rd | 2 MultiATSM-1.2.0/MultiATSM/man/BuildCI_Yields.Rd |only MultiATSM-1.2.0/MultiATSM/man/BuildFEVDlist.Rd |only MultiATSM-1.2.0/MultiATSM/man/ComputeBounds_FEVDandGFEVD.Rd |only MultiATSM-1.2.0/MultiATSM/man/ComputeBounds_IRFandGIRF.Rd |only MultiATSM-1.2.0/MultiATSM/man/ComputeFEVDs.Rd |only MultiATSM-1.2.0/MultiATSM/man/ComputeGFEVDs.Rd |only MultiATSM-1.2.0/MultiATSM/man/ComputeGIRFs.Rd | 4 MultiATSM-1.2.0/MultiATSM/man/Compute_EP.Rd |only MultiATSM-1.2.0/MultiATSM/man/ExpectedComponent.Rd |only MultiATSM-1.2.0/MultiATSM/man/FEVDandGFEVD.Rd |only MultiATSM-1.2.0/MultiATSM/man/FEVDandGFEVD_BS.Rd |only MultiATSM-1.2.0/MultiATSM/man/FEVDandGFEVDbs.Rd |only MultiATSM-1.2.0/MultiATSM/man/FEVDandGFEVDgraphs.Rd |only MultiATSM-1.2.0/MultiATSM/man/FEVDandGFEVDs_Graphs.Rd |only MultiATSM-1.2.0/MultiATSM/man/FacQuantile_bs.Rd |only MultiATSM-1.2.0/MultiATSM/man/FactorBounds_FEVDandGFEVD.Rd |only MultiATSM-1.2.0/MultiATSM/man/FactorBounds_IRFandGIRF.Rd |only MultiATSM-1.2.0/MultiATSM/man/Fitgraphs.Rd | 4 MultiATSM-1.2.0/MultiATSM/man/FolderCreation_Boot.Rd |only MultiATSM-1.2.0/MultiATSM/man/FolderPrep_FEVDs.Rd |only MultiATSM-1.2.0/MultiATSM/man/FolderPrep_IRFs.Rd | 4 MultiATSM-1.2.0/MultiATSM/man/ForwardPremia.Rd |only MultiATSM-1.2.0/MultiATSM/man/IRFandGIRFbs.Rd |only MultiATSM-1.2.0/MultiATSM/man/IRFandGIRFgraphs.Rd | 4 MultiATSM-1.2.0/MultiATSM/man/MatAdjusted.Rd |only MultiATSM-1.2.0/MultiATSM/man/OutputConstruction.Rd |only MultiATSM-1.2.0/MultiATSM/man/TPDecompGraph.Rd |only MultiATSM-1.2.0/MultiATSM/man/TermPremia.Rd |only MultiATSM-1.2.0/MultiATSM/man/TermPremiaDecomp.Rd |only MultiATSM-1.2.0/MultiATSM/man/WishGraphs_FEVDandGFEVD_Boot.Rd |only MultiATSM-1.2.0/MultiATSM/man/WishGraphs_IRFandGIRF_Boot.Rd |only MultiATSM-1.2.0/MultiATSM/man/Wished_Graphs_FEVDandGFEVD.Rd |only MultiATSM-1.2.0/MultiATSM/man/YieldBounds_FEVDandGFEVD.Rd |only MultiATSM-1.2.0/MultiATSM/man/YieldBounds_IRFandGIRF.Rd |only MultiATSM-1.2.0/MultiATSM/man/YieldQuantile_bs.Rd |only MultiATSM-1.2.0/MultiATSM/man/rhoParas.Rd |only 87 files changed, 2270 insertions(+), 4664 deletions(-)
Title: Hard and Soft Cluster Validity Indices
Description: Algorithms for checking the accuracy of a clustering result with known classes, computing cluster validity indices, and generating plots for comparing them.
The package is compatible with K-means, fuzzy C means, EM clustering, and hierarchical clustering (single, average, and complete linkage).
The details of the indices in this package can be found in:
J. C. Bezdek, M. Moshtaghi, T. Runkler, C. Leckie (2016) <doi:10.1109/TFUZZ.2016.2540063>,
T. Calinski, J. Harabasz (1974) <doi:10.1080/03610927408827101>,
C. H. Chou, M. C. Su, E. Lai (2004) <doi:10.1007/s10044-004-0218-1>,
D. L. Davies, D. W. Bouldin (1979) <doi:10.1109/TPAMI.1979.4766909>,
J. C. Dunn (1973) <doi:10.1080/01969727308546046>,
F. Haouas, Z. Ben Dhiaf, A. Hammouda, B. Solaiman (2017) <doi:10.1109/FUZZ-IEEE.2017.8015651>,
M. Kim, R. S. Ramakrishna (2005) <doi:10.1016/j.patrec.2005.04.007>,
S. H. Kwon (1998) <doi:10.1049/EL:19981523>,
S. H. Kwon, J. Kim, S. H. Son (2021) <d [...truncated...]
Author: Nathakhun Wiroonsri [cre, aut]
,
Onthada Preedasawakul [aut]
Maintainer: Nathakhun Wiroonsri <nathakhun.wir@kmutt.ac.th>
Diff between UniversalCVI versions 1.1.2 dated 2024-03-31 and 1.2.0 dated 2025-01-27
DESCRIPTION | 16 +++++++++------- MD5 | 12 +++++++----- NEWS.md | 3 +++ R/SH.IDX.R |only README.md | 2 +- build/partial.rdb |binary man/KPBM.IDX.Rd | 2 +- man/SH.IDX.Rd |only 8 files changed, 21 insertions(+), 14 deletions(-)
Title: Linear and Nonlinear Mixed Effects Models
Description: Fit and compare Gaussian linear and nonlinear mixed-effects models.
Author: Jose Pinheiro [aut] ,
Douglas Bates [aut] ,
Saikat DebRoy [ctb] ,
Deepayan Sarkar [ctb] ,
EISPACK authors [ctb] ,
Siem Heisterkamp [ctb] ,
Bert Van Willigen [ctb] ,
Johannes Ranke [ctb] ),
R Core Team [aut, cre]
Maintainer: R Core Team <R-core@R-project.org>
Diff between nlme versions 3.1-166 dated 2024-08-14 and 3.1-167 dated 2025-01-27
nlme-3.1-166/nlme/tests/corFactor.R |only nlme-3.1-167/nlme/ChangeLog | 26 +++ nlme-3.1-167/nlme/DESCRIPTION | 12 - nlme-3.1-167/nlme/MD5 | 166 ++++++++++++------------ nlme-3.1-167/nlme/R/corStruct.R | 18 +- nlme-3.1-167/nlme/build/partial.rdb |binary nlme-3.1-167/nlme/data/Alfalfa.rda |binary nlme-3.1-167/nlme/data/Assay.rda |binary nlme-3.1-167/nlme/data/BodyWeight.rda |binary nlme-3.1-167/nlme/data/Cefamandole.rda |binary nlme-3.1-167/nlme/data/Dialyzer.rda |binary nlme-3.1-167/nlme/data/Earthquake.rda |binary nlme-3.1-167/nlme/data/Fatigue.rda |binary nlme-3.1-167/nlme/data/Gasoline.rda |binary nlme-3.1-167/nlme/data/Glucose.rda |binary nlme-3.1-167/nlme/data/Glucose2.rda |binary nlme-3.1-167/nlme/data/Gun.rda |binary nlme-3.1-167/nlme/data/IGF.rda |binary nlme-3.1-167/nlme/data/Machines.rda |binary nlme-3.1-167/nlme/data/MathAchSchool.rda |binary nlme-3.1-167/nlme/data/MathAchieve.rda |binary nlme-3.1-167/nlme/data/Meat.rda |binary nlme-3.1-167/nlme/data/Milk.rda |binary nlme-3.1-167/nlme/data/Muscle.rda |binary nlme-3.1-167/nlme/data/Nitrendipene.rda |binary nlme-3.1-167/nlme/data/Oats.rda |binary nlme-3.1-167/nlme/data/Orthodont.rda |binary nlme-3.1-167/nlme/data/Ovary.rda |binary nlme-3.1-167/nlme/data/Oxboys.rda |binary nlme-3.1-167/nlme/data/Oxide.rda |binary nlme-3.1-167/nlme/data/PBG.rda |binary nlme-3.1-167/nlme/data/Phenobarb.rda |binary nlme-3.1-167/nlme/data/Pixel.rda |binary nlme-3.1-167/nlme/data/Quinidine.rda |binary nlme-3.1-167/nlme/data/Rail.rda |binary nlme-3.1-167/nlme/data/RatPupWeight.rda |binary nlme-3.1-167/nlme/data/Relaxin.rda |binary nlme-3.1-167/nlme/data/Remifentanil.rda |binary nlme-3.1-167/nlme/data/Soybean.rda |binary nlme-3.1-167/nlme/data/Spruce.rda |binary nlme-3.1-167/nlme/data/Tetracycline1.rda |binary nlme-3.1-167/nlme/data/Tetracycline2.rda |binary nlme-3.1-167/nlme/data/Wafer.rda |binary nlme-3.1-167/nlme/data/Wheat.rda |binary nlme-3.1-167/nlme/data/Wheat2.rda |binary nlme-3.1-167/nlme/data/bdf.rda |binary nlme-3.1-167/nlme/data/ergoStool.rda |binary nlme-3.1-167/nlme/man/ACF.Rd | 3 nlme-3.1-167/nlme/man/Covariate.Rd | 8 - nlme-3.1-167/nlme/man/Dim.Rd | 4 nlme-3.1-167/nlme/man/Initialize.Rd | 10 - nlme-3.1-167/nlme/man/Initialize.corStruct.Rd | 2 nlme-3.1-167/nlme/man/Names.Rd | 18 +- nlme-3.1-167/nlme/man/Remifentanil.Rd | 2 nlme-3.1-167/nlme/man/Variogram.Rd | 7 - nlme-3.1-167/nlme/man/bdf.Rd | 3 nlme-3.1-167/nlme/man/coef.corStruct.Rd | 4 nlme-3.1-167/nlme/man/collapse.Rd | 3 nlme-3.1-167/nlme/man/corClasses.Rd | 11 - nlme-3.1-167/nlme/man/corCompSymm.Rd | 13 - nlme-3.1-167/nlme/man/corFactor.Rd | 6 nlme-3.1-167/nlme/man/corMatrix.Rd | 11 - nlme-3.1-167/nlme/man/corMatrix.corStruct.Rd | 1 nlme-3.1-167/nlme/man/corNatural.Rd | 2 nlme-3.1-167/nlme/man/fixed.effects.Rd | 6 nlme-3.1-167/nlme/man/fixef.lmList.Rd | 3 nlme-3.1-167/nlme/man/getCovariate.Rd | 3 nlme-3.1-167/nlme/man/getData.Rd | 5 nlme-3.1-167/nlme/man/getGroups.Rd | 11 - nlme-3.1-167/nlme/man/getResponse.Rd | 8 - nlme-3.1-167/nlme/man/intervals.Rd | 3 nlme-3.1-167/nlme/man/logDet.Rd | 3 nlme-3.1-167/nlme/man/pdClasses.Rd | 11 - nlme-3.1-167/nlme/man/random.effects.Rd | 10 - nlme-3.1-167/nlme/man/recalc.Rd | 3 nlme-3.1-167/nlme/man/recalc.corStruct.Rd | 2 nlme-3.1-167/nlme/man/varClasses.Rd | 10 - nlme-3.1-167/nlme/man/varFunc.Rd | 11 - nlme-3.1-167/nlme/src/corStruct.c | 18 +- nlme-3.1-167/nlme/src/nlmefit.c | 11 + nlme-3.1-167/nlme/tests/corMatrix.R |only nlme-3.1-167/nlme/tests/extras/mlbook.Rout.save | 10 - nlme-3.1-167/nlme/tests/gls.R | 9 + nlme-3.1-167/nlme/tests/nlme.R | 31 ++++ nlme-3.1-167/nlme/tests/predict.lme.R | 20 ++ 85 files changed, 299 insertions(+), 219 deletions(-)
Title: ACE and AVAS for Selecting Multiple Regression Transformations
Description: Two nonparametric methods for multiple regression transform selection are provided.
The first, Alternative Conditional Expectations (ACE),
is an algorithm to find the fixed point of maximal
correlation, i.e. it finds a set of transformed response variables that maximizes R^2
using smoothing functions [see Breiman, L., and J.H. Friedman. 1985. "Estimating Optimal Transformations
for Multiple Regression and Correlation". Journal of the American Statistical Association.
80:580-598. <doi:10.1080/01621459.1985.10478157>].
Also included is the Additivity Variance Stabilization (AVAS) method which works better than ACE when
correlation is low [see Tibshirani, R.. 1986. "Estimating Transformations for Regression via Additivity
and Variance Stabilization". Journal of the American Statistical Association. 83:394-405.
<doi:10.1080/01621459.1988.10478610>]. A good introduction to these two methods is in chapter 16 of
Frank Harrel's "Regression Modeling Strategies" in the Springer Serie [...truncated...]
Author: Phil Spector [aut],
Jerome Friedman [aut],
Robert Tibshirani [aut],
Thomas Lumley [aut],
Shawn Garbett [cre, aut] ,
Jonathan Baron [aut]
Maintainer: Shawn Garbett <shawn.garbett@vumc.org>
Diff between acepack versions 1.5.1 dated 2025-01-22 and 1.5.2 dated 2025-01-27
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- NEWS.md | 5 +++++ src/Makevars |only src/smothr.f90 | 2 +- src/supsmu.f90 | 2 +- 6 files changed, 15 insertions(+), 9 deletions(-)
Title: A Two-Stage Estimation Approach to Cox Regression Using M-Spline
Function
Description: Implements a two-stage estimation approach for Cox
regression using five-parameter M-spline functions to model the baseline hazard. It allows
for flexible hazard shapes and model selection based on log-likelihood criteria.
Author: Ren Teranishi [aut, cre]
Maintainer: Ren Teranishi <ren.teranishi1227@gmail.com>
Diff between splineCox versions 0.0.2 dated 2025-01-09 and 0.0.3 dated 2025-01-27
DESCRIPTION | 6 +- MD5 | 22 ++++---- NAMESPACE | 14 +++-- NEWS.md | 13 ++++- R/splineCoxreg1.R | 90 ++++++++++++++++++++++++----------- R/splineCoxreg2.R | 55 ++++++++++++++++++--- inst/doc/splineCox-introduction.R | 4 - inst/doc/splineCox-introduction.Rmd | 5 + inst/doc/splineCox-introduction.html | 40 ++++++++------- man/splineCox.reg1.Rd | 13 ++++- man/splineCox.reg2.Rd | 14 +++++ vignettes/splineCox-introduction.Rmd | 5 + 12 files changed, 200 insertions(+), 81 deletions(-)
Title: Simultaneous Non-Gaussian Component Analysis
Description: Implementation of SING algorithm to extract joint and individual non-Gaussian components from two datasets. SING uses an objective function that maximizes the skewness and kurtosis of latent components with a penalty to enhance the similarity between subject scores. Unlike other existing methods, SING does not use PCA for dimension reduction, but rather uses non-Gaussianity, which can improve feature extraction. Benjamin B.Risk, Irina Gaynanova (2021) <doi:10.1214/21-AOAS1466>.
Author: Liangkang Wang [aut, cre] ,
Irina Gaynanova [aut] ,
Benjamin Risk [aut]
Maintainer: Liangkang Wang <liangkang_wang@brown.edu>
Diff between singR versions 0.1.2 dated 2024-02-08 and 0.1.3 dated 2025-01-27
singR-0.1.2/singR/R/Basic_functions.r |only singR-0.1.3/singR/DESCRIPTION | 8 +-- singR-0.1.3/singR/MD5 | 40 +++++++++--------- singR-0.1.3/singR/R/Basic_functions.R |only singR-0.1.3/singR/R/UpdateFunctions.R | 4 - singR-0.1.3/singR/R/graph.R | 1 singR-0.1.3/singR/inst/doc/singR-tutorial.R | 2 singR-0.1.3/singR/inst/doc/singR-tutorial.Rmd | 12 +++-- singR-0.1.3/singR/inst/doc/singR-tutorial.html | 55 +++++++++++++++++-------- singR-0.1.3/singR/man/aveM.Rd | 2 singR-0.1.3/singR/man/calculateJB.Rd | 2 singR-0.1.3/singR/man/curvilinear.Rd | 2 singR-0.1.3/singR/man/curvilinear_c.Rd | 2 singR-0.1.3/singR/man/gen.inits.Rd | 2 singR-0.1.3/singR/man/grapes-pow-grapes.Rd | 2 singR-0.1.3/singR/man/orthogonalize.Rd | 2 singR-0.1.3/singR/man/signchange.Rd | 2 singR-0.1.3/singR/man/standard.Rd | 5 +- singR-0.1.3/singR/man/theta2W.Rd | 2 singR-0.1.3/singR/man/vec2net.Rd | 3 - singR-0.1.3/singR/man/whitener.Rd | 2 singR-0.1.3/singR/vignettes/singR-tutorial.Rmd | 12 +++-- 22 files changed, 95 insertions(+), 67 deletions(-)
Title: Client for 'LaminDB'
Description: Interact with 'LaminDB'. 'LaminDB' is an open-source data
framework for biology. This package allows you to query and download
data from 'LaminDB' instances.
Author: Robrecht Cannoodt [aut, cre] ,
Luke Zappia [aut] ,
Data Intuitive [aut],
Lamin Labs [aut, cph]
Maintainer: Robrecht Cannoodt <robrecht@data-intuitive.com>
Diff between laminr versions 0.4.0 dated 2025-01-20 and 0.4.1 dated 2025-01-27
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- vignettes/laminr.Rmd | 2 +- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Extensions for Synthetic Controls Analysis
Description: Extends the functionality of the package 'Synth' as detailed in Abadie, Diamond, and Hainmueller (2011) <doi:10.18637/jss.v042.i13>. Includes generating and plotting placebos, post/pre-MSPE (Mean Squared Prediction Error) significance tests and plots, and calculating average treatment effects for multiple treated units.
Author: Bruno Castanho Silva [aut, cre]
,
Michael DeWitt [aut]
Maintainer: Bruno Castanho Silva <b.paula.castanho.e.silva@fu-berlin.de>
Diff between SCtools versions 0.3.3 dated 2024-05-01 and 0.3.3.1 dated 2025-01-27
DESCRIPTION | 9 +++++---- MD5 | 14 +++++++------- R/SCtools-internal.R | 6 ++++-- R/multiple.synth.R | 2 +- build/vignette.rds |binary inst/doc/case-study.html | 21 +++++++++++---------- inst/doc/replicating-basque.html | 10 +++++----- man/multiple.synth.Rd | 2 +- 8 files changed, 34 insertions(+), 30 deletions(-)
Title: Axis and Allies Spring
Description: Simulates battles in the board game Axis and Allies Spring 1942, and calculates your probability of winning a battle. This speeds the game up significantly.
Author: TJ Weaver [aut, cre]
Maintainer: TJ Weaver <weaverthomasjohn@gmail.com>
Diff between axisandallies versions 0.1.0 dated 2024-02-17 and 0.1.1 dated 2025-01-27
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/land_battle.R | 2 +- 3 files changed, 6 insertions(+), 6 deletions(-)
Title: Oncology Extension Package for ADaM in 'R' Asset Library
Description: Programming oncology specific Clinical Data Interchange Standards Consortium
(CDISC) compliant Analysis Data Model (ADaM) datasets in 'R'. ADaM datasets are a
mandatory part of any New Drug or Biologics License Application submitted to the
United States Food and Drug Administration (FDA). Analysis derivations are
implemented in accordance with the "Analysis Data Model Implementation Guide"
(CDISC Analysis Data Model Team (2021), <https://www.cdisc.org/standards/foundational/adam>).
The package is an extension package of the 'admiral' package.
Author: Stefan Bundfuss [aut, cre],
Ross Farrugia [aut],
Amit Jain [aut],
Andrew Smith [aut],
Teckla Akinyi [aut],
Samia Kabi [aut],
Stephen Gormley [aut],
Hinal Patel [aut],
Vinh Nguyen [aut],
Olga Starostecka [aut],
Uwe Bader [ctb],
Karl Kennedy [ctb],
Edo [...truncated...]
Maintainer: Stefan Bundfuss <stefan.bundfuss@roche.com>
Diff between admiralonco versions 1.1.0 dated 2024-06-19 and 1.2.0 dated 2025-01-27
DESCRIPTION | 10 +-- MD5 | 36 ++++++------ NEWS.md | 12 ++++ R/tte_sources.R | 2 README.md | 3 - build/vignette.rds |binary inst/WORDLIST | 28 ++++++--- inst/doc/adrs.Rmd | 9 +++ inst/doc/adrs.html | 11 +++ inst/doc/adrs_basic.Rmd | 16 ++++- inst/doc/adrs_basic.html | 19 ++++++ inst/doc/adrs_gcig.R |only inst/doc/adrs_gcig.Rmd |only inst/doc/adrs_gcig.html |only inst/doc/adrs_imwg.Rmd | 2 inst/doc/adrs_imwg.html | 132 ++++++++++++++++++++++++++++------------------ man/tte_source_objects.Rd | 2 vignettes/adrs.Rmd | 9 +++ vignettes/adrs_basic.Rmd | 16 ++++- vignettes/adrs_gcig.Rmd |only vignettes/adrs_imwg.Rmd | 2 21 files changed, 215 insertions(+), 94 deletions(-)
Title: Markdown-Based Surveys Using 'Quarto' and 'shiny'
Description: Generate surveys using markdown and R code chunks. Surveys
are composed of two files: a survey.qmd 'Quarto' file defining the
survey content (pages, questions, etc), and an app.R file defining a
'shiny' app with global settings (libraries, database configuration,
etc.) and server configuration options (e.g., conditional skipping /
display, etc.). Survey data collected from respondents is stored in a
'PostgreSQL' database. Features include controls for conditional skip
logic (skip to a page based on an answer to a question), conditional
display logic (display a question based on an answer to a question), a
customizable progress bar, and a wide variety of question types,
including multiple choice (single choice and multiple choices),
select, text, numeric, multiple choice buttons, text area, and dates.
Because the surveys render into a 'shiny' app, designers can also
leverage the reactive capabilities of 'shiny' to create dynamic and
interactive surveys.
Author: John Paul Helveston [aut, cre, cph]
,
Pingfan Hu [aut, cph] ,
Bogdan Bunea [aut, cph] ,
Stefan Munnes [ctb]
Maintainer: John Paul Helveston <john.helveston@gmail.com>
Diff between surveydown versions 0.7.2 dated 2024-12-13 and 0.8.0 dated 2025-01-27
surveydown-0.7.2/surveydown/build |only surveydown-0.7.2/surveydown/inst/doc |only surveydown-0.7.2/surveydown/inst/templates |only surveydown-0.7.2/surveydown/man/figures/technologies.png |only surveydown-0.7.2/surveydown/man/rmdchunks |only surveydown-0.7.2/surveydown/vignettes |only surveydown-0.8.0/surveydown/DESCRIPTION | 58 - surveydown-0.8.0/surveydown/MD5 | 54 - surveydown-0.8.0/surveydown/NAMESPACE | 3 surveydown-0.8.0/surveydown/NEWS.md | 9 surveydown-0.8.0/surveydown/R/config.R | 2 surveydown-0.8.0/surveydown/R/dashboard.R |only surveydown-0.8.0/surveydown/R/db.R | 456 ++++++++--- surveydown-0.8.0/surveydown/R/server.R | 131 --- surveydown-0.8.0/surveydown/R/ui.R | 226 ++++- surveydown-0.8.0/surveydown/R/util.R | 121 -- surveydown-0.8.0/surveydown/README.md | 106 +- surveydown-0.8.0/surveydown/inst/css/surveydown.css | 66 + surveydown-0.8.0/surveydown/inst/lua/include-resources.lua | 6 surveydown-0.8.0/surveydown/inst/template |only surveydown-0.8.0/surveydown/man/figures/technologies.svg |only surveydown-0.8.0/surveydown/man/figures/technologies_old.png |only surveydown-0.8.0/surveydown/man/sd_create_survey.Rd | 34 surveydown-0.8.0/surveydown/man/sd_dashboard.Rd |only surveydown-0.8.0/surveydown/man/sd_database.Rd | 10 surveydown-0.8.0/surveydown/man/sd_db_config.Rd |only surveydown-0.8.0/surveydown/man/sd_db_connect.Rd |only surveydown-0.8.0/surveydown/man/sd_get_data.Rd | 7 surveydown-0.8.0/surveydown/man/sd_server.Rd | 6 29 files changed, 792 insertions(+), 503 deletions(-)
Title: Reading, Quality Control and Preprocessing of MBA (Multiplex
Bead Assay) Data
Description: Speeds up the process of loading raw data from MBA (Multiplex Bead Assay) examinations, performs quality control checks, and automatically normalises the data, preparing it for more advanced, downstream tasks. The main objective of the package is to create a simple environment for a user, who does not necessarily have experience with R language. The package is developed within the project of the same name - 'PvSTATEM', which is an international project aiming for malaria elimination.
Author: Tymoteusz Kwiecinski [aut, cre]
,
Jakub Grzywaczewski [aut],
Mateusz Nizwantowski [aut],
Przemyslaw Biecek [ths] ,
Nuno Sepulveda [ths]
Maintainer: Tymoteusz Kwiecinski <tymoteuszkwiecinski@gmail.com>
Diff between PvSTATEM versions 0.1.3 dated 2025-01-08 and 0.2.1 dated 2025-01-27
PvSTATEM-0.1.3/PvSTATEM/tests/testthat/test-plots_mfi.R |only PvSTATEM-0.1.3/PvSTATEM/tests/testthat/test-plots_plate.R |only PvSTATEM-0.1.3/PvSTATEM/tests/testthat/test-standard_curve.R |only PvSTATEM-0.2.1/PvSTATEM/DESCRIPTION | 12 PvSTATEM-0.2.1/PvSTATEM/MD5 | 102 ++-- PvSTATEM-0.2.1/PvSTATEM/NAMESPACE | 11 PvSTATEM-0.2.1/PvSTATEM/R/classes-model.R | 30 + PvSTATEM-0.2.1/PvSTATEM/R/classes-plate.R | 12 PvSTATEM-0.2.1/PvSTATEM/R/classes-plate_builder.R | 236 ++++++---- PvSTATEM-0.2.1/PvSTATEM/R/config.R |only PvSTATEM-0.2.1/PvSTATEM/R/generate_report.R | 74 ++- PvSTATEM-0.2.1/PvSTATEM/R/helpers.R | 117 ++++ PvSTATEM-0.2.1/PvSTATEM/R/parser-layout.R | 2 PvSTATEM-0.2.1/PvSTATEM/R/parser-xponent.R | 2 PvSTATEM-0.2.1/PvSTATEM/R/parser.R | 5 PvSTATEM-0.2.1/PvSTATEM/R/plots-levey_jennings.R |only PvSTATEM-0.2.1/PvSTATEM/R/plots-plate.R | 6 PvSTATEM-0.2.1/PvSTATEM/R/plots-standard_curve.R | 205 ++++++++ PvSTATEM-0.2.1/PvSTATEM/R/process-dir.R |only PvSTATEM-0.2.1/PvSTATEM/R/process-file.R |only PvSTATEM-0.2.1/PvSTATEM/R/process-plate.R | 40 - PvSTATEM-0.2.1/PvSTATEM/README.md | 115 ++-- PvSTATEM-0.2.1/PvSTATEM/inst/doc/example_script.html | 10 PvSTATEM-0.2.1/PvSTATEM/inst/extdata/CovidOISExPONTENT.csv | 10 PvSTATEM-0.2.1/PvSTATEM/inst/extdata/CovidOISExPONTENT_missing_rows.csv |only PvSTATEM-0.2.1/PvSTATEM/inst/extdata/multiplate_lite |only PvSTATEM-0.2.1/PvSTATEM/inst/extdata/multiplate_mock |only PvSTATEM-0.2.1/PvSTATEM/inst/extdata/multiplate_reallife_reduced |only PvSTATEM-0.2.1/PvSTATEM/inst/templates/levey_jennings_report_template.Rmd | 124 +++++ PvSTATEM-0.2.1/PvSTATEM/man/Plate.Rd | 16 PvSTATEM-0.2.1/PvSTATEM/man/PlateBuilder.Rd | 7 PvSTATEM-0.2.1/PvSTATEM/man/check_path_equal.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/detect_mba_format.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/find_layout_file.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/generate_levey_jennings_report.Rd | 51 +- PvSTATEM-0.2.1/PvSTATEM/man/get_location_matrix.Rd | 4 PvSTATEM-0.2.1/PvSTATEM/man/get_output_dir.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/handle_high_dose_hook.Rd | 21 PvSTATEM-0.2.1/PvSTATEM/man/is_mba_data_file.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/is_mba_format.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/merge_dataframes.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/plot_levey_jennings.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/plot_standard_curve_analyte.Rd | 11 PvSTATEM-0.2.1/PvSTATEM/man/plot_standard_curve_analyte_with_model.Rd | 24 - PvSTATEM-0.2.1/PvSTATEM/man/plot_standard_curve_stacked.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/plot_standard_curve_thumbnail.Rd | 3 PvSTATEM-0.2.1/PvSTATEM/man/process_dir.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/process_file.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/process_plate.Rd | 4 PvSTATEM-0.2.1/PvSTATEM/man/select_columns.Rd |only PvSTATEM-0.2.1/PvSTATEM/man/sort_list_by.Rd |only PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-generate_report.R | 18 PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-helpers.R | 75 +++ PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-integration.R | 50 ++ PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-plate_builder.R | 69 ++ PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-plots-levey_jennings.R |only PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-plots-mfi.R |only PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-plots-plate.R |only PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-plots-standard_curve.R |only PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-process-dir.R |only PvSTATEM-0.2.1/PvSTATEM/tests/testthat/test-process-plate.R | 4 61 files changed, 1202 insertions(+), 268 deletions(-)
Title: High-Dimensional Mediation Analysis
Description: Allows to estimate and test high-dimensional mediation effects based on advanced mediator screening and penalized regression techniques. Methods used in the package refer to Zhang H, Zheng Y, Zhang Z, Gao T, Joyce B, Yoon G, Zhang W, Schwartz J, Just A, Colicino E, Vokonas P, Zhao L, Lv J, Baccarelli A, Hou L, Liu L. Estimating and Testing High-dimensional Mediation Effects in Epigenetic Studies. Bioinformatics. (2016) <doi:10.1093/bioinformatics/btw351>. PMID: 27357171.
Author: Yinan Zheng [aut, cre] ,
Haixiang Zhang [aut],
Lifang Hou [aut],
Lei Liu [aut, cph]
Maintainer: Yinan Zheng <y-zheng@northwestern.edu>
Diff between HIMA versions 2.3.0 dated 2024-10-28 and 2.3.1 dated 2025-01-27
HIMA-2.3.0/HIMA/R/classicHIMA.R |only HIMA-2.3.0/HIMA/R/dblassoHIMA.R |only HIMA-2.3.0/HIMA/R/eHIMA.R |only HIMA-2.3.0/HIMA/R/himaDat.R |only HIMA-2.3.0/HIMA/R/himaFit.R |only HIMA-2.3.0/HIMA/R/microHIMA.R |only HIMA-2.3.0/HIMA/R/qHIMA.R |only HIMA-2.3.0/HIMA/R/survHIMA.R |only HIMA-2.3.0/HIMA/data/himaDat.rda |only HIMA-2.3.0/HIMA/inst/NEWS |only HIMA-2.3.0/HIMA/man/classicHIMA.Rd |only HIMA-2.3.0/HIMA/man/dblassoHIMA.Rd |only HIMA-2.3.0/HIMA/man/eHIMA.Rd |only HIMA-2.3.0/HIMA/man/himaDat.Rd |only HIMA-2.3.0/HIMA/man/himaFit.Rd |only HIMA-2.3.0/HIMA/man/microHIMA.Rd |only HIMA-2.3.0/HIMA/man/qHIMA.Rd |only HIMA-2.3.0/HIMA/man/survHIMA.Rd |only HIMA-2.3.1/HIMA/DESCRIPTION | 15 HIMA-2.3.1/HIMA/MD5 | 67 +-- HIMA-2.3.1/HIMA/NAMESPACE | 16 HIMA-2.3.1/HIMA/NEWS.md |only HIMA-2.3.1/HIMA/R/HIMA-package.R | 6 HIMA-2.3.1/HIMA/R/hima.R |only HIMA-2.3.1/HIMA/R/hima_classic.R |only HIMA-2.3.1/HIMA/R/hima_data.R |only HIMA-2.3.1/HIMA/R/hima_dblasso.R |only HIMA-2.3.1/HIMA/R/hima_efficient.R |only HIMA-2.3.1/HIMA/R/hima_microbiome.R |only HIMA-2.3.1/HIMA/R/hima_quantile.R |only HIMA-2.3.1/HIMA/R/hima_survival.R |only HIMA-2.3.1/HIMA/R/onAttach.R | 48 -- HIMA-2.3.1/HIMA/R/utils.R | 350 +++++++---------- HIMA-2.3.1/HIMA/README.md | 7 HIMA-2.3.1/HIMA/build |only HIMA-2.3.1/HIMA/data/BinaryOutcome.rda |only HIMA-2.3.1/HIMA/data/ContinuousOutcome.rda |only HIMA-2.3.1/HIMA/data/MicrobiomeData.rda |only HIMA-2.3.1/HIMA/data/QuantileData.rda |only HIMA-2.3.1/HIMA/data/SurvivalData.rda |only HIMA-2.3.1/HIMA/inst/CITATION | 24 - HIMA-2.3.1/HIMA/inst/doc |only HIMA-2.3.1/HIMA/inst/scripts/Example_data_generation.R | 82 ++- HIMA-2.3.1/HIMA/man/BinaryOutcome.Rd |only HIMA-2.3.1/HIMA/man/ContinuousOutcome.Rd |only HIMA-2.3.1/HIMA/man/HIMA-package.Rd | 4 HIMA-2.3.1/HIMA/man/MicrobiomeData.Rd |only HIMA-2.3.1/HIMA/man/QuantileData.Rd |only HIMA-2.3.1/HIMA/man/SurvivalData.Rd |only HIMA-2.3.1/HIMA/man/hima.Rd |only HIMA-2.3.1/HIMA/man/hima_classic.Rd |only HIMA-2.3.1/HIMA/man/hima_dblasso.Rd |only HIMA-2.3.1/HIMA/man/hima_efficient.Rd |only HIMA-2.3.1/HIMA/man/hima_microbiome.Rd |only HIMA-2.3.1/HIMA/man/hima_quantile.Rd |only HIMA-2.3.1/HIMA/man/hima_survival.Rd |only HIMA-2.3.1/HIMA/vignettes |only 57 files changed, 280 insertions(+), 339 deletions(-)
Title: High Performance Tools for Combinatorics and Computational
Mathematics
Description: Provides optimized functions and flexible iterators implemented in
C++ for solving problems in combinatorics and computational mathematics.
Handles various combinatorial objects including combinations, permutations,
integer partitions and compositions, Cartestion products, unordered
Cartesian products, and partition of groups. Utilizes the RMatrix class
from 'RcppParallel' for thread safety. The combination and permutation
functions contain constraint parameters that allow for generation of all
results of a vector meeting specific criteria (e.g. finding all
combinations such that the sum is between two bounds). Capable of
ranking/unranking combinatorial objects efficiently (e.g. retrieve only the
nth lexicographical result) which sets up nicely for parallelization as
well as random sampling. Gmp support permits exploration where the total
number of results is large (e.g. comboSample(10000, 500, n = 4)).
Additionally, there are several high performance number theoretic
functions that ar [...truncated...]
Author: Joseph Wood [aut, cre]
Maintainer: Joseph Wood <jwood000@gmail.com>
Diff between RcppAlgos versions 2.8.5 dated 2024-10-11 and 2.9.1 dated 2025-01-27
RcppAlgos-2.8.5/RcppAlgos/R/ComboGroups.R |only RcppAlgos-2.8.5/RcppAlgos/inst/include/ComboCartesian.h |only RcppAlgos-2.8.5/RcppAlgos/src/CartesianContainer.cpp |only RcppAlgos-2.9.1/RcppAlgos/DESCRIPTION | 32 RcppAlgos-2.9.1/RcppAlgos/MD5 | 197 +- RcppAlgos-2.9.1/RcppAlgos/NAMESPACE | 13 RcppAlgos-2.9.1/RcppAlgos/NEWS.md | 27 RcppAlgos-2.9.1/RcppAlgos/R/S4Classes.R | 73 RcppAlgos-2.9.1/RcppAlgos/R/Utility.R | 58 RcppAlgos-2.9.1/RcppAlgos/R/comboGrid.R | 62 RcppAlgos-2.9.1/RcppAlgos/R/comboGroups.R |only RcppAlgos-2.9.1/RcppAlgos/R/expandGrid.R |only RcppAlgos-2.9.1/RcppAlgos/README.md | 132 + RcppAlgos-2.9.1/RcppAlgos/build/vignette.rds |binary RcppAlgos-2.9.1/RcppAlgos/inst/NEWS.Rd | 32 RcppAlgos-2.9.1/RcppAlgos/inst/doc/CombPermConstraints.Rmd | 58 RcppAlgos-2.9.1/RcppAlgos/inst/doc/CombPermConstraints.html | 62 RcppAlgos-2.9.1/RcppAlgos/inst/doc/CombinatorialSampling.Rmd | 28 RcppAlgos-2.9.1/RcppAlgos/inst/doc/CombinatorialSampling.html | 32 RcppAlgos-2.9.1/RcppAlgos/inst/doc/CombinatoricsIterators.Rmd | 91 - RcppAlgos-2.9.1/RcppAlgos/inst/doc/CombinatoricsIterators.html | 117 - RcppAlgos-2.9.1/RcppAlgos/inst/doc/ComputationalMathematics.Rmd | 40 RcppAlgos-2.9.1/RcppAlgos/inst/doc/ComputationalMathematics.html | 46 RcppAlgos-2.9.1/RcppAlgos/inst/doc/GeneralCombinatorics.Rmd | 36 RcppAlgos-2.9.1/RcppAlgos/inst/doc/GeneralCombinatorics.html | 44 RcppAlgos-2.9.1/RcppAlgos/inst/doc/HighPerformanceBenchmarks.Rmd | 160 - RcppAlgos-2.9.1/RcppAlgos/inst/doc/HighPerformanceBenchmarks.html | 164 - RcppAlgos-2.9.1/RcppAlgos/inst/doc/OtherCombinatorics.Rmd | 311 +++ RcppAlgos-2.9.1/RcppAlgos/inst/doc/OtherCombinatorics.html | 832 ++++++---- RcppAlgos-2.9.1/RcppAlgos/inst/doc/SubsetSum.Rmd | 36 RcppAlgos-2.9.1/RcppAlgos/inst/doc/SubsetSum.html | 42 RcppAlgos-2.9.1/RcppAlgos/inst/include/Cartesian |only RcppAlgos-2.9.1/RcppAlgos/inst/include/ClassUtils/ComboApplyClass.h | 10 RcppAlgos-2.9.1/RcppAlgos/inst/include/ClassUtils/ComboClass.h | 59 RcppAlgos-2.9.1/RcppAlgos/inst/include/ClassUtils/ComboResClass.h | 10 RcppAlgos-2.9.1/RcppAlgos/inst/include/ClassUtils/Iterator.h |only RcppAlgos-2.9.1/RcppAlgos/inst/include/ComboGroups/ComboGroupsClass.h | 6 RcppAlgos-2.9.1/RcppAlgos/inst/include/ComboGroups/ComboGroupsGeneral.h | 3 RcppAlgos-2.9.1/RcppAlgos/inst/include/ComboGroups/ComboGroupsTemplate.h | 1 RcppAlgos-2.9.1/RcppAlgos/inst/include/ComboGroups/GetComboGroups.h | 1 RcppAlgos-2.9.1/RcppAlgos/inst/include/Constraints/CnstrntsSpecialClass.h | 6 RcppAlgos-2.9.1/RcppAlgos/inst/include/Constraints/CnstrntsToRClass.h | 6 RcppAlgos-2.9.1/RcppAlgos/inst/include/CppConvert/Constants.h | 3 RcppAlgos-2.9.1/RcppAlgos/inst/include/CppConvert/ConvertUtils.h | 3 RcppAlgos-2.9.1/RcppAlgos/inst/include/Partitions/PartitionsClass.h | 6 RcppAlgos-2.9.1/RcppAlgos/inst/include/SetUpUtils.h | 16 RcppAlgos-2.9.1/RcppAlgos/man/Cartesian-Class.Rd |only RcppAlgos-2.9.1/RcppAlgos/man/Combo-Class.Rd | 3 RcppAlgos-2.9.1/RcppAlgos/man/ComboGroups-Class.Rd | 4 RcppAlgos-2.9.1/RcppAlgos/man/Constraints-Class.Rd | 3 RcppAlgos-2.9.1/RcppAlgos/man/Partitions-Class.Rd | 3 RcppAlgos-2.9.1/RcppAlgos/man/combinatoricsIterator.Rd | 1 RcppAlgos-2.9.1/RcppAlgos/man/comboGrid.Rd | 31 RcppAlgos-2.9.1/RcppAlgos/man/comboGroupsIterator.Rd | 1 RcppAlgos-2.9.1/RcppAlgos/man/expandGrid.Rd |only RcppAlgos-2.9.1/RcppAlgos/man/expandGridCount.Rd |only RcppAlgos-2.9.1/RcppAlgos/man/expandGridIterator.Rd |only RcppAlgos-2.9.1/RcppAlgos/man/expandGridSample.Rd |only RcppAlgos-2.9.1/RcppAlgos/man/partitionsIterator.Rd | 1 RcppAlgos-2.9.1/RcppAlgos/src/CartesianClass.cpp |only RcppAlgos-2.9.1/RcppAlgos/src/CartesianUtils.cpp |only RcppAlgos-2.9.1/RcppAlgos/src/ClassUtils.cpp | 33 RcppAlgos-2.9.1/RcppAlgos/src/CnstrntsSpecialClass.cpp | 12 RcppAlgos-2.9.1/RcppAlgos/src/CnstrntsToRClass.cpp | 6 RcppAlgos-2.9.1/RcppAlgos/src/CombinatoricsCount.cpp | 23 RcppAlgos-2.9.1/RcppAlgos/src/CombinatoricsMain.cpp | 2 RcppAlgos-2.9.1/RcppAlgos/src/ComboApplyClass.cpp | 24 RcppAlgos-2.9.1/RcppAlgos/src/ComboClass.cpp | 71 RcppAlgos-2.9.1/RcppAlgos/src/ComboGridContainer.cpp |only RcppAlgos-2.9.1/RcppAlgos/src/ComboGroupsClass.cpp | 6 RcppAlgos-2.9.1/RcppAlgos/src/ComboGroupsGeneral.cpp | 64 RcppAlgos-2.9.1/RcppAlgos/src/ComboGroupsTemplate.cpp | 2 RcppAlgos-2.9.1/RcppAlgos/src/ComboResClass.cpp | 20 RcppAlgos-2.9.1/RcppAlgos/src/ConvertUtils.cpp | 42 RcppAlgos-2.9.1/RcppAlgos/src/DivNumSieve.cpp | 1 RcppAlgos-2.9.1/RcppAlgos/src/ExposeClass.cpp | 152 + RcppAlgos-2.9.1/RcppAlgos/src/GetClassVals.cpp | 9 RcppAlgos-2.9.1/RcppAlgos/src/GetCombPerm.cpp | 26 RcppAlgos-2.9.1/RcppAlgos/src/GetCombPermApply.cpp | 8 RcppAlgos-2.9.1/RcppAlgos/src/GetComboGroups.cpp | 16 RcppAlgos-2.9.1/RcppAlgos/src/GetPrevCombPerm.cpp | 25 RcppAlgos-2.9.1/RcppAlgos/src/GetPrevCombPermApply.cpp | 10 RcppAlgos-2.9.1/RcppAlgos/src/GetProduct.cpp |only RcppAlgos-2.9.1/RcppAlgos/src/GroupHelperClass.cpp | 5 RcppAlgos-2.9.1/RcppAlgos/src/Iterator.cpp |only RcppAlgos-2.9.1/RcppAlgos/src/MotleyPrimes.cpp | 1 RcppAlgos-2.9.1/RcppAlgos/src/PartitionsClass.cpp | 6 RcppAlgos-2.9.1/RcppAlgos/src/PollardRhoContainer.cpp | 1 RcppAlgos-2.9.1/RcppAlgos/src/ProductCartesian.cpp |only RcppAlgos-2.9.1/RcppAlgos/src/SampCombPermStd.cpp | 25 RcppAlgos-2.9.1/RcppAlgos/src/SampleApply.cpp | 8 RcppAlgos-2.9.1/RcppAlgos/src/SetUpUtils.cpp | 46 RcppAlgos-2.9.1/RcppAlgos/src/StdConvert.cpp | 2 RcppAlgos-2.9.1/RcppAlgos/src/cpp11.cpp | 80 RcppAlgos-2.9.1/RcppAlgos/tests/testthat/testCartesianClass.R |only RcppAlgos-2.9.1/RcppAlgos/tests/testthat/testComboClass.R | 36 RcppAlgos-2.9.1/RcppAlgos/tests/testthat/testComboGrid.R | 15 RcppAlgos-2.9.1/RcppAlgos/tests/testthat/testComboGroups.R | 13 RcppAlgos-2.9.1/RcppAlgos/tests/testthat/testComboGroupsClass.R | 5 RcppAlgos-2.9.1/RcppAlgos/tests/testthat/testExpandGrid.R |only RcppAlgos-2.9.1/RcppAlgos/vignettes/CombPermConstraints.Rmd | 58 RcppAlgos-2.9.1/RcppAlgos/vignettes/CombinatorialSampling.Rmd | 28 RcppAlgos-2.9.1/RcppAlgos/vignettes/CombinatoricsIterators.Rmd | 91 - RcppAlgos-2.9.1/RcppAlgos/vignettes/ComputationalMathematics.Rmd | 40 RcppAlgos-2.9.1/RcppAlgos/vignettes/GeneralCombinatorics.Rmd | 36 RcppAlgos-2.9.1/RcppAlgos/vignettes/HighPerformanceBenchmarks.Rmd | 160 - RcppAlgos-2.9.1/RcppAlgos/vignettes/OtherCombinatorics.Rmd | 311 +++ RcppAlgos-2.9.1/RcppAlgos/vignettes/SubsetSum.Rmd | 36 108 files changed, 2813 insertions(+), 1644 deletions(-)
Title: The Iterated Score Regression-Based Estimation
Description: We use the ISR to handle with PCA-based missing data with high correlation, and the DISR to handle with distributed PCA-based missing data. The philosophy of the package is described in Guo G. (2024) <doi:10.1080/03610918.2022.2091779>.
Author: Guangbao Guo [aut, cre] ,
Haoyue Song [aut],
Lixing Zhu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between ISR versions 2025-01-10 dated 2025-01-11 and 2025.01.14 dated 2025-01-27
DESCRIPTION | 6 +++--- MD5 | 30 +++++++++++++++--------------- R/DISR.R | 2 +- R/ISR.R | 2 +- R/MMLPCA.R | 2 +- R/MNIPALS.R | 2 +- R/MRPCA.R | 2 +- R/Mean.R | 2 +- R/SR.R | 2 +- man/DISR.Rd | 2 +- man/ISR.Rd | 2 +- man/MMLPCA.Rd | 2 +- man/MNIPALS.Rd | 2 +- man/MRPCA.Rd | 2 +- man/Mean.Rd | 2 +- man/SR.Rd | 2 +- 16 files changed, 32 insertions(+), 32 deletions(-)
Title: Comprehensive Science Mapping Analysis
Description: Tool for quantitative research in scientometrics and bibliometrics.
It implements the comprehensive workflow for science mapping analysis proposed in Aria M. and
Cuccurullo C. (2017) <doi:10.1016/j.joi.2017.08.007>.
'bibliometrix' provides various routines for importing bibliographic data from 'SCOPUS',
'Clarivate Analytics Web of Science' (<https://www.webofknowledge.com/>), 'Digital Science Dimensions'
(<https://www.dimensions.ai/>), 'OpenAlex' (<https://openalex.org/>), 'Cochrane Library' (<https://www.cochranelibrary.com/>), 'Lens' (<https://lens.org>),
and 'PubMed' (<https://pubmed.ncbi.nlm.nih.gov/>) databases, performing bibliometric analysis
and building networks for co-citation, coupling, scientific collaboration and co-word analysis.
Author: Massimo Aria [cre, aut, cph] ,
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 4.3.1 dated 2025-01-22 and 4.3.2 dated 2025-01-27
DESCRIPTION | 6 +++--- MD5 | 18 +++++++++--------- R/apiOA2df.R | 14 +++++++------- R/csvLens2df.R | 7 +++---- R/csvOA2df.R | 10 +++++++--- R/csvScopus2df.R | 4 ++-- R/dimensions2df.R | 10 +++++----- build/partial.rdb |binary inst/biblioshiny/libraries.R | 1 + inst/biblioshiny/server.R | 15 ++++++++++----- 10 files changed, 47 insertions(+), 38 deletions(-)
Title: Variance Function Program
Description: Variance function estimation for models proposed by W. Sadler in his variance function program
('VFP', www.aacb.asn.au/AACB/Resources/Variance-Function-Program). Here, the idea is
to fit multiple variance functions to a data set and consequently assess which function reflects
the relationship 'Var ~ Mean' best. For 'in-vitro diagnostic' ('IVD') assays modeling this relationship
is of great importance when individual test-results are used for defining follow-up treatment of patients.
Author: Andre Schuetzenmeister [cre, aut],
Florian Dufey [aut],
Andrea Geistanger [ctb]
Maintainer: Andre Schuetzenmeister <andre.schuetzenmeister@roche.com>
Diff between VFP versions 1.4.1 dated 2022-11-08 and 1.4.3 dated 2025-01-27
VFP-1.4.1/VFP/inst/doc/VFP_package_vignette.rmd |only VFP-1.4.1/VFP/man/Signif.Rd |only VFP-1.4.1/VFP/man/addGrid.Rd |only VFP-1.4.1/VFP/man/as.rgb.Rd |only VFP-1.4.1/VFP/man/bt.coef.Rd |only VFP-1.4.1/VFP/man/conditionHandler.Rd |only VFP-1.4.1/VFP/man/deriveCx.Rd |only VFP-1.4.1/VFP/man/fit.EP17.Rd |only VFP-1.4.1/VFP/man/fit.vfp.Rd |only VFP-1.4.1/VFP/man/getMat.VCA.Rd |only VFP-1.4.1/VFP/man/legend.rm.Rd |only VFP-1.4.1/VFP/man/precisionPlot.Rd |only VFP-1.4.1/VFP/man/predict.modelEP17.Rd |only VFP-1.4.1/VFP/man/predictMean.Rd |only VFP-1.4.1/VFP/man/t.coef.Rd |only VFP-1.4.1/VFP/vignettes/VFP_package_vignette.rmd |only VFP-1.4.3/VFP/DESCRIPTION | 11 VFP-1.4.3/VFP/MD5 | 100 VFP-1.4.3/VFP/NAMESPACE | 24 VFP-1.4.3/VFP/R/fit.R | 1307 +++++----- VFP-1.4.3/VFP/R/methods.R | 607 ++-- VFP-1.4.3/VFP/R/plot.R | 104 VFP-1.4.3/VFP/R/utils.R | 95 VFP-1.4.3/VFP/build/vignette.rds |binary VFP-1.4.3/VFP/inst/ChangeLog.txt | 16 VFP-1.4.3/VFP/inst/UnitTests/RunAllTests.R | 17 VFP-1.4.3/VFP/inst/UnitTests/data/Ref_Plot_Parms_with_MD5sum.csv | 4 VFP-1.4.3/VFP/inst/UnitTests/data/test_plots.R |only VFP-1.4.3/VFP/inst/UnitTests/runit.plots.R | 21 VFP-1.4.3/VFP/inst/UnitTests/runit.tests_1.R | 99 VFP-1.4.3/VFP/inst/doc/VFP_package_vignette.R | 102 VFP-1.4.3/VFP/inst/doc/VFP_package_vignette.Rmd |only VFP-1.4.3/VFP/inst/doc/VFP_package_vignette.html | 599 ++-- VFP-1.4.3/VFP/man/B2mIntra_98.Rd | 3 VFP-1.4.3/VFP/man/Glucose.Rd | 3 VFP-1.4.3/VFP/man/T4S9_99.Rd | 3 VFP-1.4.3/VFP/man/VFP-Package.Rd | 7 VFP-1.4.3/VFP/man/add_grid.Rd |only VFP-1.4.3/VFP/man/as_rgb.Rd |only VFP-1.4.3/VFP/man/bt_coef.Rd |only VFP-1.4.3/VFP/man/coef.VFP.Rd | 4 VFP-1.4.3/VFP/man/condition_handler.Rd |only VFP-1.4.3/VFP/man/derive_cx.Rd |only VFP-1.4.3/VFP/man/dot-onLoad.Rd |only VFP-1.4.3/VFP/man/fit_ep17.Rd |only VFP-1.4.3/VFP/man/fit_vfp.Rd |only VFP-1.4.3/VFP/man/get_mat.Rd |only VFP-1.4.3/VFP/man/legend_rm.Rd |only VFP-1.4.3/VFP/man/plot.VFP.Rd | 28 VFP-1.4.3/VFP/man/precision_plot.Rd |only VFP-1.4.3/VFP/man/predict.VFP.Rd | 6 VFP-1.4.3/VFP/man/predict_mean.Rd |only VFP-1.4.3/VFP/man/predict_model_ep17.Rd |only VFP-1.4.3/VFP/man/print.VFP.Rd | 9 VFP-1.4.3/VFP/man/signif2.Rd |only VFP-1.4.3/VFP/man/summary.VFP.Rd | 14 VFP-1.4.3/VFP/man/t_coef.Rd |only VFP-1.4.3/VFP/vignettes/VFP_package_vignette.Rmd |only VFP-1.4.3/VFP/vignettes/figures/CLSI_EP05_Example_2-1.png |binary VFP-1.4.3/VFP/vignettes/figures/Precision_Profile-1.png |binary VFP-1.4.3/VFP/vignettes/figures/beautified_with_prediction_1-1.png |binary VFP-1.4.3/VFP/vignettes/figures/beautified_with_prediction_2-1.png |binary VFP-1.4.3/VFP/vignettes/figures/beautified_with_prediction_3-1.png |binary VFP-1.4.3/VFP/vignettes/figures/deriveCx_examples_2-1.png |binary VFP-1.4.3/VFP/vignettes/figures/deriveCx_examples_3-1.png |binary VFP-1.4.3/VFP/vignettes/figures/deriveCx_examples_4-1.png |binary VFP-1.4.3/VFP/vignettes/figures/plot_VFP_model_CV-1.png |binary VFP-1.4.3/VFP/vignettes/figures/plot_VFP_model_VC-1.png |binary 68 files changed, 1761 insertions(+), 1422 deletions(-)
Title: Simulate Time Series Diagnostics
Description: These are tools that allow users to do time series diagnostics, primarily
tests of unit root, by way of simulation. While there is nothing necessarily
wrong with the received wisdom of critical values generated decades ago,
simulation provides its own perks. Not only is simulation broadly informative
as to what these various test statistics do and what are their plausible
values, simulation provides more flexibility for assessing unit root by way
of different thresholds or different hypothesized distributions.
Author: Steven Miller [aut, cre]
Maintainer: Steven Miller <steve@svmiller.com>
Diff between sTSD versions 0.1.0 dated 2024-12-20 and 0.2.0 dated 2025-01-27
DESCRIPTION | 6 - MD5 | 37 ++++++-- NAMESPACE | 9 ++ NEWS.md | 13 ++ R/adf_lag_select.R |only R/data.R | 147 +++++++++++++++++++++++++++++++++ R/sadf_test.R |only R/sim_df_mod.R |only R/sim_ts.R |only R/skpss_test.R |only R/spp_test.R | 135 +++++++++++++++++++++--------- R/ur_summary.R | 218 +++++++++++++++++++++++++++++++++++++++++++++++++- README.md |only data/USDICE.rda |only data/exCopdab.rda |only data/lag_suggests.rda |only data/money_demand.rda |only data/tbills.rda |only man/USDICE.Rd |only man/adf_lag_select.Rd |only man/exCopdab.Rd |only man/lag_suggests.Rd |only man/money_demand.Rd |only man/sadf_test.Rd |only man/sim_df_mod.Rd |only man/sim_ts.Rd |only man/skpss_test.Rd |only man/spp_test.Rd | 55 ++++++------ man/tbills.Rd |only man/ur_summary.Rd | 10 ++ 30 files changed, 547 insertions(+), 83 deletions(-)
Title: Self-Organising Maps Coupled with Hierarchical Cluster Analysis
Description: Implements self-organising maps combined with hierarchical cluster analysis (SOM-HCA) for clustering and visualization of high-dimensional data.
The package includes functions to estimate the optimal map size based on various quality measures
and to generate a model using the selected dimensions.
It also performs hierarchical clustering on the map nodes to group similar units.
Documentation about the SOM-HCA method is provided in Pastorelli et al. (2024)
<doi:10.1002/xrs.3388>.
Author: Gianluca Pastorelli [aut, cre]
Maintainer: Gianluca Pastorelli <gianluca.pastorelli@gmail.com>
Diff between somhca versions 0.1.3 dated 2025-01-23 and 0.2.0 dated 2025-01-27
somhca-0.1.3/somhca/R/readMatrix.R |only somhca-0.1.3/somhca/man/readMatrix.Rd |only somhca-0.2.0/somhca/DESCRIPTION | 14 ++++---- somhca-0.2.0/somhca/MD5 | 24 +++++++------- somhca-0.2.0/somhca/NAMESPACE | 2 - somhca-0.2.0/somhca/R/clusterSOM.R | 52 ++++++++++++++++++++++---------- somhca-0.2.0/somhca/R/finalSOM.R | 2 - somhca-0.2.0/somhca/R/generatePlot.R | 4 +- somhca-0.2.0/somhca/R/loadMatrix.R |only somhca-0.2.0/somhca/R/optimalSOM.R | 2 - somhca-0.2.0/somhca/man/clusterSOM.Rd | 28 ++++++++++++----- somhca-0.2.0/somhca/man/finalSOM.Rd | 2 - somhca-0.2.0/somhca/man/generatePlot.Rd | 4 +- somhca-0.2.0/somhca/man/loadMatrix.Rd |only somhca-0.2.0/somhca/man/optimalSOM.Rd | 2 - 15 files changed, 86 insertions(+), 50 deletions(-)
Title: Interactively Visualize Structural Equation Modeling Diagrams
Description: It is an R package and web-based application, allowing users to perform interactive and reproducible visualizations of path diagrams for structural equation modeling (SEM) and networks using the 'ggplot2' engine. Its app (built with 'shiny') provides an interface that allows extensive customization, and creates CSV outputs, which can then be used to recreate the figures either using the web app or script-based workflow.
Author: Seung Hyun Min [aut, cre]
Maintainer: Seung Hyun Min <seung.min@mail.mcgill.ca>
Diff between ggsem versions 0.2.2 dated 2025-01-22 and 0.2.3 dated 2025-01-27
DESCRIPTION | 6 ++-- MD5 | 6 ++-- inst/shiny/app.R | 27 +++++++++++++++++---- inst/shiny/rsconnect/shinyapps.io/smin95/ggsem.dcf | 2 - 4 files changed, 29 insertions(+), 12 deletions(-)
Title: Simplify 'ggplot2' Visualisation
Description: Simplify 'ggplot2' visualisation with 'ggblanket' wrapper
functions.
Author: David Hodge [aut, cre, cph]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between ggblanket versions 12.0.0 dated 2025-01-23 and 12.1.0 dated 2025-01-27
ggblanket-12.0.0/ggblanket/R/set_blanket.R |only ggblanket-12.0.0/ggblanket/man/weave_font_defaults.Rd |only ggblanket-12.0.0/ggblanket/man/weave_reference_defaults.Rd |only ggblanket-12.1.0/ggblanket/DESCRIPTION | 6 ggblanket-12.1.0/ggblanket/MD5 | 36 ++-- ggblanket-12.1.0/ggblanket/NAMESPACE | 4 ggblanket-12.1.0/ggblanket/NEWS.md | 5 ggblanket-12.1.0/ggblanket/R/gg_label.R | 2 ggblanket-12.1.0/ggblanket/R/gg_text.R | 2 ggblanket-12.1.0/ggblanket/R/set.R |only ggblanket-12.1.0/ggblanket/R/weave.R | 78 ---------- ggblanket-12.1.0/ggblanket/inst/doc/ggblanket.R | 4 ggblanket-12.1.0/ggblanket/inst/doc/ggblanket.Rmd | 14 - ggblanket-12.1.0/ggblanket/inst/doc/ggblanket.html | 33 ++-- ggblanket-12.1.0/ggblanket/man/gg_label.Rd | 2 ggblanket-12.1.0/ggblanket/man/gg_text.Rd | 2 ggblanket-12.1.0/ggblanket/man/set_blanket.Rd | 4 ggblanket-12.1.0/ggblanket/man/set_font_defaults.Rd |only ggblanket-12.1.0/ggblanket/man/set_reference_defaults.Rd |only ggblanket-12.1.0/ggblanket/tests/testthat/test-article-demo-light.R | 4 ggblanket-12.1.0/ggblanket/tests/testthat/test-set_blanket.R | 12 - ggblanket-12.1.0/ggblanket/vignettes/ggblanket.Rmd | 14 - 22 files changed, 76 insertions(+), 146 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-02-09 1.1.1
2020-05-07 1.0.0
Title: R 'shiny' Interface for Chatting with Large Language Models
Offline on Local with 'ollama'
Description: Chat with large language models on your machine without internet with complete privacy via 'ollama', powered by R 'shiny' interface. For more information on 'ollama', visit <https://ollama.com>.
Author: Indraneel Chakraborty [aut, cre]
Maintainer: Indraneel Chakraborty <hello.indraneel@gmail.com>
Diff between shiny.ollama versions 0.1.0 dated 2025-01-16 and 0.1.1 dated 2025-01-27
DESCRIPTION | 10 +- MD5 | 28 +++-- R/api.R |only R/app.R | 217 +-------------------------------------------- R/chat_server.R |only R/chat_ui.R |only R/helpers.R |only README.md | 108 ++++++++-------------- man/create_chat_server.Rd | 30 +++--- man/create_chat_ui.Rd | 30 +++--- man/fetch_models.Rd | 28 ++--- man/format_chat_history.Rd | 2 man/format_message_md.Rd | 39 ++++---- man/parse_message.Rd | 37 +++---- man/run_app.Rd | 12 -- man/send_ollama_message.Rd | 38 +++---- tests/testthat/test-app.R | 102 +++++++-------------- 17 files changed, 212 insertions(+), 469 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-07-15 0.6.6