Title: Biodiversity Data from the GBIF Node Network
Description: The Global Biodiversity Information Facility
('GBIF', <https://www.gbif.org>) sources data from an international network
of data providers, known as 'nodes'. Several of these nodes - the "living
atlases" (<https://living-atlases.gbif.org>) - maintain their own web
services using software originally developed by the Atlas of Living
Australia ('ALA', <https://www.ala.org.au>). 'galah' enables the R community
to directly access data and resources hosted by 'GBIF' and its partner nodes.
Author: Martin Westgate [aut, cre],
Dax Kellie [aut],
Matilda Stevenson [aut],
Peggy Newman [aut]
Maintainer: Martin Westgate <martin.westgate@csiro.au>
Diff between galah versions 2.0.2 dated 2024-04-12 and 2.1.0 dated 2024-11-18
galah-2.0.2/galah/R/deprecated_functions.R |only galah-2.0.2/galah/man/arrange.Rd |only galah-2.0.2/galah/man/atlas_counts.Rd |only galah-2.0.2/galah/man/atlas_media.Rd |only galah-2.0.2/galah/man/atlas_occurrences.Rd |only galah-2.0.2/galah/man/atlas_species.Rd |only galah-2.0.2/galah/man/atlas_taxonomy.Rd |only galah-2.0.2/galah/man/collapse_galah.Rd |only galah-2.0.2/galah/man/collect_galah.Rd |only galah-2.0.2/galah/man/compute_galah.Rd |only galah-2.0.2/galah/man/deprecated-functions.Rd |only galah-2.0.2/galah/man/galah_apply_profile.Rd |only galah-2.0.2/galah/man/galah_filter.Rd |only galah-2.0.2/galah/man/galah_geolocate.Rd |only galah-2.0.2/galah/man/galah_group_by.Rd |only galah-2.0.2/galah/man/galah_identify.Rd |only galah-2.0.2/galah/man/galah_select.Rd |only galah-2.0.2/galah/man/slice_head.Rd |only galah-2.0.2/galah/tests/testthat/test-galah_down_to.R |only galah-2.0.2/galah/tests/testthat/test-international-Estonia.R |only galah-2.0.2/galah/tests/testthat/testdata/SECRETS.txt |only galah-2.0.2/galah/vignettes/atlases_plot.png |only galah-2.1.0/galah/DESCRIPTION | 18 galah-2.1.0/galah/MD5 | 244 - galah-2.1.0/galah/NAMESPACE | 4 galah-2.1.0/galah/NEWS.md | 19 galah-2.1.0/galah/R/arrange.R | 30 galah-2.1.0/galah/R/atlas_counts.R | 73 galah-2.1.0/galah/R/atlas_distributions.R | 3 galah-2.1.0/galah/R/atlas_media.R | 192 - galah-2.1.0/galah/R/atlas_occurrences.R | 86 galah-2.1.0/galah/R/atlas_species.R | 62 galah-2.1.0/galah/R/atlas_taxonomy.R | 53 galah-2.1.0/galah/R/build.R | 10 galah-2.1.0/galah/R/build_query_set.R | 2 galah-2.1.0/galah/R/check.R | 45 galah-2.1.0/galah/R/collapse.R | 6 galah-2.1.0/galah/R/collapse_media.R | 30 galah-2.1.0/galah/R/collapse_occurrences.R | 18 galah-2.1.0/galah/R/collapse_occurrences_count.R | 24 galah-2.1.0/galah/R/collapse_species.R | 1 galah-2.1.0/galah/R/collapse_species_count.R | 19 galah-2.1.0/galah/R/collect.R | 10 galah-2.1.0/galah/R/collect_media.R | 27 galah-2.1.0/galah/R/collect_occurrences.R | 5 galah-2.1.0/galah/R/collect_taxa.R | 18 galah-2.1.0/galah/R/compute.R | 8 galah-2.1.0/galah/R/compute_occurrences.R | 8 galah-2.1.0/galah/R/count-data_request.R |only galah-2.1.0/galah/R/galah-package.R | 67 galah-2.1.0/galah/R/galah_apply_profile.R | 42 galah-2.1.0/galah/R/galah_bbox.R | 4 galah-2.1.0/galah/R/galah_call.R | 156 - galah-2.1.0/galah/R/galah_config.R | 78 galah-2.1.0/galah/R/galah_filter.R | 204 - galah-2.1.0/galah/R/galah_geolocate.R | 87 galah-2.1.0/galah/R/galah_group_by.R | 34 galah-2.1.0/galah/R/galah_identify.R | 76 galah-2.1.0/galah/R/galah_polygon.R | 11 galah-2.1.0/galah/R/galah_radius.R | 4 galah-2.1.0/galah/R/galah_select.R | 197 - galah-2.1.0/galah/R/parse_metadata_unnest.R | 8 galah-2.1.0/galah/R/print.R | 5 galah-2.1.0/galah/R/search_all.R | 24 galah-2.1.0/galah/R/show_all.R | 3 galah-2.1.0/galah/R/show_values.R | 3 galah-2.1.0/galah/R/slice_head.R | 28 galah-2.1.0/galah/R/sysdata.rda |binary galah-2.1.0/galah/R/taxonomic-searches.R |only galah-2.1.0/galah/R/tidyverse.R | 2 galah-2.1.0/galah/R/utilities_internal.R | 155 - galah-2.1.0/galah/build/vignette.rds |binary galah-2.1.0/galah/inst/doc/choosing_an_atlas.Rmd | 10 galah-2.1.0/galah/inst/doc/choosing_an_atlas.html | 577 --- galah-2.1.0/galah/inst/doc/download_data.Rmd | 146 galah-2.1.0/galah/inst/doc/download_data.html | 124 galah-2.1.0/galah/inst/doc/look_up_information.Rmd | 92 galah-2.1.0/galah/inst/doc/look_up_information.html | 76 galah-2.1.0/galah/inst/doc/narrow_your_results.Rmd | 277 - galah-2.1.0/galah/inst/doc/narrow_your_results.html | 250 - galah-2.1.0/galah/inst/doc/object_oriented_programming.Rmd | 87 galah-2.1.0/galah/inst/doc/object_oriented_programming.html | 74 galah-2.1.0/galah/inst/doc/quick_start_guide.Rmd | 90 galah-2.1.0/galah/inst/doc/quick_start_guide.html | 70 galah-2.1.0/galah/inst/doc/spatial_filtering.Rmd | 539 +-- galah-2.1.0/galah/inst/doc/spatial_filtering.html | 623 ++-- galah-2.1.0/galah/inst/doc/taxonomic_filtering.Rmd | 1446 +++++---- galah-2.1.0/galah/inst/doc/taxonomic_filtering.html | 1511 +++++----- galah-2.1.0/galah/inst/doc/temporal_filtering.Rmd | 57 galah-2.1.0/galah/inst/doc/temporal_filtering.html | 52 galah-2.1.0/galah/man/apply_profile.Rd |only galah-2.1.0/galah/man/arrange.data_request.Rd |only galah-2.1.0/galah/man/atlas_.Rd |only galah-2.1.0/galah/man/collapse.data_request.Rd |only galah-2.1.0/galah/man/collect.data_request.Rd |only galah-2.1.0/galah/man/collect_media.Rd | 24 galah-2.1.0/galah/man/compute.data_request.Rd |only galah-2.1.0/galah/man/count.data_request.Rd |only galah-2.1.0/galah/man/figures/atlases_plot.png |binary galah-2.1.0/galah/man/filter.data_request.Rd |only galah-2.1.0/galah/man/galah.Rd | 75 galah-2.1.0/galah/man/galah_call.Rd | 103 galah-2.1.0/galah/man/geolocate.Rd |only galah-2.1.0/galah/man/group_by.data_request.Rd |only galah-2.1.0/galah/man/identify.data_request.Rd |only galah-2.1.0/galah/man/print_galah_objects.Rd | 2 galah-2.1.0/galah/man/search_all.Rd | 21 galah-2.1.0/galah/man/select.data_request.Rd |only galah-2.1.0/galah/man/show_all.Rd | 3 galah-2.1.0/galah/man/show_values.Rd | 3 galah-2.1.0/galah/man/slice_head.data_request.Rd |only galah-2.1.0/galah/man/taxonomic_searches.Rd |only galah-2.1.0/galah/man/tidyverse_functions.Rd | 2 galah-2.1.0/galah/tests/testthat/test-atlas_counts.R | 11 galah-2.1.0/galah/tests/testthat/test-atlas_media.R | 29 galah-2.1.0/galah/tests/testthat/test-atlas_occurrences.R | 5 galah-2.1.0/galah/tests/testthat/test-galah_apply_profile.R | 2 galah-2.1.0/galah/tests/testthat/test-galah_config.R | 10 galah-2.1.0/galah/tests/testthat/test-galah_filter.R | 26 galah-2.1.0/galah/tests/testthat/test-galah_select.R | 12 galah-2.1.0/galah/tests/testthat/test-international-Austria.R | 92 galah-2.1.0/galah/tests/testthat/test-international-Brazil.R | 53 galah-2.1.0/galah/tests/testthat/test-international-France.R | 37 galah-2.1.0/galah/tests/testthat/test-international-GBIF.R | 10 galah-2.1.0/galah/tests/testthat/test-international-Guatemala.R | 54 galah-2.1.0/galah/tests/testthat/test-international-Portugal.R | 4 galah-2.1.0/galah/tests/testthat/test-international-Spain.R | 80 galah-2.1.0/galah/tests/testthat/test-international-Sweden.R | 118 galah-2.1.0/galah/tests/testthat/test-international-UK.R | 37 galah-2.1.0/galah/tests/testthat/test-search_taxa.R | 11 galah-2.1.0/galah/tests/testthat/test-show_values.R | 20 galah-2.1.0/galah/vignettes/atlas_stats.csv | 21 galah-2.1.0/galah/vignettes/atlases_plot.R | 21 galah-2.1.0/galah/vignettes/choosing_an_atlas.Rmd | 10 galah-2.1.0/galah/vignettes/download_data.Rmd | 146 galah-2.1.0/galah/vignettes/look_up_information.Rmd | 92 galah-2.1.0/galah/vignettes/narrow_your_results.Rmd | 277 - galah-2.1.0/galah/vignettes/object_oriented_programming.Rmd | 87 galah-2.1.0/galah/vignettes/quick_start_guide.Rmd | 90 galah-2.1.0/galah/vignettes/spatial_filtering.Rmd | 539 +-- galah-2.1.0/galah/vignettes/taxonomic_filtering.Rmd | 1446 +++++---- galah-2.1.0/galah/vignettes/temporal_filtering.Rmd | 57 142 files changed, 6068 insertions(+), 5866 deletions(-)
Title: Spatiotemporal Clustering of Satellite Hot Spot Data
Description: An algorithm to cluster satellite hot spot data spatially and temporally.
Author: Weihao Li [aut, cre] ,
Di Cook [ctb] ,
Emily Dodwell [ctb]
Maintainer: Weihao Li <llreczx@gmail.com>
Diff between spotoroo versions 0.1.4 dated 2023-08-21 and 0.1.5 dated 2024-11-18
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/plot_fire_mov.R | 4 ++-- inst/doc/Clustering-hot-spots.R | 2 +- inst/doc/Clustering-hot-spots.html | 19 ++++++++++--------- man/figures/README-unnamed-chunk-8-1.png |binary 7 files changed, 29 insertions(+), 24 deletions(-)
Title: Wrapper Functions Around 'Sleeper' (Fantasy Sports) API
Description: For those wishing to interact with the 'Sleeper' (Fantasy Sports) API (<https://docs.sleeper.com/>) without looking too much into its documentation (found at <https://docs.sleeper.com/>), this package offers wrapper functions around the available API calls to make it easier.
Author: Nick Bultman [aut, cre, cph]
Maintainer: Nick Bultman <njbultman74@gmail.com>
Diff between sleeperapi versions 1.1.1 dated 2024-06-01 and 1.1.2 dated 2024-11-18
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/get_main_data.R | 35 +++++++++++++++++++++-------------- 3 files changed, 26 insertions(+), 19 deletions(-)
Title: A Tool for 'Covariate'-Sensitive Longitudinal Analysis on
'omics' Data
Description: This tool takes longitudinal dataset as input and analyzes if there is significant
change of the features over time (a proxy for treatments), while detects and controls
for 'covariates' simultaneously. 'LongDat' is able to take in several data types as input,
including count, proportion, binary, ordinal and continuous data. The output table contains
p values, effect sizes and 'covariates' of each feature, making the downstream analysis easy.
Author: Chia-Yu Chen [aut, cre] ,
Sofia Forslund [ctb]
Maintainer: Chia-Yu Chen <Chia-Yu.Chen@mdc-berlin.de>
Diff between LongDat versions 1.1.2 dated 2023-07-17 and 1.1.3 dated 2024-11-18
DESCRIPTION | 6 MD5 | 12 - NEWS.md | 3 R/make_master_table.R | 7 README.md | 3 inst/doc/LongDat_cont_tutorial.html | 285 +++++++++++++++++----------------- inst/doc/LongDat_disc_tutorial.html | 297 +++++++++++++++++------------------- 7 files changed, 307 insertions(+), 306 deletions(-)
Title: Bayesian Change Point Detection for High-Dimensional Data
Description: Functions implementing change point detection methods using the maximum pairwise Bayes factor approach.
Additionally, the package includes tools for generating simulated datasets for comparing and evaluating change point detection techniques.
Author: JaeHoon Kim [aut, cre],
KyoungJae Lee [aut, ths]
Maintainer: JaeHoon Kim <jhkimstat@gmail.com>
Diff between hdbcp versions 0.1.0 dated 2024-11-05 and 1.0.0 dated 2024-11-18
DESCRIPTION | 6 MD5 | 24 +- R/RcppExports.R | 16 + R/aux_utils.R | 26 +++ R/combined_mxPBF.R | 32 +-- R/cov_mxPBF.R | 39 ++-- R/majority_rule.R | 88 ++++------ README.md | 23 +- man/majority_rule_mxPBF.Rd | 10 - man/mxPBF_combined.Rd | 21 +- man/mxPBF_cov.Rd | 27 +-- src/RcppExports.cpp | 65 +++++-- src/cpp_cov_mxPBF.cpp | 377 +++++++++++++++++++++++---------------------- 13 files changed, 390 insertions(+), 364 deletions(-)
Title: Transform Microplate Data into Tibbles
Description: The goal of 'tidyplate' is to help researchers convert
different types of microplates into tibbles which can be used in data
analysis. It accepts xlsx and csv files formatted in a specific way as
input. It supports all types of standard microplate formats such as
6-well, 12-well, 24-well, 48-well, 96-well, 384-well, and, 1536-well
plates.
Author: Shubham Dutta [aut, cre, cph]
Maintainer: Shubham Dutta <shubhamdutta26@gmail.com>
Diff between tidyplate versions 2.0.1 dated 2024-10-08 and 2.1.0 dated 2024-11-18
tidyplate-2.0.1/tidyplate/man/figures/tidyplate_hex_trans.png |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/12/build_plate |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/1536/build_plate |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/24/build_plate |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/384/build_plate |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/48/build_plate |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/6/build_plate |only tidyplate-2.0.1/tidyplate/tests/testthat/test_data/96/build_plate |only tidyplate-2.1.0/tidyplate/DESCRIPTION | 36 + tidyplate-2.1.0/tidyplate/MD5 | 105 ++--- tidyplate-2.1.0/tidyplate/NAMESPACE | 1 tidyplate-2.1.0/tidyplate/NEWS.md | 52 ++ tidyplate-2.1.0/tidyplate/R/build_plate.R | 103 +++-- tidyplate-2.1.0/tidyplate/R/check_plate.R | 20 - tidyplate-2.1.0/tidyplate/R/generate_plate.R |only tidyplate-2.1.0/tidyplate/R/tidy_plate.R | 40 +- tidyplate-2.1.0/tidyplate/R/tidyplate-package.R |only tidyplate-2.1.0/tidyplate/R/utils.R | 113 ++++-- tidyplate-2.1.0/tidyplate/R/view_plate_names.R | 112 +++++- tidyplate-2.1.0/tidyplate/README.md | 118 ++---- tidyplate-2.1.0/tidyplate/build/vignette.rds |binary tidyplate-2.1.0/tidyplate/inst/WORDLIST |only tidyplate-2.1.0/tidyplate/inst/doc/advanced.R |only tidyplate-2.1.0/tidyplate/inst/doc/advanced.Rmd |only tidyplate-2.1.0/tidyplate/inst/doc/advanced.html |only tidyplate-2.1.0/tidyplate/inst/doc/getting_started.R | 64 --- tidyplate-2.1.0/tidyplate/inst/doc/getting_started.Rmd | 125 +----- tidyplate-2.1.0/tidyplate/inst/doc/getting_started.html | 183 ++-------- tidyplate-2.1.0/tidyplate/inst/extdata/tidy_12_well.csv |only tidyplate-2.1.0/tidyplate/man/build_plate.Rd | 26 - tidyplate-2.1.0/tidyplate/man/check_plate.Rd | 8 tidyplate-2.1.0/tidyplate/man/figures/README_tidy_plate.png |binary tidyplate-2.1.0/tidyplate/man/figures/logo.png |binary tidyplate-2.1.0/tidyplate/man/figures/logo_file.png |only tidyplate-2.1.0/tidyplate/man/generate_plate.Rd |only tidyplate-2.1.0/tidyplate/man/tidy_plate.Rd | 7 tidyplate-2.1.0/tidyplate/man/tidyplate-package.Rd | 16 tidyplate-2.1.0/tidyplate/man/view_plate_names.Rd | 4 tidyplate-2.1.0/tidyplate/tests/spelling.R |only tidyplate-2.1.0/tidyplate/tests/testthat/test-build_plate.R | 138 ++++--- tidyplate-2.1.0/tidyplate/tests/testthat/test-check_plate.R | 100 ++--- tidyplate-2.1.0/tidyplate/tests/testthat/test-generate_plate.R |only tidyplate-2.1.0/tidyplate/tests/testthat/test-tidy_plate.R | 86 ++-- tidyplate-2.1.0/tidyplate/tests/testthat/test-utils.R | 6 tidyplate-2.1.0/tidyplate/tests/testthat/test-view_plate_names.R | 77 +++- tidyplate-2.1.0/tidyplate/tests/testthat/test_data/48/noName.csv | 2 tidyplate-2.1.0/tidyplate/tests/testthat/test_data/48/noName.xlsx |binary tidyplate-2.1.0/tidyplate/tests/testthat/test_data/6/noName.xlsx |binary tidyplate-2.1.0/tidyplate/tests/testthat/test_data/extraRow.csv |only tidyplate-2.1.0/tidyplate/tests/testthat/test_data/extraRow.xlsx |only tidyplate-2.1.0/tidyplate/tests/testthat/test_data/noNameDup.csv |only tidyplate-2.1.0/tidyplate/tests/testthat/test_data/noNameDup.xlsx |only tidyplate-2.1.0/tidyplate/tests/testthat/test_data/oneFullOnePartEmpty.csv | 26 + tidyplate-2.1.0/tidyplate/vignettes/advanced.Rmd |only tidyplate-2.1.0/tidyplate/vignettes/getting_started.Rmd | 125 +----- 55 files changed, 865 insertions(+), 828 deletions(-)
Title: Cs-137 Conversion Model
Description: A straightforward model to estimate soil migration rates across various soil contexts.
Based on the compartmental, vertically-resolved, physically-based mass balance model of Soto and Navas (2004)
<doi:10.1016/j.jaridenv.2004.02.003> and Soto and Navas (2008) <doi:10.1016/j.radmeas.2008.02.024>.
'RadEro' provides a user-friendly interface in R, utilizing input data such as 137Cs inventories and parameters directly derived
from soil samples (e.g., fine fraction density, effective volume) to accurately capture the 137Cs distribution within the soil profile.
The model simulates annual 137Cs fallout, radioactive decay, and vertical diffusion, with the diffusion coefficient calculated
from 137Cs reference inventory profiles. Additionally, it allows users to input custom parameters as calibration coefficients.
The RadEro user manual and protocol, including detailed instructions on how to format input data and configuration files, can be found at the following link: <https://gi [...truncated...]
Author: Arturo Catala [aut, cre],
Borja Latorre [aut, ctb, cph],
Leticia Gaspar [aut],
Ana Navas [aut],
Dave Gamble [ctb]
Maintainer: Arturo Catala <radero@eead.csic.es>
Diff between RadEro versions 1.0.4 dated 2024-11-11 and 1.0.5 dated 2024-11-18
DESCRIPTION | 16 ++++++++-------- MD5 | 10 +++++----- R/RcppExports.R | 4 ---- src/RcppExports.cpp | 11 ----------- src/model.c | 9 --------- src/rcpp_hello_world.cpp | 6 +++--- 6 files changed, 16 insertions(+), 40 deletions(-)
Title: Distribution-Free Goodness-of-Fit Testing for Regression
Description: Implements distribution-free goodness-of-fit regression testing for
the mean structure of parametric models introduced in Khmaladze (2021)
<doi:10.1007/s10463-021-00786-3>.
Author: Jesse Miller [aut, cre]
Maintainer: Jesse Miller <mill9116@umn.edu>
Diff between distfreereg versions 1.0 dated 2024-11-11 and 1.0.1 dated 2024-11-18
distfreereg-1.0.1/distfreereg/DESCRIPTION | 8 distfreereg-1.0.1/distfreereg/MD5 | 403 +-- distfreereg-1.0.1/distfreereg/NEWS.md |only distfreereg-1.0.1/distfreereg/R/calc_mu.R | 9 distfreereg-1.0.1/distfreereg/R/compare.R | 4 distfreereg-1.0.1/distfreereg/R/confband.R | 4 distfreereg-1.0.1/distfreereg/R/confband_radii.R | 5 distfreereg-1.0.1/distfreereg/R/create_confband.R | 2 distfreereg-1.0.1/distfreereg/R/default_distfreereg_tol.R | 3 distfreereg-1.0.1/distfreereg/R/distfreereg.default.R | 11 distfreereg-1.0.1/distfreereg/R/distfreereg.function.R | 12 distfreereg-1.0.1/distfreereg/R/distfreereg.nls.R | 1 distfreereg-1.0.1/distfreereg/R/fill_covariance_list.R | 8 distfreereg-1.0.1/distfreereg/R/matsqrt.R | 6 distfreereg-1.0.1/distfreereg/R/validate_args_compare.R | 11 distfreereg-1.0.1/distfreereg/R/validate_args_distfreereg_default.R | 13 distfreereg-1.0.1/distfreereg/R/validate_args_distfreereg_formula.R | 1 distfreereg-1.0.1/distfreereg/R/validate_args_distfreereg_function.R | 9 distfreereg-1.0.1/distfreereg/R/validate_args_distfreereg_nls.R | 6 distfreereg-1.0.1/distfreereg/R/validate_control_tols.R | 1 distfreereg-1.0.1/distfreereg/build/partial.rdb |binary distfreereg-1.0.1/distfreereg/build/vignette.rds |binary distfreereg-1.0.1/distfreereg/inst/doc/v1_introduction.rmd | 7 distfreereg-1.0.1/distfreereg/inst/doc/v2_compare.html | 4 distfreereg-1.0.1/distfreereg/inst/doc/v2_compare.rmd | 8 distfreereg-1.0.1/distfreereg/inst/doc/v3_plotting.html | 6 distfreereg-1.0.1/distfreereg/inst/doc/v3_plotting.rmd | 10 distfreereg-1.0.1/distfreereg/inst/doc/v4_parameter-estimation.html | 2 distfreereg-1.0.1/distfreereg/inst/doc/v4_parameter-estimation.rmd | 10 distfreereg-1.0.1/distfreereg/inst/doc/v5_advanced-options.html | 19 distfreereg-1.0.1/distfreereg/inst/doc/v5_advanced-options.rmd | 24 distfreereg-1.0.1/distfreereg/man/distfreereg.Rd | 1 distfreereg-1.0.1/distfreereg/tests/0_aggregator_matrix.R | 2 distfreereg-1.0.1/distfreereg/tests/0_aggregator_matrix.Rout.save | 8 distfreereg-1.0.1/distfreereg/tests/0_combine_dfr_arg_lists_test.R | 2 distfreereg-1.0.1/distfreereg/tests/0_combine_dfr_arg_lists_test.Rout.save | 8 distfreereg-1.0.1/distfreereg/tests/0_combine_lists_test.R | 2 distfreereg-1.0.1/distfreereg/tests/0_combine_lists_test.Rout.save | 8 distfreereg-1.0.1/distfreereg/tests/0_fill_covariance_list_test_01_matrix.R | 330 +-- distfreereg-1.0.1/distfreereg/tests/0_fill_covariance_list_test_01_matrix.Rout.save | 658 +++--- distfreereg-1.0.1/distfreereg/tests/0_fill_covariance_list_test_02_number.R | 330 +-- distfreereg-1.0.1/distfreereg/tests/0_fill_covariance_list_test_02_number.Rout.save | 658 +++--- distfreereg-1.0.1/distfreereg/tests/0_fill_covariance_list_test_03_vector.R | 330 +-- distfreereg-1.0.1/distfreereg/tests/0_fill_covariance_list_test_03_vector.Rout.save | 658 +++--- distfreereg-1.0.1/distfreereg/tests/0_is_named_list_test.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/0_matrix_functions_test.R | 4 distfreereg-1.0.1/distfreereg/tests/0_matrix_functions_test.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/0_scale_to_01_test.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/0_upstar_test.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_01_basic.R | 58 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_01_basic.Rout.save | 210 - distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_02_X_NULL.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_03_override_default.R | 96 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_03_override_default.Rout.save | 192 - distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_04_override_formula.R | 244 +- distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_04_override_formula.Rout.save | 450 ++-- distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_05_override_function.R | 144 - distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_05_override_function.Rout.save | 286 +- distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_06_override_lm.R | 108 - distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_06_override_lm.Rout.save | 216 +- distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_07_override_errors.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_08_external_f.R | 2 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_08_external_f.Rout.save | 8 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_09_ordering.R | 52 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_09_ordering.Rout.save | 108 - distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_10_ordering_errors.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_11_test_f_errors.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_12_update_function.R | 48 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_12_update_function.Rout.save | 100 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_13_predict.R | 8 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_13_predict.Rout.save | 20 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_14_B.R | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_14_B.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_15_plot.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_16_stat_function_errors.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_17_covariance.R | 10 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_17_covariance.Rout.save | 24 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_18_optimization.R | 3 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_18_optimization.Rout.save | 33 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_19_symmetric.R | 2 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_19_symmetric.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_20_formula_method.R | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_20_formula_method.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_21_update_default.R | 32 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_21_update_default.Rout.save | 70 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_22_extra_argument_detection.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_23_lm_method.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_24_update_formula.R | 16 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_24_update_formula.Rout.save | 36 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_25_update_lm.R | 10 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_25_update_lm.Rout.save | 24 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_26_update_default.R | 32 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_26_update_default.Rout.save | 68 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_27_update_formula.R | 18 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_27_update_formula.Rout.save | 40 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_28_update_function.R | 34 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_28_update_function.Rout.save | 72 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_29_update_lm.R | 14 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_29_update_lm.Rout.save | 28 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_30_group.R | 18 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_30_group.Rout.save | 731 ------ distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_31_formula_nls.R | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_31_formula_nls.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_32_coef_method.R | 12 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_32_coef_method.Rout.save | 28 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_33_formula_method.R | 8 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_33_formula_method.Rout.save | 20 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_34_formula_response_single_term.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_35_nls_diagonal_covariance.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_36_covariance_matrix_num_vec_comparison.R | 26 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_36_covariance_matrix_num_vec_comparison.Rout.save | 62 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_37_covariance_forms.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_38_vcov.R | 19 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_38_vcov.Rout.save | 57 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_39_confint.R | 20 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_39_confint.Rout.save | 74 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_40_uppercase_X.R | 4 distfreereg-1.0.1/distfreereg/tests/1_distfreereg_test_40_uppercase_X.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_a_basic_tests_func_func.R | 25 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_a_basic_tests_func_func.Rout.save | 175 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_b_basic_tests_func_formlm.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_b_basic_tests_func_formlm.Rout.save | 150 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_c_basic_tests_func_formnls.R | 25 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_c_basic_tests_func_formnls.Rout.save | 155 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_d_basic_tests_func_lm.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_d_basic_tests_func_lm.Rout.save | 152 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_e_basic_tests_func_nls.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_a_e_basic_tests_func_nls.Rout.save | 153 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_a_basic_tests_formlm_func.R | 27 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_a_basic_tests_formlm_func.Rout.save | 176 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_b_basic_tests_formlm_formlm.R | 25 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_b_basic_tests_formlm_formlm.Rout.save | 153 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_c_basic_tests_formlm_formnls.R | 29 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_c_basic_tests_formlm_formnls.Rout.save | 160 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_d_basic_tests_formlm_lm.R | 23 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_d_basic_tests_formlm_lm.Rout.save | 152 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_e_basic_tests_formlm_nls.R | 23 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_b_e_basic_tests_formlm_nls.Rout.save | 154 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_a_basic_tests_formnls_func.R | 28 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_a_basic_tests_formnls_func.Rout.save | 176 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_b_basic_tests_formnls_formlm.R | 25 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_b_basic_tests_formnls_formlm.Rout.save | 153 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_c_basic_tests_formnls_formnls.R | 29 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_c_basic_tests_formnls_formnls.Rout.save | 160 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_d_basic_tests_formnls_lm.R | 23 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_d_basic_tests_formnls_lm.Rout.save | 153 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_e_basic_tests_formnls_nls.R | 23 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_c_e_basic_tests_formnls_nls.Rout.save | 154 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_a_basic_tests_lm_func.R | 25 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_a_basic_tests_lm_func.Rout.save | 176 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_b_basic_tests_lm_formlm.R | 23 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_b_basic_tests_lm_formlm.Rout.save | 152 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_c_basic_tests_lm_formnls.R | 27 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_c_basic_tests_lm_formnls.Rout.save | 160 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_d_basic_tests_lm_lm.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_d_basic_tests_lm_lm.Rout.save | 152 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_e_basic_tests_lm_nls.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_d_e_basic_tests_lm_nls.Rout.save | 154 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_a_basic_tests_nls_func.R | 25 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_a_basic_tests_nls_func.Rout.save | 177 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_b_basic_tests_nls_formlm.R | 23 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_b_basic_tests_nls_formlm.Rout.save | 153 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_c_basic_tests_nls_formnls.R | 27 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_c_basic_tests_nls_formnls.Rout.save | 161 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_d_basic_tests_nls_lm.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_d_basic_tests_nls_lm.Rout.save | 153 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_e_basic_tests_nls_nls.R | 21 distfreereg-1.0.1/distfreereg/tests/2_compare_test_01_e_e_basic_tests_nls_nls.Rout.save | 155 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_02_func_H0_tests.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_03_plot.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_04_ks_test.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_05_rejection.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_06_update.R | 22 distfreereg-1.0.1/distfreereg/tests/2_compare_test_06_update.Rout.save | 1058 ---------- distfreereg-1.0.1/distfreereg/tests/2_compare_test_07_testf_no_X.Rout.save | 6 distfreereg-1.0.1/distfreereg/tests/2_compare_test_08_truef_no_X.R | 11 distfreereg-1.0.1/distfreereg/tests/2_compare_test_08_truef_no_X.Rout.save | 174 - distfreereg-1.0.1/distfreereg/tests/2_compare_test_09_no_X.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_10_covariances.R | 34 distfreereg-1.0.1/distfreereg/tests/2_compare_test_10_covariances.Rout.save | 66 distfreereg-1.0.1/distfreereg/tests/2_compare_test_11_symmetric.R | 2 distfreereg-1.0.1/distfreereg/tests/2_compare_test_11_symmetric.Rout.save | 8 distfreereg-1.0.1/distfreereg/tests/2_compare_test_12_keep.R | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_12_keep.Rout.save | 12 distfreereg-1.0.1/distfreereg/tests/2_compare_test_13_manual.R | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_13_manual.Rout.save | 43 distfreereg-1.0.1/distfreereg/tests/2_compare_test_14_err_dist.R | 6 distfreereg-1.0.1/distfreereg/tests/2_compare_test_14_err_dist.Rout.save | 46 distfreereg-1.0.1/distfreereg/tests/2_compare_test_15_test_mean_formula_lm.R | 6 distfreereg-1.0.1/distfreereg/tests/2_compare_test_15_test_mean_formula_lm.Rout.save | 18 distfreereg-1.0.1/distfreereg/tests/2_compare_test_16_true_mean_formula_lm.R | 12 distfreereg-1.0.1/distfreereg/tests/2_compare_test_16_true_mean_formula_lm.Rout.save | 28 distfreereg-1.0.1/distfreereg/tests/2_compare_test_17_data_lengths.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_18_global_override.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/2_compare_test_99_odd_situation.Rout.save | 4 distfreereg-1.0.1/distfreereg/tests/change_messages.pl |only distfreereg-1.0.1/distfreereg/vignettes/v1_introduction.rmd | 7 distfreereg-1.0.1/distfreereg/vignettes/v2_compare.rmd | 8 distfreereg-1.0.1/distfreereg/vignettes/v3_plotting.rmd | 10 distfreereg-1.0.1/distfreereg/vignettes/v4_parameter-estimation.rmd | 10 distfreereg-1.0.1/distfreereg/vignettes/v5_advanced-options.rmd | 24 distfreereg-1.0/distfreereg/inst/doc/v1_introduction.R |only distfreereg-1.0/distfreereg/inst/doc/v2_compare.R |only distfreereg-1.0/distfreereg/inst/doc/v3_plotting.R |only distfreereg-1.0/distfreereg/inst/doc/v4_parameter-estimation.R |only distfreereg-1.0/distfreereg/inst/doc/v5_advanced-options.R |only 206 files changed, 4707 insertions(+), 9256 deletions(-)
Title: The COR for Optimal Subset Selection in Distributed Estimation
Description: An algorithm of optimal subset selection, related to Covariance matrices,
Observation matrices and Response vectors (COR) to select the optimal subsets
in distributed estimation. The philosophy of the package is described in Guo G. (2020) <doi:10.1080/02331888.2020.1823979>.
Author: Guangbao Guo [aut, cre] ,
Haoyue Song [aut],
Lixing Zhu [aut]
Maintainer: Guangbao Guo <ggb11111111@163.com>
Diff between COR versions 0.0.1 dated 2021-12-06 and 0.1.0 dated 2024-11-18
DESCRIPTION | 10 ++++---- MD5 | 32 ++++++++++++++++--------- NAMESPACE | 22 +++++++++++------ R/COR.R | 32 +++++++++++++------------ R/LICbeta.R |only R/LICnew.R |only R/MSEbeta.R |only R/MSEcom.R | 41 ++++++++++++++++++--------------- R/MSEver.R | 41 +++++++++++++++++---------------- R/beta_AD.R | 18 +++++++------- R/beta_LW.R |only R/beta_cor.R | 19 +++++++-------- man/COR.Rd | 67 ++++++++++++++++++++++++++++-------------------------- man/LICbeta.Rd |only man/LICnew.Rd |only man/MSEbeta.Rd |only man/MSEcom.Rd | 69 ++++++++++++++++++++++++++++++-------------------------- man/MSEver.Rd | 68 +++++++++++++++++++++++++++++-------------------------- man/beta_AD.Rd | 66 +++++++++++++++++++++++++++-------------------------- man/beta_LW.Rd |only man/beta_cor.Rd | 65 ++++++++++++++++++++++++++-------------------------- 21 files changed, 294 insertions(+), 256 deletions(-)
Title: Visualization of Clonal Expansion for Single Cell Immune
Profiles
Description: Visualize clonal expansion via circle-packing. 'APackOfTheClones' extends 'scRepertoire' to produce a publication-ready visualization of clonal expansion at a single cell resolution, by representing expanded clones as differently sized circles. The method was originally implemented by Murray Christian and Ben Murrell in the following immunology study: Ma et al. (2021) <doi:10.1126/sciimmunol.abg6356>.
Author: Qile Yang [cre, aut, cph]
Maintainer: Qile Yang <qile.yang@berkeley.edu>
Diff between APackOfTheClones versions 1.2.1 dated 2024-10-10 and 1.2.4 dated 2024-11-18
DESCRIPTION | 12 +++++++----- MD5 | 4 ++-- inst/CITATION | 19 ++++++++++--------- 3 files changed, 19 insertions(+), 16 deletions(-)
More information about APackOfTheClones at CRAN
Permanent link
Title: Discontinuous Regression and Image Processing
Description: A collection of functions that perform jump regression
and image analysis such as denoising, deblurring and
jump detection. The implemented methods are based on
the following research: Qiu, P. (1998) <doi:10.1214/aos/1024691468>,
Qiu, P. and Yandell, B. (1997) <doi: 10.1080/10618600.1997.10474746>,
Qiu, P. (2009) <doi: 10.1007/s10463-007-0166-9>,
Kang, Y. and Qiu, P. (2014) <doi: 10.1080/00401706.2013.844732>,
Qiu, P. and Kang, Y. (2015) <doi: 10.5705/ss.2014.054>,
Kang, Y., Mukherjee, P.S. and Qiu, P. (2018) <doi: 10.1080/00401706.2017.1415975>,
Kang, Y. (2020) <doi: 10.1080/10618600.2019.1665536>.
Author: Yicheng Kang [aut, cre],
Peihua Qiu [aut, ctb]
Maintainer: Yicheng Kang <kangyicheng0527@gmail.com>
Diff between DRIP versions 2.0 dated 2024-05-12 and 2.2 dated 2024-11-18
DRIP-2.0/DRIP/R/JPLLK_surface.r |only DRIP-2.0/DRIP/R/dKQ.r |only DRIP-2.0/DRIP/R/diffLC2K.r |only DRIP-2.0/DRIP/R/diffLCK.r |only DRIP-2.0/DRIP/R/diffLL2K.r |only DRIP-2.0/DRIP/R/diffLLK.r |only DRIP-2.0/DRIP/R/modify1.r |only DRIP-2.0/DRIP/R/modify2.r |only DRIP-2.0/DRIP/R/roofDiff.r |only DRIP-2.0/DRIP/R/roofEdge.r |only DRIP-2.0/DRIP/R/roofEdgeParSel.r |only DRIP-2.0/DRIP/R/stepEdgeLC2K.r |only DRIP-2.0/DRIP/R/stepEdgeLCK.r |only DRIP-2.0/DRIP/R/stepEdgeLL2K.r |only DRIP-2.0/DRIP/R/stepEdgeLLK.r |only DRIP-2.0/DRIP/R/stepEdgeParSelLC2K.r |only DRIP-2.0/DRIP/R/stepEdgeParSelLCK.r |only DRIP-2.0/DRIP/R/stepEdgeParSelLL2K.r |only DRIP-2.0/DRIP/R/stepEdgeParSelLLK.r |only DRIP-2.0/DRIP/R/surfaceCluster.r |only DRIP-2.0/DRIP/R/surfaceCluster_bandwidth.r |only DRIP-2.0/DRIP/R/threeStage.r |only DRIP-2.0/DRIP/R/threeStageParSel.r |only DRIP-2.0/DRIP/src/cluster_deblur.f90 |only DRIP-2.0/DRIP/src/cluster_denoise.f90 |only DRIP-2.2/DRIP/DESCRIPTION | 17 +- DRIP-2.2/DRIP/MD5 | 163 ++++++++++++++++---------- DRIP-2.2/DRIP/NAMESPACE | 17 ++ DRIP-2.2/DRIP/R/JPLLK_surface.R |only DRIP-2.2/DRIP/R/cv.jpex.R | 64 +++++++++- DRIP-2.2/DRIP/R/dKQ.R |only DRIP-2.2/DRIP/R/diffLC2K.R |only DRIP-2.2/DRIP/R/diffLCK.R |only DRIP-2.2/DRIP/R/diffLL2K.R |only DRIP-2.2/DRIP/R/diffLLK.R |only DRIP-2.2/DRIP/R/jpex.R | 12 - DRIP-2.2/DRIP/R/modify1.R |only DRIP-2.2/DRIP/R/modify2.R |only DRIP-2.2/DRIP/R/roofDiff.R |only DRIP-2.2/DRIP/R/roofEdge.R |only DRIP-2.2/DRIP/R/roofEdgeParSel.R |only DRIP-2.2/DRIP/R/stepEdgeLC2K.R |only DRIP-2.2/DRIP/R/stepEdgeLCK.R |only DRIP-2.2/DRIP/R/stepEdgeLL2K.R |only DRIP-2.2/DRIP/R/stepEdgeLLK.R |only DRIP-2.2/DRIP/R/stepEdgeParSel.R | 56 +++++++- DRIP-2.2/DRIP/R/stepEdgeParSelLC2K.R |only DRIP-2.2/DRIP/R/stepEdgeParSelLCK.R |only DRIP-2.2/DRIP/R/stepEdgeParSelLL2K.R |only DRIP-2.2/DRIP/R/stepEdgeParSelLLK.R |only DRIP-2.2/DRIP/R/surfaceCluster.R |only DRIP-2.2/DRIP/R/surfaceCluster_bandwidth.R |only DRIP-2.2/DRIP/R/threeStage.R |only DRIP-2.2/DRIP/R/threeStageParSel.R |only DRIP-2.2/DRIP/README.md |only DRIP-2.2/DRIP/build/partial.rdb |binary DRIP-2.2/DRIP/build/vignette.rds |only DRIP-2.2/DRIP/data/brain.RData |binary DRIP-2.2/DRIP/data/circles.RData |binary DRIP-2.2/DRIP/data/kid.RData |binary DRIP-2.2/DRIP/data/sar.RData |binary DRIP-2.2/DRIP/inst |only DRIP-2.2/DRIP/man/JPLLK_surface.Rd | 10 - DRIP-2.2/DRIP/man/brain.Rd | 1 DRIP-2.2/DRIP/man/circles.Rd | 1 DRIP-2.2/DRIP/man/cv.jpex.Rd | 20 +-- DRIP-2.2/DRIP/man/dKQ.Rd | 1 DRIP-2.2/DRIP/man/jpex.Rd | 2 DRIP-2.2/DRIP/man/kid.Rd | 1 DRIP-2.2/DRIP/man/lena.Rd | 1 DRIP-2.2/DRIP/man/modify1.Rd | 1 DRIP-2.2/DRIP/man/modify2.Rd | 1 DRIP-2.2/DRIP/man/peppers.Rd | 1 DRIP-2.2/DRIP/man/plot.3Stage.Rd |only DRIP-2.2/DRIP/man/plot.Cluster.Rd |only DRIP-2.2/DRIP/man/plot.JPEX.Rd |only DRIP-2.2/DRIP/man/plot.JPLLK.Rd |only DRIP-2.2/DRIP/man/print.3Stage.Rd |only DRIP-2.2/DRIP/man/print.Cluster.Rd |only DRIP-2.2/DRIP/man/print.Edge.Rd |only DRIP-2.2/DRIP/man/print.JPEX.Rd |only DRIP-2.2/DRIP/man/print.JPLLK.Rd |only DRIP-2.2/DRIP/man/roofDiff.Rd | 4 DRIP-2.2/DRIP/man/roofEdge.Rd | 2 DRIP-2.2/DRIP/man/roofEdgeParSel.Rd | 1 DRIP-2.2/DRIP/man/sar.Rd | 1 DRIP-2.2/DRIP/man/stepDiff.Rd | 4 DRIP-2.2/DRIP/man/stepEdge.Rd | 1 DRIP-2.2/DRIP/man/stepEdgeParSel.Rd | 1 DRIP-2.2/DRIP/man/stopsign.Rd | 1 DRIP-2.2/DRIP/man/summary.3Stage.Rd |only DRIP-2.2/DRIP/man/summary.Cluster.Rd |only DRIP-2.2/DRIP/man/summary.Edge.Rd |only DRIP-2.2/DRIP/man/summary.JPEX.Rd |only DRIP-2.2/DRIP/man/summary.JPLLK.Rd |only DRIP-2.2/DRIP/man/surfaceCluster.Rd | 8 - DRIP-2.2/DRIP/man/surfaceCluster_bandwidth.Rd | 5 DRIP-2.2/DRIP/man/threeStage.Rd | 1 DRIP-2.2/DRIP/man/threeStageParSel.Rd | 3 DRIP-2.2/DRIP/tests |only DRIP-2.2/DRIP/vignettes |only 101 files changed, 288 insertions(+), 113 deletions(-)
Title: Bayesian Whole-Genome Regression
Description: Whole-genome regression methods on Bayesian framework fitted via EM
or Gibbs sampling, single step (<doi:10.1534/g3.119.400728>),
univariate and multivariate (<doi:10.1186/s12711-022-00730-w>, <doi:10.1093/genetics/iyae179>),
with optional kernel term and sampling techniques (<doi:10.1186/s12859-017-1582-3>).
Author: Alencar Xavier [aut, cre] ,
William Muir [aut],
David Habier [aut],
Kyle Kocak [aut],
Shizhong Xu [aut],
Katy Rainey [aut]
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between bWGR versions 2.2.11 dated 2024-10-30 and 2.2.12 dated 2024-11-18
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- R/mix.R | 2 +- man/bWGR.Rd | 7 ++++--- man/mvr.Rd | 4 +++- 5 files changed, 18 insertions(+), 14 deletions(-)
Title: Preparer of Main Scientific References for Automatic Insertion
in Academic Papers
Description: Generates a file, containing the main scientific references, prepared to be automatically inserted into an academic paper.
The articles present in the list are chosen from the main references generated, by function principal_lister(), of the package 'bibliorefer'.
The generated file contains the list of metadata of the principal references in 'BibTex' format.
Massimo Aria, Corrado Cuccurullo. (2017) <doi:10.1016/j.joi.2017.08.007>.
Caibo Zhou, Wenyan Song. (2021) <doi:10.1016/j.jclepro.2021.126943>.
Hamid Derviş. (2019) <doi:10.5530/jscires.8.3.32>.
Author: Marcio Eustaquio [cre],
Marcio Eustaquio [aut]
Maintainer: Marcio Eustaquio <marcioeustaquio@id.uff.br>
Diff between gerefer versions 0.1.0 dated 2024-10-10 and 0.1.1 dated 2024-11-18
DESCRIPTION | 6 - MD5 | 4 R/article_bib.R | 262 ++++++++++++++++++++++++++++++++++++++++++++++++++++---- 3 files changed, 252 insertions(+), 20 deletions(-)
Title: Clinical Trial Simulation
Description: Provides some basic routines for simulating a
clinical trial. The primary intent is to provide some tools to
generate trial simulations for trials with time to event outcomes.
Piecewise exponential failure rates and piecewise constant
enrollment rates are the underlying mechanism used to simulate
a broad range of scenarios such as those presented in
Lin et al. (2020) <doi:10.1080/19466315.2019.1697738>.
However, the basic generation of data is done using pipes to allow
maximum flexibility for users to meet different needs.
Author: Keaven Anderson [aut],
Yujie Zhao [ctb, cre],
John Blischak [ctb],
Nan Xiao [ctb],
Yilong Zhang [aut],
Jianxiao Yang [ctb],
Lili Ling [ctb],
Xintong Li [ctb],
Ruixue Wang [ctb],
Yi Cui [ctb],
Ping Yang [ctb],
Yalin Zhu [ctb],
Heng Zhou [ctb],
Amin Sh [...truncated...]
Maintainer: Yujie Zhao <yujie.zhao@merck.com>
Diff between simtrial versions 0.4.1 dated 2024-05-03 and 0.4.2 dated 2024-11-18
simtrial-0.4.1/simtrial/tests/testthat/helper-mb_weight.R |only simtrial-0.4.1/simtrial/tests/testthat/helper-sim_gs_n.R |only simtrial-0.4.1/simtrial/tests/testthat/helper-simfix.R |only simtrial-0.4.1/simtrial/vignettes/schema.png |only simtrial-0.4.1/simtrial/vignettes/workflow.png |only simtrial-0.4.2/simtrial/DESCRIPTION | 14 simtrial-0.4.2/simtrial/MD5 | 145 - simtrial-0.4.2/simtrial/NAMESPACE | 11 simtrial-0.4.2/simtrial/NEWS.md | 31 simtrial-0.4.2/simtrial/R/as_gt.R |only simtrial-0.4.2/simtrial/R/counting_process.R | 51 simtrial-0.4.2/simtrial/R/cut_data_by_date.R | 4 simtrial-0.4.2/simtrial/R/cut_data_by_event.R | 3 simtrial-0.4.2/simtrial/R/get_analysis_date.R | 2 simtrial-0.4.2/simtrial/R/get_cut_date_by_event.R | 2 simtrial-0.4.2/simtrial/R/global.R | 38 simtrial-0.4.2/simtrial/R/maxcombo.R | 8 simtrial-0.4.2/simtrial/R/mb_weight.R | 2 simtrial-0.4.2/simtrial/R/milestone.R | 13 simtrial-0.4.2/simtrial/R/randomize_by_fixed_block.R | 2 simtrial-0.4.2/simtrial/R/rmst.R | 107 - simtrial-0.4.2/simtrial/R/sim_fixed_n.R | 18 simtrial-0.4.2/simtrial/R/sim_gs_n.R | 213 +- simtrial-0.4.2/simtrial/R/sim_pw_surv.R | 6 simtrial-0.4.2/simtrial/R/simtrial-package.R | 4 simtrial-0.4.2/simtrial/R/summary.R |only simtrial-0.4.2/simtrial/R/wlr.R | 130 + simtrial-0.4.2/simtrial/R/wlr_weight.R | 2 simtrial-0.4.2/simtrial/inst/doc/arbitrary-hazard.R | 3 simtrial-0.4.2/simtrial/inst/doc/arbitrary-hazard.Rmd | 3 simtrial-0.4.2/simtrial/inst/doc/arbitrary-hazard.html | 6 simtrial-0.4.2/simtrial/inst/doc/maxcombo.R | 3 simtrial-0.4.2/simtrial/inst/doc/maxcombo.Rmd | 3 simtrial-0.4.2/simtrial/inst/doc/maxcombo.html | 43 simtrial-0.4.2/simtrial/inst/doc/modest-wlrt.R | 8 simtrial-0.4.2/simtrial/inst/doc/modest-wlrt.Rmd | 8 simtrial-0.4.2/simtrial/inst/doc/modest-wlrt.html | 10 simtrial-0.4.2/simtrial/inst/doc/parallel.R | 2 simtrial-0.4.2/simtrial/inst/doc/parallel.Rmd | 4 simtrial-0.4.2/simtrial/inst/doc/parallel.html | 13 simtrial-0.4.2/simtrial/inst/doc/rmst.R | 3 simtrial-0.4.2/simtrial/inst/doc/rmst.Rmd | 7 simtrial-0.4.2/simtrial/inst/doc/rmst.html | 20 simtrial-0.4.2/simtrial/inst/doc/routines.R | 3 simtrial-0.4.2/simtrial/inst/doc/routines.Rmd | 3 simtrial-0.4.2/simtrial/inst/doc/routines.html | 142 - simtrial-0.4.2/simtrial/inst/doc/workflow.R | 2 simtrial-0.4.2/simtrial/inst/doc/workflow.Rmd | 2 simtrial-0.4.2/simtrial/man/as_gt.Rd |only simtrial-0.4.2/simtrial/man/counting_process.Rd | 13 simtrial-0.4.2/simtrial/man/early_zero.Rd | 2 simtrial-0.4.2/simtrial/man/get_analysis_date.Rd | 2 simtrial-0.4.2/simtrial/man/get_cut_date_by_event.Rd | 2 simtrial-0.4.2/simtrial/man/maxcombo.Rd | 2 simtrial-0.4.2/simtrial/man/milestone.Rd | 2 simtrial-0.4.2/simtrial/man/randomize_by_fixed_block.Rd | 2 simtrial-0.4.2/simtrial/man/rmst.Rd | 46 simtrial-0.4.2/simtrial/man/sim_fixed_n.Rd | 2 simtrial-0.4.2/simtrial/man/sim_gs_n.Rd | 131 - simtrial-0.4.2/simtrial/man/sim_pw_surv.Rd | 2 simtrial-0.4.2/simtrial/man/summary.Rd |only simtrial-0.4.2/simtrial/man/wlr.Rd | 79 simtrial-0.4.2/simtrial/tests/testthat/test-double_programming_mb_weight.R | 25 simtrial-0.4.2/simtrial/tests/testthat/test-double_programming_sim_fixed_n.R | 77 simtrial-0.4.2/simtrial/tests/testthat/test-independent_test_early_zero_weight.R |only simtrial-0.4.2/simtrial/tests/testthat/test-independent_test_fh_weight.R | 2 simtrial-0.4.2/simtrial/tests/testthat/test-independent_test_wlr.R |only simtrial-0.4.2/simtrial/tests/testthat/test-unvalidated-data.table.R | 6 simtrial-0.4.2/simtrial/tests/testthat/test-unvalidated-rmst.R | 120 + simtrial-0.4.2/simtrial/tests/testthat/test-unvalidated-sim_gs_n.R | 904 +++++++--- simtrial-0.4.2/simtrial/tests/testthat/test-unvalidated-summary.R |only simtrial-0.4.2/simtrial/tests/testthat/test-unvalidated-wlr.R |only simtrial-0.4.2/simtrial/vignettes/arbitrary-hazard.Rmd | 3 simtrial-0.4.2/simtrial/vignettes/figures |only simtrial-0.4.2/simtrial/vignettes/maxcombo.Rmd | 3 simtrial-0.4.2/simtrial/vignettes/modest-wlrt.Rmd | 8 simtrial-0.4.2/simtrial/vignettes/parallel.Rmd | 4 simtrial-0.4.2/simtrial/vignettes/rmst.Rmd | 7 simtrial-0.4.2/simtrial/vignettes/routines.Rmd | 3 simtrial-0.4.2/simtrial/vignettes/workflow.Rmd | 2 80 files changed, 1725 insertions(+), 818 deletions(-)
Title: Most Likely Transformations
Description: Likelihood-based estimation of conditional transformation
models via the most likely transformation approach described in
Hothorn et al. (2018) <DOI:10.1111/sjos.12291> and Hothorn (2020)
<DOI:10.18637/jss.v092.i01>. Shift-scale (Siegfried et al, 2023, <DOI:10.1080/00031305.2023.2203177>)
and multivariate (Klein et al, 2022, <DOI:10.1111/sjos.12501>) transformation models
are part of this package. A package vignette is available from <DOI:10.32614/CRAN.package.mlt.docreg> and
more convenient user interfaces to many models from <DOI:10.32614/CRAN.package.tram>.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mlt versions 1.6-0 dated 2024-09-23 and 1.6-1 dated 2024-11-18
DESCRIPTION | 11 ++++++----- MD5 | 14 +++++++------- R/dpq_etc.R | 3 +++ R/methods.R | 1 - R/mlt.R | 18 ++++++++++++------ R/mmlt.R | 16 ++++++++-------- build/partial.rdb |binary inst/NEWS.Rd | 9 +++++++++ 8 files changed, 45 insertions(+), 27 deletions(-)
Title: Imputation of High-Dimensional Count Data using Side Information
Description: Analysis, imputation, and multiple imputation of count data using covariates. LORI uses a log-linear Poisson model where main row and column effects, as well as effects of known covariates and interaction terms can be fitted. The estimation procedure is based on the convex optimization of the Poisson loss penalized by a Lasso type penalty and a nuclear norm. LORI returns estimates of main effects, covariate effects and interactions, as well as an imputed count table. The package also contains a multiple imputation procedure. The methods are described in Robin, Josse, Moulines and Sardy (2019) <doi:10.1016/j.jmva.2019.04.004>.
Author: Genevieve Robin [aut, cre]
Maintainer: Genevieve Robin <genevieve.robin@cnrs.fr>
Diff between lori versions 2.2.2 dated 2020-12-16 and 2.2.3 dated 2024-11-18
DESCRIPTION | 11 MD5 | 24 - R/lori.R | 14 R/mi.lori.R | 12 R/qut.R | 4 build/vignette.rds |binary inst/doc/aravo_data_analysis.R | 2 inst/doc/aravo_data_analysis.html | 315 +++++++++------------- inst/doc/getting_started.R | 12 inst/doc/getting_started.html | 534 +++++++++++++++++++------------------- man/lori.Rd | 3 man/mi.lori.Rd | 3 man/qut.Rd | 4 13 files changed, 466 insertions(+), 472 deletions(-)
Title: Targets for JAGS Pipelines
Description: Bayesian data analysis usually incurs long runtimes
and cumbersome custom code.
A pipeline toolkit tailored to Bayesian statisticians,
the 'jagstargets' R package is leverages
'targets' and 'R2jags' to ease this burden.
'jagstargets' makes it super easy to set up scalable
JAGS pipelines that automatically parallelize the computation
and skip expensive steps when the results are already up to date.
Minimal custom code is required, and there is no need to manually
configure branching, so usage is much easier than 'targets' alone.
For the underlying methodology, please refer
to the documentation of 'targets' <doi:10.21105/joss.02959> and 'JAGS'
(Plummer 2003) <https://www.r-project.org/conferences/DSC-2003/Proceedings/Plummer.pdf>.
Author: William Michael Landau [aut, cre]
,
David Lawrence Miller [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between jagstargets versions 1.2.1 dated 2024-09-06 and 1.2.2 dated 2024-11-18
DESCRIPTION | 20 ++--- MD5 | 51 +++++++------- NAMESPACE | 2 NEWS.md | 4 + R/tar_jags.R | 2 R/tar_jags_package.R | 2 R/tar_jags_rep.R | 2 R/tar_jags_rep_dic.R | 2 R/tar_jags_rep_draws.R | 2 R/tar_jags_rep_summary.R | 2 inst/doc/introduction.html | 52 +++++++------- inst/doc/simulation.html | 82 +++++++++++------------ man/tar_jags.Rd | 98 ++++++++++++++++------------ man/tar_jags_rep.Rd | 96 ++++++++++++++++----------- man/tar_jags_rep_data_batch.Rd | 2 man/tar_jags_rep_dic.Rd | 98 ++++++++++++++++------------ man/tar_jags_rep_draws.Rd | 98 ++++++++++++++++------------ man/tar_jags_rep_summary.Rd | 98 ++++++++++++++++------------ tests/testthat/helper-utils.R |only tests/testthat/test-tar_jags.R | 11 --- tests/testthat/test-tar_jags_df.R | 3 tests/testthat/test-tar_jags_example_file.R | 1 tests/testthat/test-tar_jags_rep_dic.R | 8 -- tests/testthat/test-tar_jags_rep_draws.R | 13 --- tests/testthat/test-tar_jags_rep_summary.R | 23 +----- tests/testthat/test-utils_data.R | 2 tests/testthat/test-utils_deprecate.R | 1 27 files changed, 423 insertions(+), 352 deletions(-)
Title: Additional Layout Algorithms for Network Visualizations
Description: Several new layout algorithms to visualize networks are provided which are not part of 'igraph'.
Most are based on the concept of stress majorization by Gansner et al. (2004) <doi:10.1007/978-3-540-31843-9_25>.
Some more specific algorithms allow the user to emphasize hidden group structures in networks or focus on specific nodes.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david@schochastics.net>
Diff between graphlayouts versions 1.2.0 dated 2024-09-24 and 1.2.1 dated 2024-11-18
graphlayouts-1.2.0/graphlayouts/R/oaqc.R |only graphlayouts-1.2.0/graphlayouts/man/annotate_result.Rd |only graphlayouts-1.2.0/graphlayouts/man/as.edge_list.Rd |only graphlayouts-1.2.0/graphlayouts/man/oaqc.Rd |only graphlayouts-1.2.0/graphlayouts/src/Graph.cpp |only graphlayouts-1.2.0/graphlayouts/src/Graph.h |only graphlayouts-1.2.0/graphlayouts/src/QuadCensus.cpp |only graphlayouts-1.2.0/graphlayouts/src/QuadCensus.h |only graphlayouts-1.2.0/graphlayouts/src/init.cpp |only graphlayouts-1.2.1/graphlayouts/DESCRIPTION | 20 ++++------- graphlayouts-1.2.1/graphlayouts/MD5 | 21 +++--------- graphlayouts-1.2.1/graphlayouts/NAMESPACE | 1 graphlayouts-1.2.1/graphlayouts/NEWS.md | 4 ++ graphlayouts-1.2.1/graphlayouts/R/layout_backbone.R | 6 ++- graphlayouts-1.2.1/graphlayouts/man/graphlayouts-package.Rd | 6 --- graphlayouts-1.2.1/graphlayouts/src/RcppExports.cpp | 3 - 16 files changed, 21 insertions(+), 40 deletions(-)
Title: Balanced and Spatially Balanced Sampling
Description: Select balanced and spatially balanced probability samples in multi-dimensional spaces
with any prescribed inclusion probabilities. It contains fast (C++ via Rcpp) implementations of
the included sampling methods. The local pivotal method by Grafström, Lundström and Schelin (2012)
<doi:10.1111/j.1541-0420.2011.01699.x> and spatially correlated Poisson sampling by Grafström (2012)
<doi:10.1016/j.jspi.2011.07.003> are included. Also the cube method (for balanced sampling) and
the local cube method (for doubly balanced sampling) are included, see Grafström and Tillé (2013)
<doi:10.1002/env.2194>.
Author: Anton Grafstroem [aut, cre] ,
Wilmer Prentius [aut] ,
Jonathan Lisic [ctb]
Maintainer: Anton Grafstroem <anton.grafstrom@gmail.com>
Diff between BalancedSampling versions 2.0.6 dated 2024-03-01 and 2.1.1 dated 2024-11-18
DESCRIPTION | 23 +++++++++++++++-------- MD5 | 12 ++++++------ man/BalancedSampling.Rd | 2 +- src/CubeClass.cc | 2 +- src/IndexListClass.cc | 22 ++++++++-------------- src/IndexListClass.h | 2 +- src/hlpm2.cc | 2 +- 7 files changed, 33 insertions(+), 32 deletions(-)
More information about BalancedSampling at CRAN
Permanent link
Title: Gradient-Free Optimization Algorithm for Single and
Multi-Objective Problems
Description: An implementation of the Jaya optimization algorithm for both
single-objective and multi-objective problems. Jaya is a population-based,
gradient-free optimization algorithm capable of solving constrained and
unconstrained optimization problems without hyperparameters. This package
includes features such as multi-objective Pareto optimization, adaptive
population adjustment, and early stopping. For further details, see
R.V. Rao (2016) <doi:10.5267/j.ijiec.2015.8.004>.
Author: Neeraj Bokde [aut, cre]
Maintainer: Neeraj Bokde <neerajdhanraj@gmail.com>
Diff between Jaya versions 0.1.9 dated 2019-11-12 and 1.0.3 dated 2024-11-18
Jaya-0.1.9/Jaya/R/plotJaya.R |only Jaya-0.1.9/Jaya/R/summaryJaya.R |only Jaya-0.1.9/Jaya/inst/doc/A_guide_to_JA.R |only Jaya-0.1.9/Jaya/inst/doc/A_guide_to_JA.Rmd |only Jaya-0.1.9/Jaya/inst/doc/A_guide_to_JA.html |only Jaya-0.1.9/Jaya/vignettes/A_guide_to_JA.Rmd |only Jaya-1.0.3/Jaya/DESCRIPTION | 49 +-- Jaya-1.0.3/Jaya/LICENSE |only Jaya-1.0.3/Jaya/MD5 | 31 +- Jaya-1.0.3/Jaya/NAMESPACE | 21 - Jaya-1.0.3/Jaya/R/jaya.R | 324 ++++++++++++++---------- Jaya-1.0.3/Jaya/R/jaya_multi.R |only Jaya-1.0.3/Jaya/R/plotting.R |only Jaya-1.0.3/Jaya/R/summary.R |only Jaya-1.0.3/Jaya/build/vignette.rds |binary Jaya-1.0.3/Jaya/inst/doc/Jaya_Usage.R |only Jaya-1.0.3/Jaya/inst/doc/Jaya_Usage.Rmd |only Jaya-1.0.3/Jaya/inst/doc/Jaya_Usage.html |only Jaya-1.0.3/Jaya/man/jaya.Rd | 137 ++++++---- Jaya-1.0.3/Jaya/man/jaya_multi.Rd |only Jaya-1.0.3/Jaya/man/plot.jaya.Rd | 66 +++- Jaya-1.0.3/Jaya/man/plot_jaya_multi_pairwise.Rd |only Jaya-1.0.3/Jaya/man/summary.jaya.Rd | 77 +++-- Jaya-1.0.3/Jaya/tests |only Jaya-1.0.3/Jaya/vignettes/Jaya_Usage.Rmd |only 25 files changed, 446 insertions(+), 259 deletions(-)
Title: Padronizador de Endereços Brasileiros (Brazilian Addresses
Standardizer)
Description: Padroniza endereços brasileiros a partir de diferentes
critérios. Os métodos de padronização incluem apenas manipulações
básicas de strings, não oferecendo suporte a correspondências
probabilísticas entre strings. (Standardizes brazilian addresses using
different criteria. Standardization methods include only basic string
manipulation, not supporting probabilistic matches between strings.)
Author: Daniel Herszenhut [aut, cre] ,
Rafael H. M. Pereira [aut] ,
Lucas Mation [aut]
Maintainer: Daniel Herszenhut <dhersz@gmail.com>
Diff between enderecobr versions 0.2.0 dated 2024-10-28 and 0.2.1 dated 2024-11-18
DESCRIPTION | 13 ++++++++----- MD5 | 6 +++--- NEWS.md | 6 ++++++ man/enderecobr.Rd | 1 + 4 files changed, 18 insertions(+), 8 deletions(-)
Title: Proteomics Data Analysis Functions
Description: Data analysis of proteomics experiments by mass spectrometry is supported by this collection of functions mostly dedicated to the analysis of (bottom-up) quantitative (XIC) data.
Fasta-formatted proteomes (eg from UniProt Consortium <doi:10.1093/nar/gky1049>) can be read with automatic parsing and multiple annotation types (like species origin, abbreviated gene names, etc) extracted.
Initial results from multiple software for protein (and peptide) quantitation can be imported (to a common format):
MaxQuant (Tyanova et al 2016 <doi:10.1038/nprot.2016.136>), Dia-NN (Demichev et al 2020 <doi:10.1038/s41592-019-0638-x>),
Fragpipe (da Veiga et al 2020 <doi:10.1038/s41592-020-0912-y>), ionbot (Degroeve et al 2021 <doi:10.1101/2021.07.02.450686>),
MassChroq (Valot et al 2011 <doi:10.1002/pmic.201100120>),
OpenMS (Strauss et al 2021 <doi:10.1038/nmeth.3959>), ProteomeDiscoverer (Orsburn 2021 <doi:10.3390/proteomes9010015>),
Proline (Bouyssie et a [...truncated...]
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrProteo versions 1.12.0 dated 2024-07-26 and 1.13.0 dated 2024-11-18
DESCRIPTION | 8 MD5 | 96 +- NAMESPACE | 2 R/corColumnOrder.R | 178 +++-- R/exportAsWombatP.R |only R/getUPS1acc.R | 32 R/inspectSpeciesIndic.R |only R/readAlphaPeptFile.R | 12 R/readDiaNNFile.R | 8 R/readDiaNNPeptides.R | 8 R/readFasta2.R | 28 R/readFragpipeFile.R | 8 R/readIonbotPeptides.R | 77 +- R/readMassChroQFile.R | 9 R/readMaxQuantFile.R | 101 ++ R/readMaxQuantPeptides.R | 170 +++- R/readOpenMSFile.R | 3 R/readProlineFile.R | 10 R/readProteomeDiscovererFile.R | 269 ++++++- R/readProteomeDiscovererPeptides.R | 56 + R/readSampleMetaData.R | 347 ++++++--- R/readWombatNormFile.R | 6 inst/doc/wrProteoVignette1.R | 11 inst/doc/wrProteoVignette1.Rmd | 11 inst/doc/wrProteoVignette1.html | 196 ++--- inst/doc/wrProteoVignetteUPS1.R | 53 - inst/doc/wrProteoVignetteUPS1.Rmd | 73 +- inst/doc/wrProteoVignetteUPS1.html | 1193 ++++++++++++++++++---------------- man/corColumnOrder.Rd | 17 man/dot-checkSetupGroups.Rd | 2 man/dot-commonSpecies.Rd | 2 man/dot-extrSpecPref.Rd | 15 man/dot-plotQuantDistr.Rd | 2 man/exportAsWombatP.Rd |only man/getUPS1acc.Rd | 15 man/inspectSpeciesIndic.Rd |only man/readAlphaPeptFile.Rd | 6 man/readDiaNNFile.Rd | 6 man/readDiaNNPeptides.Rd | 6 man/readFragpipeFile.Rd | 6 man/readIonbotPeptides.Rd | 28 man/readMassChroQFile.Rd | 6 man/readMaxQuantFile.Rd | 11 man/readMaxQuantPeptides.Rd | 8 man/readProlineFile.Rd | 6 man/readProteomeDiscovererFile.Rd | 8 man/readProteomeDiscovererPeptides.Rd | 6 man/readSampleMetaData.Rd | 2 man/readWombatNormFile.Rd | 6 vignettes/wrProteoVignette1.Rmd | 11 vignettes/wrProteoVignetteUPS1.Rmd | 73 +- 51 files changed, 1932 insertions(+), 1275 deletions(-)
Title: Simple and Configurable Tables in 'HTML', 'LaTeX', 'Markdown',
'Word', 'PNG', 'PDF', and 'Typst' Formats
Description: Create highly customized tables with this simple and dependency-free package. Data frames can be converted to 'HTML', 'LaTeX', 'Markdown', 'Word', 'PNG', 'PDF', or 'Typst' tables. The user interface is minimalist and easy to learn. The syntax is concise. 'HTML' tables can be customized using the flexible 'Bootstrap' framework, and 'LaTeX' code with the 'tabularray' package.
Author: Vincent Arel-Bundock [aut, cre]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between tinytable versions 0.5.0 dated 2024-10-05 and 0.6.1 dated 2024-11-18
tinytable-0.5.0/tinytable/R/theme_tt.R |only tinytable-0.5.0/tinytable/inst/tinytest/_tinysnapshot/group_tt-3level_md.txt |only tinytable-0.5.0/tinytable/inst/tinytest/_tinysnapshot/group_tt-3level_tex.txt |only tinytable-0.5.0/tinytable/man/style_grid_internal.Rd |only tinytable-0.6.1/tinytable/DESCRIPTION | 11 tinytable-0.6.1/tinytable/MD5 | 227 ++- tinytable-0.6.1/tinytable/NEWS.md | 19 tinytable-0.6.1/tinytable/R/build_tt.R | 37 tinytable-0.6.1/tinytable/R/class.R | 6 tinytable-0.6.1/tinytable/R/format_numeric.R | 1 tinytable-0.6.1/tinytable/R/format_tt.R | 73 - tinytable-0.6.1/tinytable/R/group_bootstrap.R | 32 tinytable-0.6.1/tinytable/R/group_tabularray.R | 18 tinytable-0.6.1/tinytable/R/group_tt.R | 24 tinytable-0.6.1/tinytable/R/group_typst.R | 12 tinytable-0.6.1/tinytable/R/last_style.R |only tinytable-0.6.1/tinytable/R/posit.R |only tinytable-0.6.1/tinytable/R/print.R | 11 tinytable-0.6.1/tinytable/R/sanity.R | 590 +++++----- tinytable-0.6.1/tinytable/R/save_tt.R | 4 tinytable-0.6.1/tinytable/R/style_bootstrap.R | 233 +-- tinytable-0.6.1/tinytable/R/style_grid.R | 88 - tinytable-0.6.1/tinytable/R/style_grid_dataframe.R | 2 tinytable-0.6.1/tinytable/R/style_tabularray.R | 463 ++++--- tinytable-0.6.1/tinytable/R/style_tt.R | 380 ++---- tinytable-0.6.1/tinytable/R/style_typst.R | 328 ++--- tinytable-0.6.1/tinytable/R/theme_bootstrap.R |only tinytable-0.6.1/tinytable/R/theme_default.R |only tinytable-0.6.1/tinytable/R/theme_grid.R |only tinytable-0.6.1/tinytable/R/theme_multipage.R |only tinytable-0.6.1/tinytable/R/theme_placement.R |only tinytable-0.6.1/tinytable/R/theme_resize.R |only tinytable-0.6.1/tinytable/R/theme_revealjs.R |only tinytable-0.6.1/tinytable/R/theme_rotate.R |only tinytable-0.6.1/tinytable/R/theme_spacing.R |only tinytable-0.6.1/tinytable/R/theme_striped.R |only tinytable-0.6.1/tinytable/R/theme_tabular.R |only tinytable-0.6.1/tinytable/R/theme_void.R |only tinytable-0.6.1/tinytable/R/theme_zzz.R |only tinytable-0.6.1/tinytable/R/tt.R | 11 tinytable-0.6.1/tinytable/R/tt_bootstrap.R | 15 tinytable-0.6.1/tinytable/README.md | 6 tinytable-0.6.1/tinytable/build/partial.rdb |binary tinytable-0.6.1/tinytable/inst/templates/bootstrap.html | 25 tinytable-0.6.1/tinytable/inst/templates/typst.typ | 46 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/format_tt-vignette_digits.txt | 18 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/format_tt-vignette_html_markdown.html | 36 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-3level.md |only tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-3level.tex |only tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-3level.typ | 52 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-html_tutorial_01.html | 67 - tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue165_html_centering_style.html | 86 - tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue258_01_html.html | 56 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue258_01_latex.txt | 13 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue258_01_typst.txt | 54 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue258_02_html.html | 58 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue258_02_latex.txt | 13 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue258_02_typst.txt | 54 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/group_tt-issue362_duplicate_colum_labels.tex |only tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-alignment.html | 61 - tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-bootstrap_css.html | 47 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-borders.html | 40 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-caption.html | 33 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-conditional_styling.html | 45 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-font_size.html | 51 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-footnote.html | 37 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-formatting.html | 40 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-heatmap.html | 105 + tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-images-portable.html | 32 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-images.html | 32 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-individual_cells.html | 43 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-issue297.txt | 32 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-issue58.html | 98 - tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-issue88.html | 53 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-issue92.html | 42 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-line_break.html | 32 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-merge_cells.html | 41 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-missing_value.html | 32 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-omit_headers.html | 35 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-spanning_cells.html | 45 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-striped.html | 29 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-striped_orange.html | 57 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/html-vectorized_color_j.html | 59 - tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-align.txt | 8 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-align_d.txt | 2 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-align_d_02.txt |only tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-align_d_03.txt |only tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-borders.txt | 11 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-cell_color.txt | 16 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-col_color.txt | 5 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-conditional_styling.txt | 4 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-font_size.txt | 3 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-formatting.txt | 6 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-group_style_order.txt | 12 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-heatmaps.txt | 45 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-maths.txt | 2 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-merging_cells.txt | 2 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-row_color.txt | 5 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-style.txt | 12 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-theme_grid.txt | 4 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/latex-theme_striped.txt | 6 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/tibble-typst_pillar_num.txt | 52 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-complicated.txt | 61 - tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-font_size.txt | 54 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-formatting.txt | 58 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-grid.txt | 46 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-group_rows.txt | 54 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-issue-139_misaligned_rule_with_group_tt.txt | 58 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-issue323_group_tt_style_tt.txt | 58 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-italic_markdown.txt | 53 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-missing_value_replacement.txt | 52 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-more_formatting.txt | 58 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-no_headers.txt | 50 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-significant_cell.txt | 52 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-striped.txt | 53 tinytable-0.6.1/tinytable/inst/tinytest/_tinysnapshot/typst-tblr.txt |only tinytable-0.6.1/tinytable/inst/tinytest/test-group_tt.R | 14 tinytable-0.6.1/tinytable/inst/tinytest/test-latex.R | 77 - tinytable-0.6.1/tinytable/inst/tinytest/test-typst.R | 11 tinytable-0.6.1/tinytable/man/format_tt.Rd | 26 tinytable-0.6.1/tinytable/man/initialize-tinytable-method.Rd | 2 tinytable-0.6.1/tinytable/man/save_tt.Rd | 6 tinytable-0.6.1/tinytable/man/style_eval-tinytable_dataframe-method.Rd | 14 tinytable-0.6.1/tinytable/man/style_eval-tinytable_grid-method.Rd | 14 tinytable-0.6.1/tinytable/man/style_tt.Rd | 24 tinytable-0.6.1/tinytable/man/theme_tt.Rd | 2 tinytable-0.6.1/tinytable/man/tt.Rd | 36 127 files changed, 3009 insertions(+), 2409 deletions(-)
Title: Statically Determine Function Dependencies Between Packages
Description: Statically determine and visualize the function dependencies
within and across packages. This may be useful for managing function
dependencies across a code base of multiple R packages.
Author: Ed Peyton [aut, cre]
Maintainer: Ed Peyton <edppeyton@gmail.com>
Diff between pkgdepR versions 1.0.0 dated 2022-02-16 and 1.1.0 dated 2024-11-18
DESCRIPTION | 10 +++---- LICENSE | 4 +- MD5 | 38 +++++++++++++-------------- NEWS.md | 6 +++- R/S3methods.R | 38 +++++++++++++++++++++------ R/envir_deps.R | 14 ++++----- R/helper_functions.R | 26 +++++++++++------- R/pkgdepR-package.R | 2 - README.md | 31 ++++++++++++---------- inst/CITATION | 20 ++++---------- man/all_info_ns.Rd | 34 ++++++++++++------------ man/deps.Rd | 62 ++++++++++++++++++++++---------------------- man/get_functions.Rd | 34 ++++++++++++------------ man/is.pkgdepR.Rd | 34 ++++++++++++------------ man/ls_namespace_info.Rd | 38 +++++++++++++-------------- man/pipe.Rd | 16 +++++------ man/pkgdepR-package.Rd | 66 +++++++++++++++++++++++------------------------ man/plot.pkgdepR.Rd | 18 ++++++++++-- man/print.pkgdepR.Rd | 38 +++++++++++++-------------- man/summary.pkgdepR.Rd | 38 +++++++++++++-------------- 20 files changed, 303 insertions(+), 264 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
,
Christoph Burow [aut, trl, dtc]
,
Michael Dietze [aut] ,
Margret C. Fuchs [aut] ,
Christoph Schmidt [aut] ,
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] ,
Norbert Mercier [aut] ,
Rachel K. Smedley [ct [...truncated...]
Maintainer: Sebastian Kreutzer <maintainer_luminescence@r-luminescence.org>
Diff between Luminescence versions 0.9.25 dated 2024-09-12 and 0.9.26 dated 2024-11-18
Luminescence-0.9.25/Luminescence/man/calc_Kars2008.Rd |only Luminescence-0.9.26/Luminescence/DESCRIPTION | 8 Luminescence-0.9.26/Luminescence/MD5 | 421 +++++----- Luminescence-0.9.26/Luminescence/NAMESPACE | 1 Luminescence-0.9.26/Luminescence/NEWS.md | 268 ++++-- Luminescence-0.9.26/Luminescence/R/CW2pHMi.R | 9 Luminescence-0.9.26/Luminescence/R/RLum.Analysis-class.R | 71 - Luminescence-0.9.26/Luminescence/R/Risoe.BINfileData2RLum.Analysis.R | 5 Luminescence-0.9.26/Luminescence/R/analyse_Al2O3C_CrossTalk.R | 2 Luminescence-0.9.26/Luminescence/R/analyse_Al2O3C_ITC.R | 5 Luminescence-0.9.26/Luminescence/R/analyse_Al2O3C_Measurement.R | 6 Luminescence-0.9.26/Luminescence/R/analyse_FadingMeasurement.R | 18 Luminescence-0.9.26/Luminescence/R/analyse_IRSAR.RF.R | 8 Luminescence-0.9.26/Luminescence/R/analyse_SAR.CWOSL.R | 13 Luminescence-0.9.26/Luminescence/R/analyse_SAR.TL.R | 215 ++--- Luminescence-0.9.26/Luminescence/R/analyse_baSAR.R | 12 Luminescence-0.9.26/Luminescence/R/analyse_pIRIRSequence.R | 112 -- Luminescence-0.9.26/Luminescence/R/analyse_portableOSL.R | 14 Luminescence-0.9.26/Luminescence/R/calc_AliquotSize.R | 5 Luminescence-0.9.26/Luminescence/R/calc_AverageDose.R | 6 Luminescence-0.9.26/Luminescence/R/calc_FastRatio.R | 5 Luminescence-0.9.26/Luminescence/R/calc_Huntley2006.R | 16 Luminescence-0.9.26/Luminescence/R/calc_Kars2008.R | 93 -- Luminescence-0.9.26/Luminescence/R/calc_MinDose.R | 6 Luminescence-0.9.26/Luminescence/R/calc_OSLLxTxDecomposed.R | 4 Luminescence-0.9.26/Luminescence/R/calc_ThermalLifetime.R | 5 Luminescence-0.9.26/Luminescence/R/calc_WodaFuchs2008.R | 2 Luminescence-0.9.26/Luminescence/R/calc_gSGC.R | 4 Luminescence-0.9.26/Luminescence/R/calc_gSGC_feldspar.R | 2 Luminescence-0.9.26/Luminescence/R/combine_De_Dr.R | 6 Luminescence-0.9.26/Luminescence/R/extract_IrradiationTimes.R | 4 Luminescence-0.9.26/Luminescence/R/fit_CWCurve.R | 5 Luminescence-0.9.26/Luminescence/R/fit_EmissionSpectra.R | 13 Luminescence-0.9.26/Luminescence/R/fit_LMCurve.R | 6 Luminescence-0.9.26/Luminescence/R/fit_OSLLifeTimes.R | 7 Luminescence-0.9.26/Luminescence/R/get_Layout.R | 4 Luminescence-0.9.26/Luminescence/R/get_RLum.R | 23 Luminescence-0.9.26/Luminescence/R/internal_as.latex.table.R | 3 Luminescence-0.9.26/Luminescence/R/internals_RLum.R | 79 + Luminescence-0.9.26/Luminescence/R/merge_RLum.Data.Curve.R | 4 Luminescence-0.9.26/Luminescence/R/merge_RLum.R | 4 Luminescence-0.9.26/Luminescence/R/merge_RLum.Results.R | 5 Luminescence-0.9.26/Luminescence/R/plot_AbanicoPlot.R | 5 Luminescence-0.9.26/Luminescence/R/plot_DRCSummary.R | 5 Luminescence-0.9.26/Luminescence/R/plot_DRTResults.R | 6 Luminescence-0.9.26/Luminescence/R/plot_DetPlot.R | 3 Luminescence-0.9.26/Luminescence/R/plot_FilterCombinations.R | 8 Luminescence-0.9.26/Luminescence/R/plot_GrowthCurve.R | 4 Luminescence-0.9.26/Luminescence/R/plot_Histogram.R | 2 Luminescence-0.9.26/Luminescence/R/plot_KDE.R | 2 Luminescence-0.9.26/Luminescence/R/plot_NRt.R | 2 Luminescence-0.9.26/Luminescence/R/plot_RLum.Analysis.R | 9 Luminescence-0.9.26/Luminescence/R/plot_RLum.Data.Image.R | 4 Luminescence-0.9.26/Luminescence/R/plot_RLum.Data.Spectrum.R | 52 - Luminescence-0.9.26/Luminescence/R/plot_RLum.Results.R | 8 Luminescence-0.9.26/Luminescence/R/plot_RadialPlot.R | 5 Luminescence-0.9.26/Luminescence/R/plot_Risoe.BINfileData.R | 4 Luminescence-0.9.26/Luminescence/R/plot_ViolinPlot.R | 3 Luminescence-0.9.26/Luminescence/R/read_BIN2R.R | 6 Luminescence-0.9.26/Luminescence/R/read_Daybreak2R.R | 2 Luminescence-0.9.26/Luminescence/R/read_SPE2R.R | 4 Luminescence-0.9.26/Luminescence/R/read_XSYG2R.R | 4 Luminescence-0.9.26/Luminescence/R/report_RLum.R | 5 Luminescence-0.9.26/Luminescence/R/scale_GammaDose.R | 2 Luminescence-0.9.26/Luminescence/R/template_DRAC.R | 4 Luminescence-0.9.26/Luminescence/R/use_DRAC.R | 7 Luminescence-0.9.26/Luminescence/R/write_R2BIN.R | 51 - Luminescence-0.9.26/Luminescence/R/zzz.R | 7 Luminescence-0.9.26/Luminescence/README.md | 100 +- Luminescence-0.9.26/Luminescence/build/partial.rdb |binary Luminescence-0.9.26/Luminescence/build/vignette.rds |binary Luminescence-0.9.26/Luminescence/inst/CITATION | 2 Luminescence-0.9.26/Luminescence/man/Analyse_SAR.OSLdata.Rd | 2 Luminescence-0.9.26/Luminescence/man/CW2pHMi.Rd | 2 Luminescence-0.9.26/Luminescence/man/CW2pLM.Rd | 2 Luminescence-0.9.26/Luminescence/man/CW2pLMi.Rd | 2 Luminescence-0.9.26/Luminescence/man/CW2pPMi.Rd | 2 Luminescence-0.9.26/Luminescence/man/GitHub-API.Rd | 2 Luminescence-0.9.26/Luminescence/man/PSL2Risoe.BINfileData.Rd | 2 Luminescence-0.9.26/Luminescence/man/RLum-class.Rd | 2 Luminescence-0.9.26/Luminescence/man/RLum.Analysis-class.Rd | 4 Luminescence-0.9.26/Luminescence/man/RLum.Data.Curve-class.Rd | 2 Luminescence-0.9.26/Luminescence/man/RLum.Data.Image-class.Rd | 2 Luminescence-0.9.26/Luminescence/man/RLum.Data.Spectrum-class.Rd | 2 Luminescence-0.9.26/Luminescence/man/RLum.Results-class.Rd | 2 Luminescence-0.9.26/Luminescence/man/Risoe.BINfileData-class.Rd | 2 Luminescence-0.9.26/Luminescence/man/Risoe.BINfileData2RLum.Analysis.Rd | 2 Luminescence-0.9.26/Luminescence/man/Second2Gray.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_Al2O3C_CrossTalk.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_Al2O3C_ITC.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_Al2O3C_Measurement.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_FadingMeasurement.Rd | 14 Luminescence-0.9.26/Luminescence/man/analyse_IRSAR.RF.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_SAR.CWOSL.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_SAR.TL.Rd | 6 Luminescence-0.9.26/Luminescence/man/analyse_baSAR.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_pIRIRSequence.Rd | 2 Luminescence-0.9.26/Luminescence/man/analyse_portableOSL.Rd | 2 Luminescence-0.9.26/Luminescence/man/apply_CosmicRayRemoval.Rd | 2 Luminescence-0.9.26/Luminescence/man/apply_EfficiencyCorrection.Rd | 2 Luminescence-0.9.26/Luminescence/man/bin_RLum.Data.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_AliquotSize.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_AverageDose.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_CentralDose.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_CobbleDoseRate.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_CommonDose.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_CosmicDoseRate.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_FadingCorr.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_FastRatio.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_FiniteMixture.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_FuchsLang2001.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_HomogeneityTest.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_Huntley2006.Rd | 4 Luminescence-0.9.26/Luminescence/man/calc_IEU.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_Lamothe2003.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_MaxDose.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_MinDose.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_OSLLxTxDecomposed.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_OSLLxTxRatio.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_SourceDoseRate.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_Statistics.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_TLLxTxRatio.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_ThermalLifetime.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_WodaFuchs2008.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_gSGC.Rd | 2 Luminescence-0.9.26/Luminescence/man/calc_gSGC_feldspar.Rd | 2 Luminescence-0.9.26/Luminescence/man/combine_De_Dr.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_Activity2Concentration.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_BIN2CSV.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_Concentration2DoseRate.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_Daybreak2CSV.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_PSL2CSV.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_RLum2Risoe.BINfileData.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_SG2MG.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_Wavelength2Energy.Rd | 2 Luminescence-0.9.26/Luminescence/man/convert_XSYG2CSV.Rd | 2 Luminescence-0.9.26/Luminescence/man/extract_IrradiationTimes.Rd | 2 Luminescence-0.9.26/Luminescence/man/extract_ROI.Rd | 2 Luminescence-0.9.26/Luminescence/man/fit_CWCurve.Rd | 2 Luminescence-0.9.26/Luminescence/man/fit_EmissionSpectra.Rd | 2 Luminescence-0.9.26/Luminescence/man/fit_LMCurve.Rd | 2 Luminescence-0.9.26/Luminescence/man/fit_OSLLifeTimes.Rd | 2 Luminescence-0.9.26/Luminescence/man/fit_SurfaceExposure.Rd | 2 Luminescence-0.9.26/Luminescence/man/fit_ThermalQuenching.Rd | 2 Luminescence-0.9.26/Luminescence/man/get_Layout.Rd | 2 Luminescence-0.9.26/Luminescence/man/get_Quote.Rd | 2 Luminescence-0.9.26/Luminescence/man/get_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/get_Risoe.BINfileData.Rd | 2 Luminescence-0.9.26/Luminescence/man/get_rightAnswer.Rd | 2 Luminescence-0.9.26/Luminescence/man/import_Data.Rd | 2 Luminescence-0.9.26/Luminescence/man/length_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/merge_RLum.Analysis.Rd | 2 Luminescence-0.9.26/Luminescence/man/merge_RLum.Data.Curve.Rd | 2 Luminescence-0.9.26/Luminescence/man/merge_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/merge_RLum.Results.Rd | 2 Luminescence-0.9.26/Luminescence/man/merge_Risoe.BINfileData.Rd | 2 Luminescence-0.9.26/Luminescence/man/names_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_AbanicoPlot.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_DRCSummary.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_DRTResults.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_DetPlot.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_FilterCombinations.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_GrowthCurve.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_Histogram.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_KDE.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_NRt.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_OSLAgeSummary.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_RLum.Analysis.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_RLum.Data.Curve.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_RLum.Data.Image.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_RLum.Data.Spectrum.Rd | 8 Luminescence-0.9.26/Luminescence/man/plot_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_RLum.Results.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_ROI.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_RadialPlot.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_Risoe.BINfileData.Rd | 2 Luminescence-0.9.26/Luminescence/man/plot_ViolinPlot.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_BIN2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_Daybreak2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_HeliosOSL2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_PSL2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_RF2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_SPE2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_TIFF2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/read_XSYG2R.Rd | 2 Luminescence-0.9.26/Luminescence/man/replicate_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/report_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/sTeve.Rd | 2 Luminescence-0.9.26/Luminescence/man/scale_GammaDose.Rd | 2 Luminescence-0.9.26/Luminescence/man/set_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/set_Risoe.BINfileData.Rd | 2 Luminescence-0.9.26/Luminescence/man/smooth_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/structure_RLum.Rd | 2 Luminescence-0.9.26/Luminescence/man/subset_SingleGrainData.Rd | 2 Luminescence-0.9.26/Luminescence/man/template_DRAC.Rd | 2 Luminescence-0.9.26/Luminescence/man/trim_RLum.Data.Rd | 2 Luminescence-0.9.26/Luminescence/man/tune_Data.Rd | 2 Luminescence-0.9.26/Luminescence/man/use_DRAC.Rd | 2 Luminescence-0.9.26/Luminescence/man/verify_SingleGrainData.Rd | 2 Luminescence-0.9.26/Luminescence/man/write_R2BIN.Rd | 6 Luminescence-0.9.26/Luminescence/man/write_R2TIFF.Rd | 2 Luminescence-0.9.26/Luminescence/man/write_RLum2CSV.Rd | 2 Luminescence-0.9.26/Luminescence/tests/testthat/_snaps |only Luminescence-0.9.26/Luminescence/tests/testthat/setup.R |only Luminescence-0.9.26/Luminescence/tests/testthat/test_analyse_SAR.CWOSL.R | 20 Luminescence-0.9.26/Luminescence/tests/testthat/test_analyse_SAR.TL.R | 59 + Luminescence-0.9.26/Luminescence/tests/testthat/test_analyse_pIRIRSequence.R | 97 ++ Luminescence-0.9.26/Luminescence/tests/testthat/test_calc_Huntley2006.R | 53 - Luminescence-0.9.26/Luminescence/tests/testthat/test_calc_MinDose.R | 9 Luminescence-0.9.26/Luminescence/tests/testthat/test_get_RLum.R | 10 Luminescence-0.9.26/Luminescence/tests/testthat/test_internals.R | 40 Luminescence-0.9.26/Luminescence/tests/testthat/test_subset_RLum.R | 3 Luminescence-0.9.26/Luminescence/tests/testthat/test_write_R2BIN.R | 8 213 files changed, 1300 insertions(+), 1104 deletions(-)
Title: Asymptotic Timing
Description: Computing and visualizing comparative
asymptotic timings of different algorithms and code versions.
Also includes functionality for comparing empirical timings with
expected references such as linear or quadratic,
<https://en.wikipedia.org/wiki/Asymptotic_computational_complexity>
Also includes functionality for measuring asymptotic memory and other
quantities.
Author: Toby Hocking [aut, cre]
Maintainer: Toby Hocking <toby.hocking@r-project.org>
Diff between atime versions 2024.10.5 dated 2024-10-11 and 2024.11.15 dated 2024-11-18
DESCRIPTION | 9 MD5 | 90 ++- NAMESPACE | 44 - NEWS | 324 +++++++------ R/atime.R | 548 ++++++++++++----------- R/predict.R | 236 +++++----- R/references.R | 369 +++++++-------- R/test.R | 618 +++++++++++++------------- R/versions.R | 380 ++++++++-------- build/vignette.rds |binary inst/doc/Custom_Plots.R | 144 +++--- inst/doc/Custom_Plots.Rmd | 200 ++++---- inst/doc/Custom_Plots.html | 498 ++++++++++----------- inst/doc/Custom_References.R | 134 ++--- inst/doc/Custom_References.Rmd | 284 ++++++------ inst/doc/Custom_References.html | 621 +++++++++++++------------- inst/doc/Custom_Units.R | 138 ++--- inst/doc/Custom_Units.Rmd | 320 ++++++------- inst/doc/Custom_Units.html | 643 +++++++++++++-------------- inst/doc/cum_median.R | 62 +- inst/doc/cum_median.Rmd | 104 ++-- inst/doc/cum_median.html | 408 ++++++++--------- inst/doc/regex.R | 128 ++--- inst/doc/regex.Rmd | 192 ++++---- inst/doc/regex.html | 533 +++++++++++----------- inst/doc/sparse.R |only inst/doc/sparse.Rmd |only inst/doc/sparse.html |only inst/example_tests.R | 82 +-- inst/global_edit.R | 82 +-- man/atime.Rd | 141 ++---- man/atime_grid.Rd | 184 ++++--- man/atime_pkg.Rd | 188 ++++---- man/atime_test.Rd | 128 ++--- man/atime_test_list.Rd | 164 +++--- man/atime_versions.Rd | 178 +++---- man/atime_versions_exprs.Rd | 174 +++---- man/atime_versions_remove.Rd | 26 - man/glob_find_replace.Rd | 38 - man/references_best.Rd | 131 ++--- tests/testthat.R | 2 tests/testthat/test-CRAN.R | 938 +++++++++++++++++++++------------------- vignettes/Custom_Plots.Rmd | 200 ++++---- vignettes/Custom_References.Rmd | 284 ++++++------ vignettes/Custom_Units.Rmd | 320 ++++++------- vignettes/cum_median.Rmd | 104 ++-- vignettes/regex.Rmd | 192 ++++---- vignettes/sparse.Rmd |only 48 files changed, 5336 insertions(+), 5247 deletions(-)
Title: Text Mining Package
Description: A framework for text mining applications within R.
Author: Ingo Feinerer [aut] ,
Kurt Hornik [aut, cre] ,
Artifex Software, Inc. [ctb, cph]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tm versions 0.7-14 dated 2024-08-13 and 0.7-15 dated 2024-11-18
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- build/partial.rdb |binary build/vignette.rds |binary data/acq.rda |binary data/crude.rda |binary inst/NEWS.Rd | 7 +++++++ inst/doc/extensions.pdf |binary inst/doc/tm.pdf |binary man/hpc.Rd | 22 +++++++++++----------- man/matrix.Rd | 4 ++-- man/plot.Rd | 4 ++-- 12 files changed, 37 insertions(+), 30 deletions(-)
Title: Computing MSPE Estimates in Small Area Estimation
Description: Compute various common mean squared predictive error (MSPE) estimators, as well as several existing variance component predictors as a byproduct, for FH model (Fay and Herriot, 1979) and NER model (Battese et al., 1988) in small area estimation.
Author: Peiwen Xiao [aut, cre],
Xiaohui Liu [aut],
Yu Zhang [aut],
Yuzi Liu [aut],
Jiming Jiang [ths]
Maintainer: Peiwen Xiao <2569613200@qq.com>
Diff between saeMSPE versions 1.2 dated 2022-10-21 and 1.3 dated 2024-11-18
DESCRIPTION | 20 - MD5 | 56 +-- NAMESPACE | 15 R/RcppExports.R | 40 +- R/mspeFHlin.R | 154 +++++++- R/mspeNERlin.R | 100 ++++- man/mspeFHdb.Rd | 38 +- man/mspeFHjack.Rd | 38 +- man/mspeFHlin.Rd | 42 +- man/mspeFHpb.Rd | 36 + man/mspeFHsumca.Rd | 38 +- man/mspeNERdb.Rd | 111 +++--- man/mspeNERjack.Rd | 107 +++-- man/mspeNERlin.Rd | 117 +++--- man/mspeNERpb.Rd | 105 +++-- man/mspeNERsumca.Rd | 109 +++--- man/saeMSPE-package.Rd | 2 man/varfh.Rd | 45 +- man/varner.Rd | 100 +++-- src/Makevars | 11 src/Makevars.win | 11 src/RcppExports.cpp | 140 ++++--- src/saeMSPE-function.cpp | 853 +++++++++++++++++++++++++++++++++-------------- tests |only 24 files changed, 1544 insertions(+), 744 deletions(-)
Title: 'OpenStreetMap' API
Description: Interface to 'OpenStreetMap API' for fetching and saving data
from/to the 'OpenStreetMap' database
(<https://wiki.openstreetmap.org/wiki/API_v0.6>).
Author: Joan Maspons [aut, cre, cph] ,
Jon Harmon [rev] ,
Carlos Camara [rev]
Maintainer: Joan Maspons <joanmaspons@gmail.com>
Diff between osmapiR versions 0.2.1 dated 2024-09-05 and 0.2.2 dated 2024-11-18
osmapiR-0.2.1/osmapiR/tests/testthat/mock_query_changesets/osm.org/api/0.6/changesets-190728.xml |only osmapiR-0.2.2/osmapiR/DESCRIPTION | 10 osmapiR-0.2.2/osmapiR/MD5 | 79 +- osmapiR-0.2.2/osmapiR/NEWS.md | 9 osmapiR-0.2.2/osmapiR/R/osm_get_changesets.R | 88 +- osmapiR-0.2.2/osmapiR/R/osm_get_gpx_metadata.R | 16 osmapiR-0.2.2/osmapiR/R/osm_get_notes.R | 42 - osmapiR-0.2.2/osmapiR/R/osm_get_points_gps.R | 26 osmapiR-0.2.2/osmapiR/R/osm_get_user_details.R | 46 - osmapiR-0.2.2/osmapiR/R/osm_query_changesets.R | 98 +-- osmapiR-0.2.2/osmapiR/R/osmapiR_connection.R | 8 osmapiR-0.2.2/osmapiR/R/osmapi_changesets.R | 301 +++++----- osmapiR-0.2.2/osmapiR/R/osmapi_elements.R | 83 +- osmapiR-0.2.2/osmapiR/R/osmapi_gps_traces.R | 112 +-- osmapiR-0.2.2/osmapiR/R/osmapi_map_notes.R | 84 +- osmapiR-0.2.2/osmapiR/R/osmapi_miscellaneous.R | 58 - osmapiR-0.2.2/osmapiR/R/osmapi_user_data.R | 250 ++++---- osmapiR-0.2.2/osmapiR/inst/CITATION | 7 osmapiR-0.2.2/osmapiR/inst/WORDLIST | 6 osmapiR-0.2.2/osmapiR/inst/doc/how_to_edit_gps_traces.html | 4 osmapiR-0.2.2/osmapiR/inst/doc/how_to_edit_osm.html | 4 osmapiR-0.2.2/osmapiR/inst/doc/osmapiR.html | 196 +++--- osmapiR-0.2.2/osmapiR/man/osm_details_logged_user.Rd | 44 - osmapiR-0.2.2/osmapiR/man/osm_get_changesets.Rd | 88 +- osmapiR-0.2.2/osmapiR/man/osm_get_gpx_metadata.Rd | 16 osmapiR-0.2.2/osmapiR/man/osm_get_notes.Rd | 42 - osmapiR-0.2.2/osmapiR/man/osm_get_points_gps.Rd | 26 osmapiR-0.2.2/osmapiR/man/osm_get_user_details.Rd | 46 - osmapiR-0.2.2/osmapiR/man/osm_history_object.Rd | 2 osmapiR-0.2.2/osmapiR/man/osm_list_gpxs.Rd | 20 osmapiR-0.2.2/osmapiR/man/osm_permissions.Rd | 1 osmapiR-0.2.2/osmapiR/man/osm_preferences_user.Rd | 8 osmapiR-0.2.2/osmapiR/man/osm_query_changesets.Rd | 88 +- osmapiR-0.2.2/osmapiR/man/osm_read_bbox_notes.Rd | 42 - osmapiR-0.2.2/osmapiR/man/osm_redaction_object.Rd | 5 osmapiR-0.2.2/osmapiR/man/osm_update_object.Rd | 2 osmapiR-0.2.2/osmapiR/tests/testthat/_snaps/changesets.md | 18 osmapiR-0.2.2/osmapiR/tests/testthat/mock_query_changesets/osm.org/api/0.6/changesets-b87e70.xml |only osmapiR-0.2.2/osmapiR/tests/testthat/mock_query_changesets/osm.org/api/0.6/changesets-fce339.xml |only osmapiR-0.2.2/osmapiR/tests/testthat/test-changesets.R | 10 osmapiR-0.2.2/osmapiR/tests/testthat/test-tags_list-wide.R | 8 osmapiR-0.2.2/osmapiR/tests/testthat/test-user_data.R | 2 42 files changed, 1083 insertions(+), 912 deletions(-)
Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines spatial data types and supports geometrical operations
on them. Data types include point patterns, windows (domains),
pixel images, line segment patterns, tessellations and hyperframes.
Capabilities include creation and manipulation of data
(using command line or graphical interaction),
plotting, geometrical operations (rotation, shift, rescale,
affine transformation), convex hull, discretisation and
pixellation, Dirichlet tessellation, Delaunay triangulation,
pairwise distances, nearest-neighbour distances,
distance transform, morphological operations
(erosion, dilation, closing, opening), quadrat counting,
geometrical measurement, geometrical covariance,
colour maps, calculus on spatial domains,
Gaussian blur, level sets of images, transects of images,
intersections between objects, minimum distance matching.
(Excludes spatial data on a network, which are supported by
the package 'spatstat.linnet'.)
Author: Adrian Baddeley [aut, cre, cph]
,
Rolf Turner [aut, cph] ,
Ege Rubak [aut, cph] ,
Tilman Davies [ctb],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Greg McSwiggan [ctb, cph],
Sebastian Meyer [ctb, cph],
Jens Oehlschlaegel [ctb, cph],
Suman Rakshit [ctb], [...truncated...]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.geom versions 3.3-3 dated 2024-09-18 and 3.3-4 dated 2024-11-18
DESCRIPTION | 18 ++--- MD5 | 33 +++++----- NAMESPACE | 3 NEWS | 33 ++++++++++ R/options.R | 36 +++++++++-- R/persp.ppp.R | 92 +++++++++++++++++++++++++---- R/quadscheme.R | 7 -- R/tess.R | 129 +++++++++++++++++++++++++++++++----------- R/window.R | 16 +++-- inst/doc/packagesizes.txt | 1 inst/info/packagesizes.txt | 1 man/default.image.colours.Rd |only man/marks.tess.Rd | 8 +- man/persp.ppp.Rd | 53 +++++++++++++++-- man/pixelquad.Rd | 6 + man/plot.im.Rd | 7 +- man/spatstat.geom-internal.Rd | 2 man/tess.Rd | 3 18 files changed, 352 insertions(+), 96 deletions(-)
Title: Interface R to MPFR - Multiple Precision Floating-Point Reliable
Description: Arithmetic (via S4 classes and methods) for
arbitrary precision floating point numbers, including transcendental
("special") functions. To this end, the package interfaces to
the 'LGPL' licensed 'MPFR' (Multiple Precision Floating-Point Reliable) Library
which itself is based on the 'GMP' (GNU Multiple Precision) Library.
Author: Martin Maechler [aut, cre] ,
Richard M. Heiberger [ctb] , *Bin, *Dec),
John C. Nash [ctb] , origin of unirootR),
Hans W. Borchers [ctb] ; origin of
hjkMpfr),
Mikael Jagan [ctb]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between Rmpfr versions 0.9-5 dated 2024-01-21 and 1.0-0 dated 2024-11-18
Rmpfr-0.9-5/Rmpfr/tests/bit-repr.Rout.save |only Rmpfr-1.0-0/Rmpfr/DESCRIPTION | 21 + Rmpfr-1.0-0/Rmpfr/MD5 | 61 ++--- Rmpfr-1.0-0/Rmpfr/NAMESPACE | 1 Rmpfr-1.0-0/Rmpfr/R/AllClasses.R | 7 Rmpfr-1.0-0/Rmpfr/R/as.R | 5 Rmpfr-1.0-0/Rmpfr/R/formatHex.R | 2 Rmpfr-1.0-0/Rmpfr/R/gmp-convert.R | 78 ++++++ Rmpfr-1.0-0/Rmpfr/R/special-fun.R | 13 - Rmpfr-1.0-0/Rmpfr/TODO | 3 Rmpfr-1.0-0/Rmpfr/build/partial.rdb |binary Rmpfr-1.0-0/Rmpfr/build/vignette.rds |binary Rmpfr-1.0-0/Rmpfr/inst/NEWS.Rd | 40 +++ Rmpfr-1.0-0/Rmpfr/inst/doc/Maechler_useR_2011-abstr.pdf |binary Rmpfr-1.0-0/Rmpfr/inst/doc/Rmpfr-pkg.pdf |binary Rmpfr-1.0-0/Rmpfr/inst/doc/log1mexp-note.pdf |binary Rmpfr-1.0-0/Rmpfr/man/asNumeric-methods.Rd | 2 Rmpfr-1.0-0/Rmpfr/man/gmp-conversions.Rd | 16 - Rmpfr-1.0-0/Rmpfr/man/mpfr-class.Rd | 2 Rmpfr-1.0-0/Rmpfr/man/mpfr-utils.Rd | 2 Rmpfr-1.0-0/Rmpfr/man/mpfr.Rd | 3 Rmpfr-1.0-0/Rmpfr/man/mpfrArray.Rd | 4 Rmpfr-1.0-0/Rmpfr/man/mpfrMatrix-utils.Rd | 4 Rmpfr-1.0-0/Rmpfr/man/num2bigq.Rd |only Rmpfr-1.0-0/Rmpfr/man/pbetaI.Rd | 27 +- Rmpfr-1.0-0/Rmpfr/man/utils.Rd | 2 Rmpfr-1.0-0/Rmpfr/src/Ops.c | 28 +- Rmpfr-1.0-0/Rmpfr/src/Rmpfr_utils.h | 11 Rmpfr-1.0-0/Rmpfr/src/convert.c | 180 +++++++++------- Rmpfr-1.0-0/Rmpfr/src/utils.c | 14 - Rmpfr-1.0-0/Rmpfr/tests/lowlevel.R | 3 Rmpfr-1.0-0/Rmpfr/tests/special-fun-dgamma.R |only Rmpfr-1.0-0/Rmpfr/tests/special-fun-ex.R | 43 --- 33 files changed, 350 insertions(+), 222 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-05-19 0.9.9
2023-02-15 0.9.8
2022-12-06 0.9.7
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-11-04 0.2.2
2023-09-28 0.2.1
2020-10-02 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-02-21 1.4.1
2023-01-16 1.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-11-04 0.2.1
2024-10-29 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-13 1.4.1
2018-05-15 1.4.0
2018-01-25 1.3.2
2018-01-11 1.3.1
2017-10-25 1.3.0
2017-07-24 1.2.0
2017-05-23 1.1.1
2016-11-01 1.0.3
Title: Database Interface and MariaDB Driver
Description: Implements a DBI-compliant interface to MariaDB
(<https://mariadb.org/>) and MySQL (<https://www.mysql.com/>)
databases.
Author: Kirill Mueller [aut, cre] ,
Jeroen Ooms [aut] ,
David James [aut],
Saikat DebRoy [aut],
Hadley Wickham [aut],
Jeffrey Horner [aut],
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Mueller <kirill@cynkra.com>
Diff between RMariaDB versions 1.3.2 dated 2024-05-27 and 1.3.3 dated 2024-11-18
DESCRIPTION | 8 ++--- MD5 | 17 +++++------ NEWS.md | 11 +++++++ R/dbQuoteIdentifier_MariaDBConnection_Id.R | 7 +++- man/Client-flags.Rd | 2 - man/dbConnect-MariaDBDriver-method.Rd | 2 - man/mariadb-tables.Rd | 2 - man/query.Rd | 10 +++--- src/DbConnection.cpp | 13 +++++++- tests/testthat/test-dbQuoteIdentifier_MariaDBConnection_Id.R |only 10 files changed, 50 insertions(+), 22 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
Doug Bates [aut] ,
Binxiang Ni [aut],
Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 14.0.2-1 dated 2024-09-12 and 14.2.0-1 dated 2024-11-18
ChangeLog | 31 DESCRIPTION | 10 MD5 | 152 +-- build/partial.rdb |binary build/vignette.rds |binary configure | 18 configure.ac | 2 inst/NEWS.Rd | 17 inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/RcppArmadillo/interface/RcppArmadilloAs.h | 26 inst/include/armadillo_bits/Base_bones.hpp | 8 inst/include/armadillo_bits/CubeToMatOp_bones.hpp | 3 inst/include/armadillo_bits/Cube_bones.hpp | 9 inst/include/armadillo_bits/Gen_bones.hpp | 3 inst/include/armadillo_bits/Glue_bones.hpp | 3 inst/include/armadillo_bits/Glue_meat.hpp | 13 inst/include/armadillo_bits/Mat_bones.hpp | 11 inst/include/armadillo_bits/Mat_meat.hpp | 13 inst/include/armadillo_bits/Op_bones.hpp | 3 inst/include/armadillo_bits/Op_meat.hpp | 13 inst/include/armadillo_bits/Proxy.hpp | 16 inst/include/armadillo_bits/SpBase_bones.hpp | 8 inst/include/armadillo_bits/SpToDGlue_bones.hpp | 3 inst/include/armadillo_bits/SpToDOp_bones.hpp | 3 inst/include/armadillo_bits/arma_forward.hpp | 2 inst/include/armadillo_bits/arma_version.hpp | 6 inst/include/armadillo_bits/auxlib_bones.hpp | 36 inst/include/armadillo_bits/auxlib_meat.hpp | 777 ++++++++++++++-- inst/include/armadillo_bits/compiler_check.hpp | 6 inst/include/armadillo_bits/compiler_setup.hpp | 8 inst/include/armadillo_bits/config.hpp | 25 inst/include/armadillo_bits/def_lapack.hpp | 112 ++ inst/include/armadillo_bits/diagview_bones.hpp | 3 inst/include/armadillo_bits/diagview_meat.hpp | 53 - inst/include/armadillo_bits/eGlue_bones.hpp | 3 inst/include/armadillo_bits/eGlue_meat.hpp | 11 inst/include/armadillo_bits/eOp_bones.hpp | 3 inst/include/armadillo_bits/eOp_meat.hpp | 13 inst/include/armadillo_bits/fn_misc.hpp | 90 + inst/include/armadillo_bits/fn_powext.hpp | 16 inst/include/armadillo_bits/glue_solve_bones.hpp | 3 inst/include/armadillo_bits/glue_solve_meat.hpp | 93 + inst/include/armadillo_bits/glue_times_meat.hpp | 14 inst/include/armadillo_bits/gmm_diag_meat.hpp | 4 inst/include/armadillo_bits/gmm_full_meat.hpp | 4 inst/include/armadillo_bits/mtGlue_bones.hpp | 3 inst/include/armadillo_bits/mtGlue_meat.hpp | 13 inst/include/armadillo_bits/mtOp_bones.hpp | 5 inst/include/armadillo_bits/mtOp_meat.hpp | 13 inst/include/armadillo_bits/op_cond_meat.hpp | 11 inst/include/armadillo_bits/op_expmat_meat.hpp | 18 inst/include/armadillo_bits/op_inv_gen_meat.hpp | 48 inst/include/armadillo_bits/op_inv_spd_meat.hpp | 8 inst/include/armadillo_bits/op_log_det_meat.hpp | 2 inst/include/armadillo_bits/op_logmat_meat.hpp | 6 inst/include/armadillo_bits/op_pinv_meat.hpp | 12 inst/include/armadillo_bits/op_powmat_meat.hpp | 43 inst/include/armadillo_bits/op_rank_meat.hpp | 12 inst/include/armadillo_bits/op_rcond_meat.hpp | 25 inst/include/armadillo_bits/op_sqrtmat_meat.hpp | 6 inst/include/armadillo_bits/operator_minus.hpp | 102 -- inst/include/armadillo_bits/operator_plus.hpp | 103 -- inst/include/armadillo_bits/subview_bones.hpp | 7 inst/include/armadillo_bits/subview_cube_each_bones.hpp | 3 inst/include/armadillo_bits/subview_each_bones.hpp | 3 inst/include/armadillo_bits/subview_elem1_bones.hpp | 3 inst/include/armadillo_bits/subview_elem1_meat.hpp | 82 - inst/include/armadillo_bits/subview_elem2_bones.hpp | 3 inst/include/armadillo_bits/subview_elem2_meat.hpp | 13 inst/include/armadillo_bits/subview_meat.hpp | 13 inst/include/armadillo_bits/sym_helper.hpp | 148 +-- inst/include/armadillo_bits/traits.hpp | 24 inst/include/armadillo_bits/translate_lapack.hpp | 144 ++ inst/include/armadillo_bits/typedef_elem.hpp | 5 inst/include/armadillo_bits/unwrap.hpp | 12 inst/tinytest/test_rng.R | 3 77 files changed, 1764 insertions(+), 776 deletions(-)
Title: Students' Performance Dataset in Physics Education Research
(SPHERE)
Description: A multidimensional dataset of students' performance assessment in high school physics. The SPHERE dataset was collected from 497 students in four public high schools specifically measuring their conceptual understanding, scientific ability, and attitude toward physics [see Santoso et al. (2024) <doi:10.17632/88d7m2fv7p.1>]. The data collection was conducted using some research based assessments established by the physics education research community. They include the Force Concept Inventory, the Force and Motion Conceptual Evaluation, the Rotational and Rolling Motion Conceptual Survey, the Fluid Mechanics Concept Inventory, the Mechanical Waves Conceptual Survey, the Thermal Concept Evaluation, the Survey of Thermodynamic Processes and First and Second Laws, the Scientific Abilities Assessment Rubrics, and the Colorado Learning Attitudes about Science Survey. Students' attributes related to gender, age, socioeconomic status, domicile, literacy, physics identity, and test results [...truncated...]
Author: Purwoko Haryadi Santoso [aut, cre]
,
Edi Istiyono [ctb],
Haryanto Haryanto [ctb]
Maintainer: Purwoko Haryadi Santoso <purwokoharyadisantoso@unsulbar.ac.id>
Diff between spheredata versions 0.1.1 dated 2024-10-12 and 0.1.2 dated 2024-11-18
DESCRIPTION | 6 +- MD5 | 72 ++++++++++++++++++--------- NAMESPACE | 3 + R/aikenV.R |only R/binary.R | 9 +-- R/lawsheCVR.R |only data/CLASScontentvalidity.rda |only data/FCIcontentvalidity.rda |only data/FMCEcontentvalidity.rda |only data/FMCIcontentvalidity.rda |only data/MWCScontentvalidity.rda |only data/RRMCScontentvalidity.rda |only data/SAAR.rda |binary data/SAARcontentvalidity.rda |only data/STPFASLcontentvalidity.rda |only data/TCEcontentvalidity.rda |only man/CLASS.Rd | 83 ++++++++++++++++---------------- man/CLASScontentvalidity.Rd |only man/FCI.Rd | 69 +++++++++++++------------- man/FCIcontentvalidity.Rd |only man/FCIkey.Rd | 15 ++--- man/FMCE.Rd | 103 ++++++++++++++++++++-------------------- man/FMCEcontentvalidity.Rd |only man/FMCEkey.Rd | 15 ++--- man/FMCI.Rd | 71 ++++++++++++++------------- man/FMCIcontentvalidity.Rd |only man/FMCIkey.Rd | 13 +---- man/MWCS.Rd | 53 ++++++++++---------- man/MWCScontentvalidity.Rd |only man/MWCSkey.Rd | 13 +---- man/RRMCS.Rd | 69 +++++++++++++------------- man/RRMCScontentvalidity.Rd |only man/RRMCSkey.Rd | 15 ++--- man/SAAR.Rd | 41 ++++++++------- man/SAARcontentvalidity.Rd |only man/STPFASL.Rd | 75 +++++++++++++++-------------- man/STPFASLcontentvalidity.Rd |only man/STPFASLkey.Rd | 15 ++--- man/TCE.Rd | 67 ++++++++++++-------------- man/TCEcontentvalidity.Rd |only man/TCEkey.Rd | 15 ++--- man/aikenV.Rd |only man/binary.Rd | 5 + man/demographic.Rd | 11 ++-- man/lawsheCVR.Rd |only man/literacy.Rd | 7 +- man/physicsidentity.Rd | 7 +- man/teachersjudgment.Rd | 7 +- 48 files changed, 448 insertions(+), 411 deletions(-)