Title: Identification of Somatic Mutation-Driven Immune Cells
Description: A computing tool is developed to automated identify somatic mutation-driven immune cells. The operation modes including: i) inferring the relative abundance matrix of tumor-infiltrating immune cells and integrating it with a particular gene mutation status, ii) detecting differential immune cells with respect to the gene mutation status and converting the abundance matrix of significant differential immune cell into two binary matrices (one for up-regulated and one for down-regulated), iii) identifying somatic mutation-driven immune cells by comparing the gene mutation status with each immune cell in the binary matrices across all samples, and iv) visualization of immune cell abundance of samples in different mutation status..
Author: Baotong Zheng, Junwei Han
Maintainer: Junwei Han <hanjunwei1981@163.com>
Diff between SMDIC versions 0.1.4 dated 2023-08-29 and 0.1.5 dated 2024-01-11
DESCRIPTION | 8 MD5 | 51 +- NAMESPACE | 83 +-- R/GetExampleData.R | 88 +-- R/SMDIC-package.R | 18 R/data.R |only R/exp2cell.R | 959 ++++++++++++++++++++--------------------- R/getEnvironmentData.R | 18 R/maf2matrix.R | 132 ++--- R/mutcorcell.R | 580 ++++++++++++------------ R/visualization.R | 730 +++++++++++++++---------------- README.md |only build/vignette.rds |binary inst/CITATION |only inst/doc/SMDIC.html | 21 inst/extdata/LM22.txt | 1096 +++++++++++++++++++++++------------------------ inst/extdata/example.maf | 998 +++++++++++++++++++++--------------------- man/GetExampleData.Rd | 40 - man/SMDIC-package.Rd | 18 man/envData.Rd | 44 - man/exp2cell.Rd | 87 +-- man/figures/manual.pdf |binary man/gene2cellsummary.Rd | 56 +- man/heatmapcell.Rd | 118 ++--- man/maf2matrix.Rd | 56 +- man/mutcellsummary.Rd | 68 +- man/mutcorcell.Rd | 104 ++-- man/survcell.Rd | 130 ++--- 28 files changed, 2745 insertions(+), 2758 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-11 1.0
Title: Compare Data Frames
Description: A toolset for interactively exploring the differences between two data frames.
Author: Ryan Dickerson [aut, cre, cph]
Maintainer: Ryan Dickerson <fresh.tent5866@fastmail.com>
Diff between versus versions 0.2.1 dated 2023-12-11 and 0.3.0 dated 2024-01-11
versus-0.2.1/versus/R/slice.R |only versus-0.2.1/versus/tests/testthat/_snaps/slice.md |only versus-0.2.1/versus/tests/testthat/test-slice.R |only versus-0.3.0/versus/DESCRIPTION | 11 versus-0.3.0/versus/MD5 | 59 +- versus-0.3.0/versus/NAMESPACE | 26 versus-0.3.0/versus/NEWS.md | 15 versus-0.3.0/versus/R/compare.R | 163 +++-- versus-0.3.0/versus/R/example-data.R | 6 versus-0.3.0/versus/R/get-diff-rows.R |only versus-0.3.0/versus/R/helpers-by.R | 10 versus-0.3.0/versus/R/helpers.R | 83 ++ versus-0.3.0/versus/R/slice-diffs.R |only versus-0.3.0/versus/R/slice-unmatched.R |only versus-0.3.0/versus/R/value-diffs.R | 80 +- versus-0.3.0/versus/R/versus.R | 9 versus-0.3.0/versus/R/weave-diffs.R |only versus-0.3.0/versus/README.md | 210 ++++--- versus-0.3.0/versus/data/example_df_a.rda |binary versus-0.3.0/versus/data/example_df_b.rda |binary versus-0.3.0/versus/man/compare.Rd | 13 versus-0.3.0/versus/man/figures/logo.png |binary versus-0.3.0/versus/man/slice_diffs.Rd | 37 - versus-0.3.0/versus/man/slice_unmatched.Rd |only versus-0.3.0/versus/man/value-diffs.Rd | 9 versus-0.3.0/versus/man/weave_diffs.Rd |only versus-0.3.0/versus/src |only versus-0.3.0/versus/tests/testthat/_snaps/compare.md | 321 +++++++---- versus-0.3.0/versus/tests/testthat/_snaps/slice-diffs.md |only versus-0.3.0/versus/tests/testthat/_snaps/slice-unmatched.md |only versus-0.3.0/versus/tests/testthat/_snaps/value-diffs.md | 22 versus-0.3.0/versus/tests/testthat/_snaps/weave-diffs.md |only versus-0.3.0/versus/tests/testthat/test-compare.R | 84 ++ versus-0.3.0/versus/tests/testthat/test-get-diff-rows.R |only versus-0.3.0/versus/tests/testthat/test-helpers.R | 19 versus-0.3.0/versus/tests/testthat/test-slice-diffs.R |only versus-0.3.0/versus/tests/testthat/test-slice-unmatched.R |only versus-0.3.0/versus/tests/testthat/test-value-diffs.R | 12 versus-0.3.0/versus/tests/testthat/test-weave-diffs.R |only 39 files changed, 771 insertions(+), 418 deletions(-)
Title: Simulation and Estimation for Branching Processes
Description: Simulation and parameter estimation of multitype Bienayme - Galton - Watson processes.
Author: Camilo Jose Torres-Jimenez <cjtorresj@unal.edu.co>
Maintainer: Camilo Jose Torres-Jimenez <cjtorresj@unal.edu.co>
Diff between Branching versions 0.9.6 dated 2023-12-06 and 0.9.7 dated 2024-01-11
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/BGWM.covar.R | 2 +- R/BGWM.covar.estim.R | 2 +- R/BGWM.mean.R | 2 +- R/BGWM.mean.estim.R | 2 +- R/rBGWM.R | 2 +- inst/CITATION | 38 +++++++++++++++++++------------------- man/BGWM.covar.Rd | 2 +- man/BGWM.covar.estim.Rd | 2 +- man/BGWM.mean.Rd | 2 +- man/BGWM.mean.estim.Rd | 2 +- man/rBGWM.Rd | 2 +- 13 files changed, 45 insertions(+), 45 deletions(-)
Title: Tools to Standardize Phytoplankton Taxonomic Data and Perform
Functional Group Classifications
Description: Functions that facilitate the use of accepted taxonomic nomenclature, collection of
functional trait data, and assignment of functional group classifications to phytoplankton
species. Possible classifications include Morpho-functional group (MFG; Salmaso et al. 2015
<doi:10.1111/fwb.12520>) and CSR (Reynolds 1988; Functional morphology and the
adaptive strategies of phytoplankton. In C.D. Sandgren (ed). Growth and reproductive
strategies of freshwater phytoplankton, 388-433. Cambridge University Press, New York).
Versions 2.0.0 and later includes new functions for querying the
algaebase online taxonomic database (www.algaebase.org), however these functions require
a valid API key that must be acquired from the algaebase admin.
Note that none of the algaeClassify authors are affiliated with algaebase in any way. Taxonomic
names can also be checked against a variety of taxonomic databases using
the geographic name resolution service (GNRS) via wrapper functions for the taxize packa [...truncated...]
Author: Vijay Patil [aut, cre],
Torsten Seltmann [aut],
Nico Salmaso [aut],
Orlane Anneville [aut],
Marc Lajeunesse [aut],
Dietmar Straile [aut]
Maintainer: Vijay Patil <vpatil@usgs.gov>
Diff between algaeClassify versions 2.0.1 dated 2023-11-21 and 2.0.2 dated 2024-01-11
CHANGELOG | 4 ++++ DESCRIPTION | 15 ++++++++------- MD5 | 24 ++++++++++++------------ NEWS.md | 4 +++- R/genus_search_itis.r | 24 +++++++++++++++++++++--- R/gnr_simple_df.r | 20 ++++++++++---------- R/itis_search_df.r | 43 +++++++++++++++++++++++++++++++------------ R/species_search_itis.r | 21 ++++++++++++++++++++- README.md | 2 +- man/genus_search_itis.Rd | 2 +- man/gnr_simple_df.Rd | 12 ++++++------ man/itis_search_df.Rd | 16 +++++++++------- man/species_search_itis.Rd | 2 +- 13 files changed, 127 insertions(+), 62 deletions(-)
Title: Calculate Federal and State Income Taxes in the United States
Description: Calculates federal and state income taxes in the United States. It acts as a wrapper
to the NBER's TAXSIM 35 (<http://taxsim.nber.org/taxsim35/>) tax simulator. TAXSIM 35 conducts
the calculations, while 'usincometaxes' prepares the data for TAXSIM 35, sends the data to
TAXSIM 35's server or communicates with the Web Assembly file, retrieves the data, and places it
into a data frame. All without the user worrying about this process.
Author: Shane Orr [aut, cre, cph],
Thomas Wells [ctb]
Maintainer: Shane Orr <shane.j.orr@gmail.com>
Diff between usincometaxes versions 0.7.0 dated 2023-08-19 and 0.7.1 dated 2024-01-11
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/utils_check_data.R | 4 ++-- README.md | 8 ++++---- inst/doc/send-data-to-taxsim.R | 2 +- inst/doc/taxsim-input.R | 2 +- inst/doc/taxsim-output.R | 2 +- inst/doc/using-usincometaxes.R | 2 +- inst/doc/wasm.R | 2 +- tests/testthat/test-calculate_taxes.R | 2 +- 11 files changed, 29 insertions(+), 25 deletions(-)
Title: Functions for Analyzing and Plotting Estuary Monitoring Data
Description: Tools for performing routine analysis and plotting tasks with environmental
data from the System Wide Monitoring Program of the National Estuarine
Research Reserve System <https://cdmo.baruch.sc.edu/>. This package builds
on the functionality of the 'SWMPr' package <https://cran.r-project.org/package=SWMPr>,
which is used to retrieve and organize the data. The combined set of tools
address common challenges associated with continuous time series data
for environmental decision making, and are intended for use in annual reporting activities.
References:
Beck, Marcus W. (2016) <ISSN 2073-4859><https://journal.r-project.org/archive/2016-1/beck.pdf>
Rudis, Bob (2014) <https://rud.is/b/2014/11/16/moving-the-earth-well-alaska-hawaii-with-r/>.
United States Environmental Protection Agency (2015) <https://cfpub.epa.gov/si/si_public_record_Report.cfm?Lab=OWOW&dirEntryId=327030>.
Author: Julie Padilla [aut, ctb],
Marcus Beck [ctb],
Kimberly Cressman [ctb],
Dave Eslinger [aut, ctb],
Kirk Waters [ctb],
Bob Rudis [ctb],
Davis Vaughan [ctb],
Matt Dornback [aut, cre]
Maintainer: Matt Dornback <matt.dornback@noaa.gov>
Diff between SWMPrExtension versions 2.2.5 dated 2024-01-11 and 2.2.5.1 dated 2024-01-11
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/base_map.R | 2 +- man/base_map.Rd | 2 +- 4 files changed, 8 insertions(+), 8 deletions(-)
More information about SWMPrExtension at CRAN
Permanent link
Title: Objects to Simulate Survival Times
Description: Generate objects that simulate survival times. Random values for the distributions are generated using the method described by Bender (2003) <https://epub.ub.uni-muenchen.de/id/eprint/1716> and Leemis (1987) in Operations Research, 35(6), 892–894.
Author: Aponte John [aut, cre, cph]
Maintainer: Aponte John <john.j.aponte@gmail.com>
Diff between survobj versions 1.0 dated 2023-12-01 and 2.0.0 dated 2024-01-11
DESCRIPTION | 10 - MD5 | 68 ++++---- NAMESPACE | 14 + NEWS.md | 21 ++ R/exponential_class.R | 13 + R/gompertz_class.R | 15 + R/loglogistic_class.R |only R/lognormal_class.R |only R/piecewise_exponential_class.R | 47 +++-- R/survival_class.R | 275 ++++++++++++++++++++++++++++++++- R/survobj-package.R | 4 R/weibull_class.R | 21 ++ README.md | 17 +- build/vignette.rds |binary inst/WORDLIST | 5 inst/doc/example_distributions.R | 10 + inst/doc/example_distributions.Rmd | 52 ++++-- inst/doc/example_distributions.html | 69 ++++++-- inst/doc/simulation_distributions.R |only inst/doc/simulation_distributions.Rmd |only inst/doc/simulation_distributions.html |only inst/doc/simulation_trials.R | 2 inst/doc/simulation_trials2.R | 2 inst/doc/simulation_trials2.Rmd | 4 inst/doc/simulation_trials2.html | 5 man/SURVIVAL.Rd | 42 ++++- man/s_loglogistic.Rd |only man/s_lognormal.Rd |only man/s_piecewise.Rd | 6 man/s_weibull.Rd | 2 man/survobj-package.Rd | 2 tests/testthat/test_s_exponential.R | 25 ++- tests/testthat/test_s_loglogistic.R |only tests/testthat/test_s_lognormal.R |only tests/testthat/test_s_piecewise.R | 2 tests/testthat/test_s_weibull.R | 30 +++ vignettes/example_distributions.Rmd | 52 ++++-- vignettes/references.bib | 12 + vignettes/simulation_distributions.Rmd |only vignettes/simulation_trials2.Rmd | 4 40 files changed, 712 insertions(+), 119 deletions(-)
Title: River Network Distance Computation and Applications
Description: Reads river network shape files and computes network distances.
Also included are a variety of computation and graphical tools designed
for fisheries telemetry research, such as minimum home range, kernel density
estimation, and clustering analysis using empirical k-functions with
a bootstrap envelope. Tools are also provided for editing the river
networks, meaning there is no reliance on external software.
Author: Matt Tyers [aut, cre]
Maintainer: Matt Tyers <matttyersstat@gmail.com>
Diff between riverdist versions 0.16.2 dated 2023-12-05 and 0.16.3 dated 2024-01-11
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/riverdist_1.R | 6 +++--- inst/doc/riverdist_vignette.html | 10 +++++----- man/riverdist-package.Rd | 4 ++-- 6 files changed, 23 insertions(+), 19 deletions(-)
Title: Quantifies Effects of Geo/Eco Distance on Genetic
Differentiation
Description: Provides functions that allow users to quantify the relative
contributions of geographic and ecological distances to empirical patterns of genetic
differentiation on a landscape. Specifically, we use a custom Markov chain
Monte Carlo (MCMC) algorithm, which is used to estimate the parameters of the
inference model, as well as functions for performing MCMC diagnosis and assessing
model adequacy.
Author: Gideon Bradburd
Maintainer: Gideon Bradburd <bradburd@umich.edu>
Diff between BEDASSLE versions 1.6 dated 2022-04-10 and 1.6.1 dated 2024-01-11
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- man/BEDASSLE-package.Rd | 14 +++----------- 3 files changed, 10 insertions(+), 18 deletions(-)
Title: Long-Short Term Memory for Time-Series Forecasting, Enhanced
Description: The LSTM (Long Short-Term Memory) model is a Recurrent Neural Network (RNN) based architecture that is widely used for time series forecasting. Customizable configurations for the model are allowed, improving the capabilities and usability of this model compared to other packages. This package is based on 'keras' and 'tensorflow' modules and the algorithm of Paul and Garai (2021) <doi:10.1007/s00500-021-06087-4>.
Author: Jaime Pizarroso Gonzalo [aut, ctb, cre],
Antonio Munoz San Roque [aut]
Maintainer: Jaime Pizarroso Gonzalo <jpizarroso@comillas.edu>
Diff between TSLSTMplus versions 1.0.1 dated 2023-11-27 and 1.0.2 dated 2024-01-11
DESCRIPTION | 10 - MD5 | 12 - R/TSLSTM.R | 330 ++++++++++++++++++++++++++++++++++++++--------- man/LSTMModel.Rd | 11 + man/predict.LSTMModel.Rd | 4 man/ts.lstm.Rd | 14 + man/ts.prepare.data.Rd | 1 7 files changed, 301 insertions(+), 81 deletions(-)
Title: Simulate and Diagnose (Generalized) Linear Models
Description: Simulate samples from populations with known covariate
distributions, generate response variables according to common linear and
generalized linear model families, draw from sampling distributions of
regression estimates, and perform visual inference on diagnostics from model
fits.
Author: Alex Reinhart [aut, cre]
Maintainer: Alex Reinhart <areinhar@stat.cmu.edu>
Diff between regressinator versions 0.1.2 dated 2023-08-11 and 0.1.3 dated 2024-01-11
DESCRIPTION | 8 MD5 | 51 +- NAMESPACE | 2 NEWS.md |only R/diagnose.R | 60 ++ R/model_utils.R | 52 ++ R/population.R | 14 R/residuals.R | 40 + README.md | 156 +++---- inst/doc/linear-regression-diagnostics.html | 26 - inst/doc/logistic-regression-diagnostics.html | 16 inst/doc/other-glm-diagnostics.html | 26 - inst/doc/regressinator.R | 11 inst/doc/regressinator.Rmd | 39 + inst/doc/regressinator.html | 422 ++++++++++----------- man/augment_longer.Rd | 20 man/check_data_arg.Rd |only man/factor_columns.Rd |only man/figures/README-example-regression-lineup-1.png |binary man/model_lineup.Rd | 24 + man/parametric_boot_distribution.Rd | 42 +- man/partial_residuals.Rd | 3 man/sampling_distribution.Rd | 26 + tests/testthat/test-diagnose.R | 36 + tests/testthat/test-model_utils.R | 15 tests/testthat/test-population.R | 4 tests/testthat/test-residuals.R | 33 + vignettes/regressinator.Rmd | 39 + 28 files changed, 747 insertions(+), 418 deletions(-)
Title: Fast Data Aggregation, Modification, and Filtering with Pipes
and 'data.table'
Description: Provides pipe-style interface for 'data.table'. Package preserves all 'data.table' features without
significant impact on performance. 'let' and 'take' functions are simplified interfaces for most common data
manipulation tasks. For example, you can write 'take(mtcars, mean(mpg), by = am)' for aggregation or
'let(mtcars, hp_wt = hp/wt, hp_wt_mpg = hp_wt/mpg)' for modification. Use 'take_if/let_if' for conditional
aggregation/modification. Additionally there are some conveniences such as automatic 'data.frame'
conversion to 'data.table'.
Author: Gregory Demin [aut, cre]
Maintainer: Gregory Demin <gdemin@gmail.com>
Diff between maditr versions 0.8.3 dated 2022-04-02 and 0.8.4 dated 2024-01-11
maditr-0.8.3/maditr/R/maditr.R |only maditr-0.8.3/maditr/man/maditr.Rd |only maditr-0.8.4/maditr/DESCRIPTION | 8 - maditr-0.8.4/maditr/MD5 | 36 ++--- maditr-0.8.4/maditr/NEWS | 4 maditr-0.8.4/maditr/R/let.R | 4 maditr-0.8.4/maditr/R/maditr-package.R |only maditr-0.8.4/maditr/R/query.R | 12 + maditr-0.8.4/maditr/build/vignette.rds |binary maditr-0.8.4/maditr/inst/doc/Introduction.R | 1 maditr-0.8.4/maditr/inst/doc/Introduction.Rmd | 1 maditr-0.8.4/maditr/inst/doc/Introduction.html | 135 ++++++++++------------ maditr-0.8.4/maditr/inst/tinytest/test_take_all.R | 42 ++---- maditr-0.8.4/maditr/man/columns.Rd | 4 maditr-0.8.4/maditr/man/let_if.Rd | 18 +- maditr-0.8.4/maditr/man/maditr-package.Rd |only maditr-0.8.4/maditr/man/query_if.Rd | 32 +++-- maditr-0.8.4/maditr/man/reexports.Rd | 2 maditr-0.8.4/maditr/man/to_list.Rd | 4 maditr-0.8.4/maditr/tests/tinytest.R | 5 maditr-0.8.4/maditr/vignettes/Introduction.Rmd | 1 21 files changed, 161 insertions(+), 148 deletions(-)
Title: Generate Tests from Examples Using 'roxygen' and 'testthat'
Description: Creates 'testthat' tests from 'roxygen' examples using simple tags.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between doctest versions 0.2.0 dated 2023-04-28 and 0.3.0 dated 2024-01-11
DESCRIPTION | 6 +-- MD5 | 46 +++++++++++++----------- NAMESPACE | 2 + NEWS.md | 6 +++ R/docs.R | 48 +++++++++++++++++++++++-- R/expectations.R | 29 +++++++++++---- R/parse.R | 23 ++++++++++++ R/process.R | 31 +++++++++++----- README.md | 19 +++++++++- build/vignette.rds |binary inst/doc/conversion.R | 2 - inst/doc/conversion.html | 12 +----- inst/doc/doctest.R | 8 ++-- inst/doc/doctest.Rmd | 11 ++++- inst/doc/doctest.html | 34 ++++++++++------- man/doctest-package.Rd | 17 +++++++- man/doctestExample-tag.Rd |only man/expect-tag.Rd | 2 + man/expectRaw-tag.Rd | 2 + man/rmd/usage.Rmd | 19 ++++++++-- man/testRaw-tag.Rd | 4 +- tests/testthat/_snaps/tag-doctestExample.md |only tests/testthat/doctestExample-tester.R |only tests/testthat/test-tag-doctestExample.R |only tests/testthat/test-variations.R | 53 ++++++++++++++++++++++++---- vignettes/doctest.Rmd | 11 ++++- 26 files changed, 294 insertions(+), 91 deletions(-)
Title: Wrapper for the 'Intro.js' Library
Description: A wrapper for the 'Intro.js' library (For more info: <https://introjs.com/>).
This package makes it easy to include step-by-step introductions, and clickable hints in a 'Shiny'
application. It supports both static introductions in the UI, and programmatic introductions from
the server-side.
Author: Carl Ganz [aut, cre] ,
Afshin Mehrabani [ctb, cph]
Maintainer: Carl Ganz <carlganz@gmail.com>
Diff between rintrojs versions 0.3.3 dated 2023-10-26 and 0.3.4 dated 2024-01-11
DESCRIPTION | 9 +++++---- MD5 | 11 +++++++---- NEWS.md | 4 ++++ R/introjs.R | 25 +++++++++++++++++++++---- README.md | 2 +- inst/po |only po |only 7 files changed, 38 insertions(+), 13 deletions(-)
Title: A Toolbox for Public Health and Epidemiology
Description: A toolbox for making R functions and capabilities more
accessible to students and professionals from Epidemiology and
Public Health related disciplines. Includes a function to report
coefficients and confidence intervals from models using robust
standard errors (when available), functions that expand 'ggplot2'
plots and functions relevant for introductory papers in Epidemiology
or Public Health. Please note that use of the
provided data sets is for educational purposes only.
Author: Josie Athens [aut, cre],
Frank Harell [ctb],
John Fox [ctb],
R-Core [ctb]
Maintainer: Josie Athens <josie.athens@gmail.com>
Diff between pubh versions 1.3.1 dated 2023-11-13 and 1.3.2 dated 2024-01-11
DESCRIPTION | 6 MD5 | 156 +-- NAMESPACE | 148 +- R/data.R | 760 +++++++-------- R/descriptive_functions.R | 696 ++++++------- R/display_functions.R | 1292 ++++++++++++------------- R/epi_functions.R | 772 +++++++-------- R/misc_functions.R | 1008 +++++++++---------- R/plot_functions.R | 1398 +++++++++++++-------------- README.md | 16 build/vignette.rds |binary inst/doc/introduction.R | 460 ++++----- inst/doc/introduction.Rmd | 968 +++++++++---------- inst/doc/introduction.html | 2280 ++++++++++++++++++++++----------------------- inst/doc/regression.R | 652 ++++++------ inst/doc/regression.Rmd | 1036 ++++++++++---------- inst/doc/regression.html | 2230 ++++++++++++++++++++++---------------------- man/Bernard.Rd | 84 - man/Brenner.Rd | 72 - man/Fentress.Rd | 68 - man/Hodgkin.Rd | 102 +- man/Kirkwood.Rd | 62 - man/Macmahon.Rd | 66 - man/Oncho.Rd | 80 - man/Roberts.Rd | 68 - man/Rothman.Rd | 132 +- man/Sandler.Rd | 72 - man/Sharples.Rd | 68 - man/Thall.Rd | 108 +- man/Tuzson.Rd | 66 - man/Vanderpump.Rd | 90 - man/axis_labs.Rd | 86 - man/bar_error.Rd | 120 +- man/bland_altman.Rd | 132 +- man/box_plot.Rd | 118 +- man/bst.Rd | 62 - man/chisq.fisher.Rd | 28 man/coef_det.Rd | 78 - man/contingency.Rd | 120 +- man/contingency2.Rd | 70 - man/cosm_reg.Rd | 130 +- man/cosm_sum.Rd | 76 - man/cross_tbl.Rd | 148 +- man/diag_test.Rd | 76 - man/diag_test2.Rd | 62 - man/estat.Rd | 98 - man/expand_df.Rd | 70 - man/freq_cont.Rd | 54 - man/gen_bst_df.Rd | 116 +- man/geo_mean.Rd | 46 man/get_r2.Rd | 96 - man/gf_star.Rd | 136 +- man/glm_coef.Rd | 168 +-- man/harm_mean.Rd | 46 man/hist_norm.Rd | 114 +- man/inv_logit.Rd | 28 man/jack_knife.Rd | 62 - man/knife_mean.Rd | 48 man/leverage.Rd | 54 - man/logistic_gof.Rd | 56 - man/mhor.Rd | 104 +- man/model_labels.Rd | 100 - man/multiple.Rd | 120 +- man/odds_trend.Rd | 120 +- man/predict_inv.Rd | 88 - man/prop_or.Rd | 62 - man/pseudo_r2.Rd | 56 - man/qq_plot.Rd | 106 +- man/rank_influence.Rd | 54 - man/rank_leverage.Rd | 60 - man/reference_range.Rd | 60 - man/rel_dis.Rd | 44 man/round_pval.Rd | 28 man/ss_jk.Rd | 54 - man/stats_quotes.Rd | 36 man/strip_error.Rd | 168 +-- man/theme_pubh.Rd | 78 - vignettes/introduction.Rmd | 968 +++++++++---------- vignettes/regression.Rmd | 1036 ++++++++++---------- 79 files changed, 10424 insertions(+), 10432 deletions(-)
Title: Network Meta-Analysis using Frequentist Methods
Description: A comprehensive set of functions providing frequentist methods for network meta-analysis (Balduzzi et al., 2023) <doi:10.18637/jss.v106.i02> and supporting Schwarzer et al. (2015) <doi:10.1007/978-3-319-21416-0>, Chapter 8 "Network Meta-Analysis":
- frequentist network meta-analysis following Rücker (2012) <doi:10.1002/jrsm.1058>;
- additive network meta-analysis for combinations of treatments (Rücker et al., 2020) <doi:10.1002/bimj.201800167>;
- network meta-analysis of binary data using the Mantel-Haenszel or non-central hypergeometric distribution method (Efthimiou et al., 2019) <doi:10.1002/sim.8158>;
- rankograms and ranking of treatments by the Surface under the cumulative ranking curve (SUCRA) (Salanti et al., 2013) <doi:10.1016/j.jclinepi.2010.03.016>;
- ranking of treatments using P-scores (frequentist analogue of SUCRAs without resampling) according to Rücker & Schwarzer (2015) <doi:10.1186/s12874-015-0060-8>;
- split direct and i [...truncated...]
Author: Gerta Ruecker [aut] ,
Ulrike Krahn [aut],
Jochem Koenig [aut] ,
Orestis Efthimiou [aut] ,
Annabel Davies [aut] ,
Theodoros Papakonstantinou [aut]
,
Guido Schwarzer [aut, cre]
Maintainer: Guido Schwarzer <guido.schwarzer@uniklinik-freiburg.de>
Diff between netmeta versions 2.8-2 dated 2023-05-06 and 2.9-0 dated 2024-01-11
DESCRIPTION | 10 MD5 | 66 NAMESPACE | 1 NEWS.md | 4306 +++++++++++++++++++++++----------------------- R/contribution.matrix.R | 367 +++ R/discomb.R | 5 R/forest.netsplit.R | 51 R/netbind.R | 3 R/netcomplex.R | 4 R/netconnection.R | 67 R/netcontrib.R | 45 R/netgraph-internal.R | 23 R/netgraph.netimpact.R | 4 R/netgraph.netmeta.R | 38 R/netmeta-package.R | 2 R/netmeta.R | 743 ++++--- R/netmetabin.R | 5 R/netpairwise.R | 5 R/netsplit.R | 152 + R/nettable.R | 73 R/nettable_internal.R | 10 R/pairwise.R | 171 + R/print.netmeta.R | 1 R/print.summary.netmeta.R | 2 R/sidde.R | 25 R/updateversion.R | 16 build/vignette.rds |binary inst/doc/netmeta.pdf |binary man/forest.netsplit.Rd | 5 man/netconnection.Rd | 19 man/netcontrib.Rd | 25 man/netsplit.Rd | 28 man/nettable.Rd | 24 man/pairwise.Rd | 5 34 files changed, 3581 insertions(+), 2720 deletions(-)
Title: Repeated Measurement Models for Discrete Times
Description: Companion R package for the course "Statistical analysis of correlated and repeated measurements for health science researchers"
taught by the section of Biostatistics of the University of Copenhagen.
It implements linear mixed models where the model for the variance-covariance of the residuals is specified via patterns (compound symmetry, toeplitz, unstructured, ...).
Statistical inference for mean, variance, and correlation parameters is performed based on the observed information and a Satterthwaite approximation of the degrees of freedom.
Normalized residuals are provided to assess model misspecification.
Statistical inference can be performed for arbitrary linear or non-linear combination(s) of model coefficients.
Predictions can be computed conditional to covariates only or also to outcome values.
Author: Brice Ozenne [aut, cre] ,
Julie Forman [aut]
Maintainer: Brice Ozenne <brice.mh.ozenne@gmail.com>
Diff between LMMstar versions 1.0.0 dated 2023-11-08 and 1.0.1 dated 2024-01-11
DESCRIPTION | 8 ++++---- MD5 | 16 +++++++++------- R/print.R | 8 ++++---- R/summarize.R | 8 +++++--- build/vignette.rds |binary inst/doc/overview.pdf |binary man/summarize.Rd | 3 ++- tests/testthat/operator.R |only tests/testthat/test-auto-mixed-model.R | 8 ++++---- tests/testthat/test-auto-summarize.R |only 10 files changed, 28 insertions(+), 23 deletions(-)
Title: Lightweight Graph Based Multiple Comparison Procedures
Description: A lightweight fork of 'gMCP' with functions for graphical
described multiple test procedures introduced in
Bretz et al. (2009) <doi:10.1002/sim.3495> and
Bretz et al. (2011) <doi:10.1002/bimj.201000239>.
Implements a flexible function using 'ggplot2' to create
multiplicity graph visualizations.
Contains instructions of multiplicity graph and graphical testing for
group sequential design, described in
Maurer and Bretz (2013) <doi:10.1080/19466315.2013.807748>,
with necessary unit testing using 'testthat'.
Author: Yalin Zhu [aut] ,
Yilong Zhang [aut],
Xuan Deng [aut],
Keaven Anderson [aut],
Nan Xiao [aut, cre] ,
Kornelius Rohmeyer [ctb] ,
Florian Klinglmueller [ctb] ,
gMCP project contributors [cph] ,
Merck & Co., Inc., Rahway, NJ, USA and its affiliates [cph]
Maintainer: Nan Xiao <nan.xiao1@merck.com>
Diff between gMCPLite versions 0.1.4 dated 2023-11-08 and 0.1.5 dated 2024-01-11
DESCRIPTION | 6 - MD5 | 42 ++++++------ NEWS.md | 9 ++ R/exampleGraphs.R | 6 - R/gMCP.R | 5 - R/gMCP.extended.R | 4 - R/graphMCP.R | 8 +- R/hgraph.R | 4 - README.md | 8 +- inst/doc/GraphicalMultiplicity.Rmd | 6 - inst/doc/GraphicalMultiplicity.html | 122 +++++++++++++++++------------------- inst/doc/hGraph.Rmd | 10 +- inst/doc/hGraph.html | 26 +++---- man/exampleGraphs.Rd | 2 man/gMCP.Rd | 3 man/gMCP.extended.Rd | 3 man/hGraph.Rd | 2 man/parametric.test.Rd | 1 man/rejectNode.Rd | 2 man/simConfint.Rd | 2 vignettes/GraphicalMultiplicity.Rmd | 6 - vignettes/hGraph.Rmd | 10 +- 22 files changed, 147 insertions(+), 140 deletions(-)
Title: Infrastructure for Running, Cycling and Swimming Data from
GPS-Enabled Tracking Devices
Description: Provides infrastructure for handling running, cycling and swimming data from GPS-enabled tracking devices within R. The package provides methods to extract, clean and organise workout and competition data into session-based and unit-aware data objects of class 'trackeRdata' (S3 class). The information can then be visualised, summarised, and analysed through flexible and extensible methods. Frick and Kosmidis (2017) <doi: 10.18637/jss.v082.i07>, which is updated and maintained as one of the vignettes, provides detailed descriptions of the package and its methods, and real-data demonstrations of the package functionality.
Author: Ioannis Kosmidis [aut, cre] ,
Hannah Frick [aut] ,
Robin Hornak [aut]
Maintainer: Ioannis Kosmidis <ioannis.kosmidis@warwick.ac.uk>
Diff between trackeR versions 1.5.2 dated 2019-05-15 and 1.6.0 dated 2024-01-11
trackeR-1.5.2/trackeR/data/datalist |only trackeR-1.5.2/trackeR/vignettes/_region_.tex |only trackeR-1.6.0/trackeR/DESCRIPTION | 11 trackeR-1.6.0/trackeR/MD5 | 141 trackeR-1.6.0/trackeR/NAMESPACE | 5 trackeR-1.6.0/trackeR/NEWS.md | 60 trackeR-1.6.0/trackeR/R/Wprime.R | 6 trackeR-1.6.0/trackeR/R/concentrationProfile.R | 16 trackeR-1.6.0/trackeR/R/constants.R | 8 trackeR-1.6.0/trackeR/R/distributionProfile.R | 13 trackeR-1.6.0/trackeR/R/fda.R | 2 trackeR-1.6.0/trackeR/R/reading.R | 20 trackeR-1.6.0/trackeR/R/thresholds.R | 8 trackeR-1.6.0/trackeR/R/trackeR.R | 18 trackeR-1.6.0/trackeR/R/trackeRdata.R | 7 trackeR-1.6.0/trackeR/R/trackeRdata_plot.R | 33 trackeR-1.6.0/trackeR/R/trackeRdata_summary.R | 3 trackeR-1.6.0/trackeR/R/units.R | 256 trackeR-1.6.0/trackeR/build/vignette.rds |binary trackeR-1.6.0/trackeR/inst/WORDLIST |only trackeR-1.6.0/trackeR/inst/art/hex_trackeR.svg | 58 trackeR-1.6.0/trackeR/inst/doc/TourDetrackeR.R | 44 trackeR-1.6.0/trackeR/inst/doc/TourDetrackeR.Rmd | 2 trackeR-1.6.0/trackeR/inst/doc/TourDetrackeR.html | 3182 ++++------ trackeR-1.6.0/trackeR/inst/doc/trackeR.R | 1 trackeR-1.6.0/trackeR/inst/doc/trackeR.Rnw | 2 trackeR-1.6.0/trackeR/inst/doc/trackeR.pdf |binary trackeR-1.6.0/trackeR/man/GC2trackeRdata.Rd | 17 trackeR-1.6.0/trackeR/man/Wexp.Rd | 7 trackeR-1.6.0/trackeR/man/Wprime.Rd | 18 trackeR-1.6.0/trackeR/man/change_units.Rd | 2 trackeR-1.6.0/trackeR/man/change_units.trackeRdata.Rd | 2 trackeR-1.6.0/trackeR/man/change_units.trackeRthresholds.Rd | 5 trackeR-1.6.0/trackeR/man/compute_breaks.Rd | 9 trackeR-1.6.0/trackeR/man/concentration_profile.distrProfile.Rd | 22 trackeR-1.6.0/trackeR/man/conversions.Rd | 9 trackeR-1.6.0/trackeR/man/distribution_profile.Rd | 24 trackeR-1.6.0/trackeR/man/generate_thresholds.Rd | 4 trackeR-1.6.0/trackeR/man/generate_units.Rd | 4 trackeR-1.6.0/trackeR/man/get_elevation_gain.Rd | 8 trackeR-1.6.0/trackeR/man/get_profile.Rd | 6 trackeR-1.6.0/trackeR/man/get_units.trackeRfpca.Rd |only trackeR-1.6.0/trackeR/man/get_units.trackeRthresholds.Rd |only trackeR-1.6.0/trackeR/man/impute_speeds.Rd | 22 trackeR-1.6.0/trackeR/man/plot.conProfile.Rd | 3 trackeR-1.6.0/trackeR/man/plot.distrProfile.Rd | 3 trackeR-1.6.0/trackeR/man/plot.trackeRWprime.Rd | 3 trackeR-1.6.0/trackeR/man/plot.trackeRdata.Rd | 16 trackeR-1.6.0/trackeR/man/plot.trackeRdataSummary.Rd | 3 trackeR-1.6.0/trackeR/man/plot.trackeRfpca.Rd | 3 trackeR-1.6.0/trackeR/man/plot_route.Rd | 50 trackeR-1.6.0/trackeR/man/prepare_route.Rd | 2 trackeR-1.6.0/trackeR/man/readX.Rd | 19 trackeR-1.6.0/trackeR/man/read_container.Rd | 54 trackeR-1.6.0/trackeR/man/read_directory.Rd | 60 trackeR-1.6.0/trackeR/man/ridges.conProfile.Rd | 3 trackeR-1.6.0/trackeR/man/ridges.distrProfile.Rd | 3 trackeR-1.6.0/trackeR/man/ridges.trackeRdata.Rd | 3 trackeR-1.6.0/trackeR/man/run.Rd | 4 trackeR-1.6.0/trackeR/man/runs.Rd | 4 trackeR-1.6.0/trackeR/man/session_duration.Rd | 6 trackeR-1.6.0/trackeR/man/smoother.conProfile.Rd | 3 trackeR-1.6.0/trackeR/man/smoother.distrProfile.Rd | 3 trackeR-1.6.0/trackeR/man/smoother.trackeRdata.Rd | 3 trackeR-1.6.0/trackeR/man/smoother_control.trackeRdata.Rd | 22 trackeR-1.6.0/trackeR/man/summary.trackeRdata.Rd | 9 trackeR-1.6.0/trackeR/man/threshold.trackeRdata.Rd | 5 trackeR-1.6.0/trackeR/man/timeline.Rd | 4 trackeR-1.6.0/trackeR/man/trackeR.Rd | 17 trackeR-1.6.0/trackeR/man/trackeRdata.Rd | 21 trackeR-1.6.0/trackeR/man/unique.trackeRdata.Rd | 4 trackeR-1.6.0/trackeR/man/zones.Rd | 12 trackeR-1.6.0/trackeR/vignettes/TourDetrackeR.Rmd | 2 trackeR-1.6.0/trackeR/vignettes/trackeR.Rnw | 2 74 files changed, 2110 insertions(+), 2291 deletions(-)
Title: Code Storage and Execution Class for 'teal' Applications
Description: Introduction of 'qenv' S4 class, that facilitates code
execution and reproducibility in 'teal' applications.
Author: Dawid Kaledkowski [aut, cre],
Aleksander Chlebowski [aut],
Marcin Kosinski [aut],
Pawel Rucki [aut],
Nikolas Burkoff [aut],
Mahmoud Hallal [aut],
Maciej Nasinski [aut],
Konrad Pagacz [aut],
Junlue Zhao [aut],
Chendi Liao [rev],
Dony Unardi [rev],
F. [...truncated...]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal.code versions 0.4.1 dated 2023-09-12 and 0.5.0 dated 2024-01-11
teal.code-0.4.1/teal.code/R/include_css_js.R |only teal.code-0.4.1/teal.code/inst/css |only teal.code-0.4.1/teal.code/man/eval_code.Rd |only teal.code-0.4.1/teal.code/man/get_code.Rd |only teal.code-0.4.1/teal.code/man/include_css_files.Rd |only teal.code-0.4.1/teal.code/man/new_qenv.Rd |only teal.code-0.4.1/teal.code/man/remove_enclosing_curly_braces.Rd |only teal.code-0.4.1/teal.code/tests/testthat/Rplots.pdf |only teal.code-0.5.0/teal.code/DESCRIPTION | 35 teal.code-0.5.0/teal.code/MD5 | 104 teal.code-0.5.0/teal.code/NAMESPACE | 44 teal.code-0.5.0/teal.code/NEWS.md | 99 teal.code-0.5.0/teal.code/R/qenv-class.R | 77 teal.code-0.5.0/teal.code/R/qenv-concat.R | 103 teal.code-0.5.0/teal.code/R/qenv-constructor.R | 161 - teal.code-0.5.0/teal.code/R/qenv-errors.R | 4 teal.code-0.5.0/teal.code/R/qenv-eval_code.R | 213 + teal.code-0.5.0/teal.code/R/qenv-get_code.R | 106 teal.code-0.5.0/teal.code/R/qenv-get_env.R |only teal.code-0.5.0/teal.code/R/qenv-get_var.R | 118 - teal.code-0.5.0/teal.code/R/qenv-get_warnings.R | 128 - teal.code-0.5.0/teal.code/R/qenv-join.R | 434 +-- teal.code-0.5.0/teal.code/R/qenv-show.R | 37 teal.code-0.5.0/teal.code/R/qenv-within.R |only teal.code-0.5.0/teal.code/R/teal.code-package.R | 24 teal.code-0.5.0/teal.code/R/utils.R | 123 - teal.code-0.5.0/teal.code/README.md | 235 +- teal.code-0.5.0/teal.code/build/vignette.rds |binary teal.code-0.5.0/teal.code/inst/WORDLIST | 14 teal.code-0.5.0/teal.code/inst/doc/qenv.R | 203 + teal.code-0.5.0/teal.code/inst/doc/qenv.Rmd | 328 +- teal.code-0.5.0/teal.code/inst/doc/qenv.html | 1107 +++++----- teal.code-0.5.0/teal.code/inst/doc/teal-code.Rmd | 44 teal.code-0.5.0/teal.code/inst/doc/teal-code.html | 564 ++--- teal.code-0.5.0/teal.code/inst/pkgdown/_pkgdown.yml | 20 teal.code-0.5.0/teal.code/inst/pkgdown/templates/footer.html | 6 teal.code-0.5.0/teal.code/man/concat.Rd | 82 teal.code-0.5.0/teal.code/man/dev_suppress.Rd | 56 teal.code-0.5.0/teal.code/man/dot-check_joinable.Rd | 42 teal.code-0.5.0/teal.code/man/get_env.Rd |only teal.code-0.5.0/teal.code/man/get_var.Rd | 78 teal.code-0.5.0/teal.code/man/get_warnings.Rd | 65 teal.code-0.5.0/teal.code/man/join.Rd | 295 +- teal.code-0.5.0/teal.code/man/lang2calls.Rd |only teal.code-0.5.0/teal.code/man/qenv-class.Rd | 52 teal.code-0.5.0/teal.code/man/qenv.Rd |only teal.code-0.5.0/teal.code/man/show-qenv-method.Rd | 49 teal.code-0.5.0/teal.code/man/teal.code-package.Rd | 86 teal.code-0.5.0/teal.code/tests/testthat.R | 6 teal.code-0.5.0/teal.code/tests/testthat/test-qenv-within.R |only teal.code-0.5.0/teal.code/tests/testthat/test-qenv_concat.R | 160 - teal.code-0.5.0/teal.code/tests/testthat/test-qenv_constructor.R | 101 teal.code-0.5.0/teal.code/tests/testthat/test-qenv_eval_code.R | 282 +- teal.code-0.5.0/teal.code/tests/testthat/test-qenv_get_code.R | 85 teal.code-0.5.0/teal.code/tests/testthat/test-qenv_get_var.R | 59 teal.code-0.5.0/teal.code/tests/testthat/test-qenv_get_warnings.R | 136 - teal.code-0.5.0/teal.code/tests/testthat/test-qenv_join.R | 391 +-- teal.code-0.5.0/teal.code/tests/testthat/test-utils.R | 125 - teal.code-0.5.0/teal.code/vignettes/qenv.Rmd | 328 +- teal.code-0.5.0/teal.code/vignettes/teal-code.Rmd | 44 60 files changed, 3490 insertions(+), 3363 deletions(-)
Title: Sparse and Dense Matrix Classes and Methods
Description: A rich hierarchy of sparse and dense matrix classes,
including general, symmetric, triangular, and diagonal matrices
with numeric, logical, or pattern entries. Efficient methods for
operating on such matrices, often wrapping the 'BLAS', 'LAPACK',
and 'SuiteSparse' libraries.
Author: Douglas Bates [aut] ,
Martin Maechler [aut, cre] ,
Mikael Jagan [aut] ,
Timothy A. Davis [ctb] )),
Jens Oehlschlaegel [ctb] ),
Jason Riedy [ctb] and onenormest, Copyright: Regents of the
University of California),
R Core Team [ctb]
Maintainer: Martin Maechler <mmaechler+Matrix@gmail.com>
Diff between Matrix versions 1.6-4 dated 2023-11-30 and 1.6-5 dated 2024-01-11
DESCRIPTION | 8 MD5 | 72 +++---- R/Auxiliaries.R | 2 R/bind2.R | 2 R/coerce.R | 48 +--- R/dim.R | 6 R/indMatrix.R | 6 R/solve.R | 19 - R/sparseVector.R | 2 R/subassign.R | 230 ++++++++++++++++++++++ R/subscript.R | 175 ++++++++--------- R/zzz.R | 61 +++-- build/Matrix.pdf |binary build/stage23.rdb |binary inst/NEWS.Rd | 32 +++ inst/doc/Comparisons.pdf |binary inst/doc/Design-issues.pdf |binary inst/doc/Intro2Matrix.pdf |binary inst/doc/Introduction.pdf |binary inst/doc/sparseModels.pdf |binary inst/include/Matrix/stubs.c | 429 +++++++++++++++++++----------------------- inst/include/Matrix/version.h | 4 inst/test-tools-1.R | 4 inst/test-tools-Matrix.R | 17 + man/Xtrct-methods.Rd | 4 man/band.Rd | 9 man/indMatrix-class.Rd | 4 man/pMatrix-class.Rd | 2 src/chm_common.c | 32 ++- src/cholmod-etc.c | 4 src/dense.c | 20 - src/init.c | 3 src/sparse.c | 19 - src/validity.c | 32 +-- src/version.h | 4 tests/Simple.R | 42 ++++ tests/factorizing.R | 21 +- 37 files changed, 810 insertions(+), 503 deletions(-)
Title: Download and Display Map Tiles
Description: To create maps from tiles, 'maptiles' downloads, composes and
displays tiles from a large number of providers (e.g. 'OpenStreetMap',
'Stadia', 'Esri', 'CARTO', or 'Thunderforest').
Author: Timothee Giraud [cre, aut] ,
Diego Hernangomez [ctb] ,
Robert J. Hijmans [ctb] ,
Hugh A. Graham [ctb]
Maintainer: Timothee Giraud <timothee.giraud@cnrs.fr>
Diff between maptiles versions 0.6.1 dated 2023-09-13 and 0.7.0 dated 2024-01-11
maptiles-0.6.1/maptiles/inst/tinytest/test_get_tiles.R |only maptiles-0.7.0/maptiles/DESCRIPTION | 12 maptiles-0.7.0/maptiles/MD5 | 33 - maptiles-0.7.0/maptiles/NAMESPACE | 2 maptiles-0.7.0/maptiles/NEWS.md | 21 maptiles-0.7.0/maptiles/R/create_provider.R | 34 - maptiles-0.7.0/maptiles/R/get_credit.R | 4 maptiles-0.7.0/maptiles/R/get_tiles.R | 138 +--- maptiles-0.7.0/maptiles/R/plot_tiles.R | 55 - maptiles-0.7.0/maptiles/R/providers.R |only maptiles-0.7.0/maptiles/R/utils.R | 401 +++++++------- maptiles-0.7.0/maptiles/README.md | 82 -- maptiles-0.7.0/maptiles/inst/tinytest/test_maptiles.R |only maptiles-0.7.0/maptiles/man/create_provider.Rd | 34 - maptiles-0.7.0/maptiles/man/figures/README-example-1.png |binary maptiles-0.7.0/maptiles/man/figures/README-example2-1.png |binary maptiles-0.7.0/maptiles/man/figures/README-front.png |binary maptiles-0.7.0/maptiles/man/get_tiles.Rd | 24 maptiles-0.7.0/maptiles/man/plot_tiles.Rd | 7 19 files changed, 428 insertions(+), 419 deletions(-)
Title: Discriminant Analysis with Additional Information
Description: In applications it is usual that some additional
information is available. This package dawai (an acronym
for Discriminant Analysis With Additional Information)
performs linear and quadratic discriminant analysis with
additional information expressed as inequality restrictions
among the populations means. It also computes several
estimations of the true error rate.
Author: David Conde, Miguel A. Fernandez, Bonifacio Salvador
Maintainer: David Conde <daconrio@gmail.com>
Diff between dawai versions 1.2.5 dated 2021-05-03 and 1.2.6 dated 2024-01-11
dawai-1.2.5/dawai/inst/doc/dawai.R |only dawai-1.2.6/dawai/DESCRIPTION | 27 +++++++----- dawai-1.2.6/dawai/MD5 | 34 ++++++++------- dawai-1.2.6/dawai/NAMESPACE | 9 +--- dawai-1.2.6/dawai/R/checks.R | 2 dawai-1.2.6/dawai/R/lsConstrain.fit.R |only dawai-1.2.6/dawai/R/resmatrix.R | 2 dawai-1.2.6/dawai/R/rlda.R | 8 +-- dawai-1.2.6/dawai/R/rqda.R | 8 +-- dawai-1.2.6/dawai/build/vignette.rds |binary dawai-1.2.6/dawai/inst/CITATION | 16 +++---- dawai-1.2.6/dawai/inst/doc/dawai.Rnw | 60 +--------------------------- dawai-1.2.6/dawai/inst/doc/dawai.pdf |binary dawai-1.2.6/dawai/man/dawai-package.Rd | 6 +- dawai-1.2.6/dawai/man/err.est.rlda.Rd | 2 dawai-1.2.6/dawai/man/err.est.rqda.Rd | 2 dawai-1.2.6/dawai/man/lsConstrain.fit.Rd |only dawai-1.2.6/dawai/src |only dawai-1.2.6/dawai/vignettes/dawai.Rnw | 60 +--------------------------- dawai-1.2.6/dawai/vignettes/manualdawai.pdf |only 20 files changed, 71 insertions(+), 165 deletions(-)
Title: Estimate the Number of Factors in Large Nonstationary Datasets
Description: Large panel data sets are often subject to common trends. However, it can be difficult to determine the exact number of these common factors and analyse their properties.
The package implements the Barigozzi and Trapani (2022) <doi:10.1080/07350015.2021.1901719> test, which not only provides an efficient way of estimating the number of common factors in large nonstationary panel data sets, but also gives further insights on factor classes. The routine identifies the existence of (i) a factor subject to a linear trend, (ii) the number of zero-mean I(1) and (iii) zero-mean I(0) factors.
Furthermore, the package includes the Integrated Panel Criteria by Bai (2004) <doi:10.1016/j.jeconom.2003.10.022> that provide a complementary measure for the number of factors.
Author: Paul Haimerl [aut, cre]
Maintainer: Paul Haimerl <paul.haimerl@maastrichtuniversity.nl>
Diff between BTtest versions 0.10 dated 2023-12-10 and 0.10.1 dated 2024-01-11
DESCRIPTION | 13 +++++++------ MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/BTtest.R | 21 +++++++++++---------- README.md | 42 +++++++++++++++++++++++++++++++----------- man/BTtest.Rd | 11 ++++++----- man/BaiIPC.Rd | 10 +++++----- 7 files changed, 70 insertions(+), 43 deletions(-)
Title: Nearest Neighbors Matching of Case-Control Data
Description: Provides nearest-neighbors matching and
analysis of case-control data. Cui, Z., Marder, E. P., Click, E. S.,
Hoekstra, R. M., & Bruce, B. B. (2022) <doi:10.1097/EDE.0000000000001504>.
Author: Beau Bruce [aut, cre],
Zhaohui Cui [aut]
Maintainer: Beau Bruce <lue7@cdc.gov>
Diff between nncc versions 1.0.1 dated 2023-05-05 and 2.0.0 dated 2024-01-11
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Title: Estimation for MVN and Student-t Data with Monotone Missingness
Description: Estimation of multivariate normal (MVN) and student-t data of
arbitrary dimension where the pattern of missing data is monotone.
See Pantaleo and Gramacy (2010) <arXiv:0907.2135>.
Through the use of parsimonious/shrinkage regressions
(plsr, pcr, lasso, ridge, etc.), where standard regressions fail,
the package can handle a nearly arbitrary amount of missing data.
The current version supports maximum likelihood inference and
a full Bayesian approach employing scale-mixtures for Gibbs sampling.
Monotone data augmentation extends this Bayesian approach to arbitrary
missingness patterns. A fully functional standalone interface to the
Bayesian lasso (from Park & Casella), Normal-Gamma (from Griffin & Brown),
Horseshoe (from Carvalho, Polson, & Scott), and ridge regression
with model selection via Reversible Jump, and student-t errors
(from Geweke) is also provided.
Author: Robert B. Gramacy <rbg@vt.edu>, with Fortran contributions from Cleve Moler as updated by Berwin A. Turlach
Maintainer: Robert B. Gramacy <rbg@vt.edu>
Diff between monomvn versions 1.9-19 dated 2023-11-28 and 1.9-20 dated 2024-01-11
ChangeLog | 6 ++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/blasso.R | 2 +- build/partial.rdb |binary data/cement.rda |binary 6 files changed, 16 insertions(+), 10 deletions(-)
Title: Calculates Demographic Indicators
Description: Calculates key indicators such as fertility rates (Total Fertility Rate (TFR), General Fertility Rate (GFR),
and Age Specific Fertility Rate (ASFR)) using Demographic and Health Survey (DHS) women/individual data,
childhood mortality probabilities and rates such as Neonatal Mortality Rate (NNMR), Post-neonatal Mortality Rate (PNNMR),
Infant Mortality Rate (IMR), Child Mortality Rate (CMR), and Under-five Mortality Rate (U5MR), and adult mortality indicators
such as the Age Specific Mortality Rate (ASMR), Age Adjusted Mortality Rate (AAMR), Age Specific Maternal Mortality Rate (ASMMR),
Age Adjusted Maternal Mortality Rate (AAMMR), Age Specific Pregnancy Related Mortality Rate (ASPRMR),
Age Adjusted Pregnancy Related Mortality Rate (AAPRMR), Maternal Mortality Ratio (MMR) and Pregnancy Related Mortality Ratio (PRMR).
In addition to the indicators, the 'DHS.rates' package estimates sampling errors indicators such as Standard Error (SE),
Design Effect (DEFT), Relative Standard Error (RSE) [...truncated...]
Author: Mahmoud Elkasabi
Maintainer: Mahmoud Elkasabi <mahmoudelkasabi@gmail.com>
Diff between DHS.rates versions 0.9.1 dated 2021-12-09 and 0.9.2 dated 2024-01-11
DESCRIPTION | 10 - MD5 | 10 - R/chmort.R | 6 R/chmortp.R | 4 build/vignette.rds |binary inst/doc/DHS.rates.html | 462 ++++++++++++++++++++++++++++++++++++------------ 6 files changed, 370 insertions(+), 122 deletions(-)
Title: In-Line Documentation for R
Description: Generate your Rd documentation, 'NAMESPACE' file, and
collation field using specially formatted comments. Writing
documentation in-line with code makes it easier to keep your
documentation up-to-date as your requirements change. 'roxygen2' is
inspired by the 'Doxygen' system for C++.
Author: Hadley Wickham [aut, cre, cph]
,
Peter Danenberg [aut, cph],
Gabor Csardi [aut],
Manuel Eugster [aut, cph],
Posit Software, PBC [cph, fnd]
Maintainer: Hadley Wickham <hadley@posit.co>
Diff between roxygen2 versions 7.2.3 dated 2022-12-08 and 7.3.0 dated 2024-01-11
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Title: Generalised Linear Mixed Models in R
Description: Specification, analysis, simulation, and fitting of generalised linear mixed models.
Includes Markov Chain Monte Carlo Maximum likelihood and Laplace approximation model fitting for a range of models,
non-linear fixed effect specifications, a wide range of flexible covariance functions that can be combined arbitrarily,
robust and bias-corrected standard error estimation, power calculation, data simulation, and more.
See <https://samuel-watson.github.io/glmmr-web/> for a detailed manual.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <S.I.Watson@bham.ac.uk>
Diff between glmmrBase versions 0.5.3 dated 2023-11-24 and 0.6.1 dated 2024-01-11
glmmrBase-0.5.3/glmmrBase/README.md |only glmmrBase-0.6.1/glmmrBase/DESCRIPTION | 14 glmmrBase-0.6.1/glmmrBase/MD5 | 93 glmmrBase-0.6.1/glmmrBase/NAMESPACE | 1 glmmrBase-0.6.1/glmmrBase/R/R6Model.R | 418 +-- glmmrBase-0.6.1/glmmrBase/R/R6covariance.R | 55 glmmrBase-0.6.1/glmmrBase/R/R6meanfunction.R | 68 glmmrBase-0.6.1/glmmrBase/R/RcppExports.R | 72 glmmrBase-0.6.1/glmmrBase/R/printfunctions.R | 21 glmmrBase-0.6.1/glmmrBase/build/partial.rdb |binary glmmrBase-0.6.1/glmmrBase/inst/include/glmmr.h | 33 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/algo.h | 20 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/calculator.hpp | 782 +++--- glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/covariance.hpp | 587 +++- glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/family.hpp | 4 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/formulaparse.h | 101 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/general.h | 202 + glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/hsgpcovariance.hpp | 127 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/instructions.h | 10 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/interpreter.h | 216 - glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/linearpredictor.hpp | 90 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/maths.h | 9 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/matrixfield.h | 13 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/matrixw.hpp | 10 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/model.hpp | 142 - glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/modelbits.hpp | 35 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/modelextradata.hpp | 13 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/modelmatrix.hpp | 646 +++-- glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/modelmcmc.hpp | 21 glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/modeloptim.hpp | 1271 ++++++---- glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/nngpcovariance.hpp | 216 + glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/optim |only glmmrBase-0.6.1/glmmrBase/inst/include/glmmr/randomeffects.hpp | 60 glmmrBase-0.6.1/glmmrBase/man/Covariance.Rd | 70 glmmrBase-0.6.1/glmmrBase/man/MeanFunction.Rd | 135 - glmmrBase-0.6.1/glmmrBase/man/Model.Rd | 342 +- glmmrBase-0.6.1/glmmrBase/src/RcppExports.cpp | 210 + glmmrBase-0.6.1/glmmrBase/src/covariance_module.cpp | 8 glmmrBase-0.6.1/glmmrBase/src/model_module.cpp | 12 glmmrBase-0.6.1/glmmrBase/src/model_module_2.cpp | 208 + glmmrBase-0.6.1/glmmrBase/src/model_module_extension.cpp | 108 41 files changed, 3798 insertions(+), 2645 deletions(-)
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors as described in Migueles and colleagues (JMPB 2019), and van Hees and colleagues (JApplPhysiol 2014; PLoSONE 2015). The package has been developed and tested for binary data from 'GENEActiv' <https://activinsights.com/> and GENEA devices (not for sale), .csv-export data from 'Actigraph' <https://theactigraph.com> devices, and .cwa and .wav-format data from 'Axivity' <https://axivity.com>. These devices are currently widely used in research on human daily physical activity. Further, the package can handle accelerometer data file from any other sensor brand providing that the data is stored in csv format and has either no header or a two column header. Also the package allows for external function embedding.
Author: Vincent T van Hees [aut, cre],
Jairo H Migueles [aut] ,
Severine Sabia [ctb],
Matthew R Patterson [ctb],
Zhou Fang [ctb],
Joe Heywood [ctb],
Joan Capdevila Pujol [ctb],
Lena Kushleyeva [ctb],
Mathilde Chen [ctb],
Manasa Yerramalla [ctb],
Patrick Bos [...truncated...]
Maintainer: Vincent T van Hees <v.vanhees@accelting.com>
Diff between GGIR versions 3.0-2 dated 2023-12-13 and 3.0-3 dated 2024-01-11
DESCRIPTION | 8 ++++---- MD5 | 38 +++++++++++++++++++------------------- NEWS.md | 8 ++++++++ R/convertEpochData.R | 6 +++--- R/g.analyse.R | 7 +------ R/g.analyse.perday.R | 4 +--- R/g.analyse.perfile.R | 28 ++++++++++++++-------------- R/g.applymetrics.R | 1 + R/g.getmeta.R | 20 +++++++++++++++++--- R/g.getstarttime.R | 2 -- R/g.loadlog.R | 11 +++++++---- R/g.part5.definedays.R | 13 +++++++++---- R/g.plot.R | 4 ++-- R/g.report.part5.R | 10 +++------- R/g.sib.det.R | 9 +++------ R/updateBlocksize.R | 25 ++++++++++--------------- inst/doc/ExternalFunction.pdf |binary inst/doc/GGIRParameters.html | 25 +++++++++++++++++-------- man/GGIR-package.Rd | 4 ++-- man/GGIR.Rd | 25 ++++++++++++++++++------- 20 files changed, 139 insertions(+), 109 deletions(-)
Title: Create Compact Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation of hash
digests of arbitrary R objects (using the 'md5', 'sha-1', 'sha-256', 'crc32',
'xxhash', 'murmurhash', 'spookyhash', 'blake3' and 'crc32c' algorithms) permitting
easy comparison of R language objects, as well as functions such as'hmac()' to
create hash-based message authentication code. Please note that this package
is not meant to be deployed for cryptographic purposes for which more
comprehensive (and widely tested) libraries such as 'OpenSSL' should be
used.
Author: Dirk Eddelbuettel <edd@debian.org> with contributions
by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek,
Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen,
Duncan Murdoch, Jim Hester, Wush Wu, Qiang Kou, Thierry Onkelinx,
[...truncated...]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between digest versions 0.6.33 dated 2023-07-07 and 0.6.34 dated 2024-01-11
ChangeLog | 28 ++++++++++++++++++++++++++++ DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ README.md | 2 +- build/vignette.rds |binary src/digest.c | 5 +++-- tests/tinytest.R | 4 ++++ 7 files changed, 47 insertions(+), 14 deletions(-)
Title: Constrained Ordinary Least Squares
Description: Constrained ordinary least squares is performed. One constraint is that all beta coefficients (including the constant) cannot be negative. They can be either 0 or strictly positive. Another constraint is that the sum of the beta coefficients equals a constant. References: Hansen, B. E. (2022). Econometrics, Princeton University Press. <ISBN:9780691235899>.
Author: Michail Tsagris [aut, cre]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between cols versions 1.0 dated 2023-10-30 and 1.1 dated 2024-01-11
DESCRIPTION | 10 +++++----- MD5 | 10 ++++++---- NAMESPACE | 2 +- R/mvpls.R |only man/cols-package.Rd | 10 ++++++---- man/mvpls.Rd |only man/pls.Rd | 2 +- 7 files changed, 19 insertions(+), 15 deletions(-)
Title: Estimation of Dynamic Mixtures
Description: Estimation of a dynamic lognormal - Generalized Pareto mixture via the Approximate Maximum Likelihood and the Cross-Entropy methods. See Bee, M. (2023) <doi:10.1016/j.csda.2023.107764>.
Author: Marco Bee [aut, cre]
Maintainer: Marco Bee <marco.bee@unitn.it>
Diff between FitDynMix versions 0.1.0 dated 2023-06-23 and 1.0.0 dated 2024-01-11
DESCRIPTION | 6 - MD5 | 48 ++++----- NEWS.md | 6 + R/AMLEfit.R | 250 ++++++++++++++++++++++++++++++++------------------ R/CENoisyFit.R | 232 +++++++++++++++++++++++++++++++++++----------- R/CENoisyFitBoot.R | 90 ++++++++++++++++-- R/MLEBoot.R | 67 ++++++++++--- R/MLEfit.R | 112 ++++++++++++++++------ R/ddyn.R | 95 +++++++++++++------ R/dynloglik.R | 84 +++++++++++----- R/dynloglikMC.R | 59 +++++++---- R/nConst_MC.R | 55 +++++++---- R/rDynMix.R | 99 +++++++++++++------ README.md | 2 build/partial.rdb |binary man/AMLEfit.Rd | 23 ++-- man/CENoisyFit.Rd | 33 +++++- man/CENoisyFitBoot.Rd | 30 ++++-- man/MLEBoot.Rd | 10 +- man/MLEfit.Rd | 22 ++-- man/ddyn.Rd | 15 ++- man/dynloglik.Rd | 11 +- man/dynloglikMC.Rd | 15 ++- man/nConst_MC.Rd | 14 +- man/rDynMix.Rd | 12 +- 25 files changed, 984 insertions(+), 406 deletions(-)
Title: Statistical Analysis of Contingency Tables
Description: Provides functions to perform statistical inference of data organized in contingency tables. This package is a companion to the "Statistical Analysis of Contingency Tables" book by Fagerland et al. <ISBN 9781466588172>.
Author: Morten Wang Fagerland [aut],
Stian Lydersen [ctb],
Petter Laake [ctb],
Waldir Leoncio [cre],
Ole Christian Lingjaerde [trl],
Brad J. Biggerstaff [ctb]
Maintainer: Waldir Leoncio <w.l.netto@medisin.uio.no>
Diff between contingencytables versions 2.2.0 dated 2023-10-09 and 2.2.1 dated 2024-01-11
DESCRIPTION | 8 MD5 | 175 +++++++++--------- NEWS.md | 5 R/Adjusted_inv_sinh_CI_OR_2x2.R | 2 R/Adjusted_inv_sinh_CI_ratio_2x2.R | 2 R/Adjusted_log_CI_2x2.R | 2 R/AgrestiCaffo_CI_2x2.R | 2 R/AgrestiCoull_CI_1x2.R | 2 R/Arcsine_CI_1x2.R | 2 R/BaptistaPike_exact_conditional_CI_2x2.R | 2 R/BaptistaPike_midP_CI_2x2.R | 2 R/Bhapkar_test_paired_cxc.R | 2 R/Blaker_exact_CI_1x2.R | 2 R/Blaker_exact_test_1x2.R | 2 R/Blaker_midP_CI_1x2.R | 2 R/Blaker_midP_test_1x2.R | 2 R/BonettPrice_hybrid_Wilson_score_CI_CC_paired_2x2.R | 2 R/BonettPrice_hybrid_Wilson_score_CI_paired_2x2.R | 2 R/Bonferroni_type_CIs_paired_cxc.R | 4 R/Bonferroni_type_CIs_rxc.R | 4 R/Brant_test_2xc.R | 2 R/BreslowDay_homogeneity_test_stratified_2x2.R | 2 R/Chacko_test_1xc.R | 2 R/ClopperPearson_exact_CI_1x2.R | 2 R/ClopperPearson_exact_CI_1x2_beta_version.R | 2 R/ClopperPearson_midP_CI_1x2.R | 2 R/CochranArmitage_CI_rx2.R | 2 R/CochranArmitage_MH_tests_rx2.R | 6 R/CochranArmitage_exact_cond_midP_tests_rx2.R | 4 R/CochranMantelHaenszel_test_stratified_2x2.R | 2 R/Cochran_Q_test_stratified_2x2.R | 2 R/Cornfield_exact_conditional_CI_2x2.R | 2 R/Cornfield_midP_CI_2x2.R | 2 R/Cumulative_models_for_2xc.R | 30 +-- R/Cumulative_models_for_rxc.R | 26 +- R/Exact_binomial_test_1x2.R | 2 R/Exact_cond_midP_linear_rank_tests_2xc.R | 6 R/Exact_cond_midP_tests_rxc.R | 24 +- R/Exact_cond_midP_unspecific_ordering_rx2.R | 4 R/KruskalWallis_asymptotic_test_rxc.R | 6 R/ML_estimates_and_CIs_stratified_2x2.R | 8 R/McNemar_exact_unconditional_test_paired_2x2.R | 18 - R/Pearson_LR_homogeneity_test_stratified_2x2.R | 4 R/Pearson_LR_test_common_effect_stratified_2x2.R | 4 R/Pearson_LR_tests_cum_OR_2xc.R | 4 R/Pearson_LR_tests_rxc.R | 4 R/Pearson_LR_tests_unspecific_ordering_rx2.R | 4 R/Pearson_residuals_rxc.R | 4 R/QuesenberryHurst_Wilson_score_CIs_1xc.R | 2 R/RBG_test_and_CI_stratified_2x2.R | 4 R/Scheffe_type_CIs_paired_cxc.R | 2 R/Scheffe_type_CIs_rxc.R | 2 R/Score_test_and_CI_marginal_mean_scores_paired_cxc.R | 4 R/Spearman_correlation_coefficient_rxc.R | 4 R/Stuart_test_paired_cxc.R | 10 - R/Tang_asymptotic_score_CI_paired_2x2.R | 2 R/Tango_asymptotic_score_CI_paired_2x2.R | 2 R/Trend_estimate_CI_tests_rx2.R | 10 - R/Wald_CI_1x2.R | 2 R/Wald_CI_OR_paired_2x2.R | 3 R/Woolf_test_and_CI_stratified_2x2.R | 4 R/gamma_coefficient_rxc.R | 10 - R/misc.R | 10 - R/print_functions.R | 6 R/stratified_2x2_tables.R | 2 R/the_2x2_table_CIs_OR.R | 34 +-- R/the_2x2_table_CIs_difference.R | 20 +- R/the_2x2_table_CIs_ratio.R | 24 +- R/the_2x2_table_tests.R | 40 +--- R/the_2xc_table.R | 98 +++++----- R/the_paired_2x2_table_CIs_OR.R | 20 +- R/the_paired_2x2_table_CIs_difference.R | 24 +- R/the_paired_2x2_table_CIs_ratio.R | 24 +- R/the_paired_2x2_table_tests.R | 20 +- R/the_paired_cxc_table_nominal.R | 34 +-- R/the_paired_cxc_table_ordinal.R | 44 ++-- R/the_rx2_table.R | 74 +++---- R/the_rxc_table.R | 116 +++++------ man/Exact_cond_midP_linear_rank_tests_2xc.Rd | 2 man/McNemar_exact_unconditional_test_paired_2x2.Rd | 6 man/the_2x2_table_tests.Rd | 10 - tests/testthat/test-ch10.R | 4 tests/testthat/test-ch2.R | 28 ++ tests/testthat/test-ch4.R | 24 ++ tests/testthat/test-ch5.R | 13 + tests/testthat/test-ch7.R | 8 tests/testthat/test-ch8.R | 36 +++ tests/testthat/test-ch9.R | 25 ++ tests/testthat/test-help.R |only 89 files changed, 663 insertions(+), 550 deletions(-)
More information about contingencytables at CRAN
Permanent link
Title: Advanced and Fast Data Transformation
Description: A C/C++ based package for advanced data transformation and
statistical computing in R that is extremely fast, class-agnostic, robust and
programmer friendly. Core functionality includes a rich set of S3 generic grouped
and weighted statistical functions for vectors, matrices and data frames, which
provide efficient low-level vectorizations, OpenMP multithreading, and skip missing
values by default. These are integrated with fast grouping and ordering algorithms
(also callable from C), and efficient data manipulation functions. The package also
provides a flexible and rigorous approach to time series and panel data in R.
It further includes fast functions for common statistical procedures, detailed
(grouped, weighted) summary statistics, powerful tools to work with nested data,
fast data object conversions, functions for memory efficient R programming, and
helpers to effectively deal with variable labels, attributes, and missing data.
It is well integrated with base R classes, 'dplyr'/' [...truncated...]
Author: Sebastian Krantz [aut, cre] ,
Matt Dowle [ctb],
Arun Srinivasan [ctb],
Morgan Jacob [ctb],
Dirk Eddelbuettel [ctb],
Laurent Berge [ctb],
Kevin Tappe [ctb],
R Core Team and contributors worldwide [ctb],
Martyn Plummer [cph],
1999-2016 The R Core Team [...truncated...]
Maintainer: Sebastian Krantz <sebastian.krantz@graduateinstitute.ch>
Diff between collapse versions 2.0.7 dated 2023-12-07 and 2.0.9 dated 2024-01-11
DESCRIPTION | 8 - MD5 | 48 +++---- NAMESPACE | 2 NEWS.md | 22 +++ R/global_macros.R | 33 +++-- R/indexing.R | 2 R/join.R | 28 ++-- R/pivot.R | 9 + R/recode_replace.R | 27 ++-- R/small_helper.R | 4 R/varying.R | 8 - R/zzz.R | 13 +- inst/doc/collapse_documentation.html | 4 inst/doc/collapse_for_tidyverse_users.Rmd | 4 inst/doc/collapse_for_tidyverse_users.html | 10 - inst/doc/collapse_object_handling.html | 6 man/collapse-renamed.Rd | 2 man/efficient-programming.Rd | 8 - man/fquantile.Rd | 9 - man/recode-replace.Rd | 3 src/ExportSymbols.c | 4 src/collapse_c.h | 4 src/fnth_fmedian_fquantile.c | 33 ++--- src/programming.c | 180 ++++++++++++++++++++++++++--- vignettes/collapse_for_tidyverse_users.Rmd | 4 25 files changed, 342 insertions(+), 133 deletions(-)
Title: Multidimensional Cluster Generation Using Support Lines
Description: An implementation of the clugen algorithm for generating
multidimensional clusters with arbitrary distributions. Each cluster is
supported by a line segment, the position, orientation and length of which
guide where the respective points are placed. This package is described in
Fachada & de Andrade (2023) <doi:10.1016/j.knosys.2023.110836>.
Author: Nuno Fachada [aut, cre, cph]
Maintainer: Nuno Fachada <faken@fakenmc.com>
Diff between clugenr versions 1.0.2 dated 2023-12-15 and 1.0.3 dated 2024-01-11
DESCRIPTION | 13 MD5 | 62 +-- build/clugenr.pdf |binary build/stage23.rdb |binary inst/doc/dev.R | 4 inst/doc/dev.Rmd | 9 inst/doc/dev.html | 240 +-------------- inst/doc/examples2d.R | 2 inst/doc/examples2d.Rmd | 7 inst/doc/examples2d.html | 266 ++-------------- inst/doc/examples3d1.R | 44 +- inst/doc/examples3d1.Rmd | 52 +-- inst/doc/examples3d1.html | 322 ++++---------------- inst/doc/examples3d2.R | 44 +- inst/doc/examples3d2.Rmd | 52 +-- inst/doc/examples3d2.html | 322 ++++---------------- inst/doc/examplesmrg.R | 2 inst/doc/examplesmrg.Rmd | 7 inst/doc/examplesmrg.html | 250 ++------------- inst/doc/examplesnd.R | 2 inst/doc/examplesnd.Rmd | 7 inst/doc/examplesnd.html | 244 ++------------- inst/doc/theory.Rmd | 402 ------------------------- inst/doc/theory.html | 735 +--------------------------------------------- man/clugenr-package.Rd | 1 vignettes/dev.Rmd | 9 vignettes/examples2d.Rmd | 7 vignettes/examples3d1.Rmd | 52 +-- vignettes/examples3d2.Rmd | 52 +-- vignettes/examplesmrg.Rmd | 7 vignettes/examplesnd.Rmd | 7 vignettes/theory.Rmd | 402 ------------------------- 32 files changed, 577 insertions(+), 3048 deletions(-)
Title: Interface with the Brickset API for Getting Data About LEGO Sets
Description: Interface with the 'Brickset' API
<https://brickset.com/article/52664/api-version-3-documentation> for
getting data about LEGO sets. Data sets that
can be used for teaching and learning without the need of a 'Brickset'
account and API key are also included. Includes all LEGO since through
the end of 2023.
Author: Jason Bryer [aut, cre]
Maintainer: Jason Bryer <jason@bryer.org>
Diff between brickset versions 2022.0.0 dated 2023-03-24 and 2024.0.0 dated 2024-01-11
DESCRIPTION | 14 +-- MD5 | 33 +++++--- NAMESPACE | 2 NEWS.md | 11 ++ R/download_reviews.R |only R/getInstructions.R | 5 + R/getReviews.R | 4 + R/getSets.R | 10 +- R/getSubthemes.R | 5 + R/getThemes.R | 5 + R/getYears.R | 5 + README.md | 186 ++++++++++++++++++++++++------------------------ data/legosets.rda |binary inst |only man/download_reviews.Rd |only man/figures |only man/getSets.Rd | 62 ++++++++-------- man/legosets.Rd | 62 ++++++++-------- 18 files changed, 228 insertions(+), 176 deletions(-)
More information about BayesFBHborrow at CRAN
Permanent link
Title: Probabilistic Factor Analysis for Spatially-Aware Dimension
Reduction
Description: Probabilistic factor analysis for spatially-aware dimension reduction across multi-section spatial transcriptomics data with millions of spatial locations.
More details can be referred to Wei Liu, et al. (2023) <doi:10.1101/2023.07.11.548486>.
Author: Wei Liu [aut, cre],
Xiao Zhang [aut],
Jin Liu [aut]
Maintainer: Wei Liu <wei.liu@duke-nus.edu.sg>
Diff between ProFAST versions 1.2 dated 2023-06-08 and 1.3 dated 2024-01-11
ProFAST-1.2/ProFAST/inst/doc/ProFASTdlpfc2.R |only ProFAST-1.2/ProFAST/inst/doc/ProFASTdlpfc2.Rmd |only ProFAST-1.2/ProFAST/inst/doc/ProFASTdlpfc2.html |only ProFAST-1.2/ProFAST/inst/doc/ProFASTsimu.R |only ProFAST-1.2/ProFAST/inst/doc/ProFASTsimu.Rmd |only ProFAST-1.2/ProFAST/inst/doc/ProFASTsimu.html |only ProFAST-1.2/ProFAST/man/AddParSettingProFAST.Rd |only ProFAST-1.2/ProFAST/man/ProFAST.Rd |only ProFAST-1.2/ProFAST/man/ProFAST_run.Rd |only ProFAST-1.2/ProFAST/man/ProFAST_structure.Rd |only ProFAST-1.2/ProFAST/man/model_set_ProFAST.Rd |only ProFAST-1.2/ProFAST/vignettes/ProFASTdlpfc2.Rmd |only ProFAST-1.2/ProFAST/vignettes/ProFASTsimu.Rmd |only ProFAST-1.3/ProFAST/DESCRIPTION | 10 - ProFAST-1.3/ProFAST/MD5 | 42 +++---- ProFAST-1.3/ProFAST/NAMESPACE | 10 - ProFAST-1.3/ProFAST/R/iSCMEB.R | 44 +++---- ProFAST-1.3/ProFAST/R/main.R | 133 ++++++++++++------------ ProFAST-1.3/ProFAST/README.md | 10 - ProFAST-1.3/ProFAST/build/vignette.rds |binary ProFAST-1.3/ProFAST/inst/doc/FASTdlpfc2.R |only ProFAST-1.3/ProFAST/inst/doc/FASTdlpfc2.Rmd |only ProFAST-1.3/ProFAST/inst/doc/FASTdlpfc2.html |only ProFAST-1.3/ProFAST/inst/doc/FASTsimu.R |only ProFAST-1.3/ProFAST/inst/doc/FASTsimu.Rmd |only ProFAST-1.3/ProFAST/inst/doc/FASTsimu.html |only ProFAST-1.3/ProFAST/man/AddParSettingFAST.Rd |only ProFAST-1.3/ProFAST/man/FAST.Rd |only ProFAST-1.3/ProFAST/man/FAST_run.Rd |only ProFAST-1.3/ProFAST/man/FAST_structure.Rd |only ProFAST-1.3/ProFAST/man/IntegrateSRTData.Rd | 2 ProFAST-1.3/ProFAST/man/model_set_FAST.Rd |only ProFAST-1.3/ProFAST/src/DR_removebatch.cpp | 4 ProFAST-1.3/ProFAST/vignettes/FASTdlpfc2.Rmd |only ProFAST-1.3/ProFAST/vignettes/FASTsimu.Rmd |only 35 files changed, 128 insertions(+), 127 deletions(-)
Title: R Interface for the 'H2O' Scalable Machine Learning Platform
Description: R interface for 'H2O', the scalable open source machine learning
platform that offers parallelized implementations of many supervised and
unsupervised machine learning algorithms such as Generalized Linear
Models (GLM), Gradient Boosting Machines (including XGBoost), Random Forests,
Deep Neural Networks (Deep Learning), Stacked Ensembles, Naive Bayes,
Generalized Additive Models (GAM), ANOVA GLM, Cox Proportional Hazards, K-Means, PCA, ModelSelection,
Word2Vec, as well as a fully automatic machine learning algorithm (H2O AutoML).
Author: Tomas Fryda [aut, cre],
Erin LeDell [aut],
Navdeep Gill [aut],
Spencer Aiello [aut],
Anqi Fu [aut],
Arno Candel [aut],
Cliff Click [aut],
Tom Kraljevic [aut],
Tomas Nykodym [aut],
Patrick Aboyoun [aut],
Michal Kurka [aut],
Michal Malohlava [aut],
Seb [...truncated...]
Maintainer: Tomas Fryda <tomas.fryda@h2o.ai>
Diff between h2o versions 3.42.0.2 dated 2023-08-09 and 3.44.0.3 dated 2024-01-11
DESCRIPTION | 12 MD5 | 137 ++++----- NAMESPACE | 8 R/adaboost.R |only R/classes.R | 4 R/connection.R | 16 - R/deeplearning.R | 14 R/explain.R | 159 ++++++---- R/export.R | 12 R/extendedisolationforest.R | 23 + R/frame.R | 4 R/gam.R | 11 R/glm.R | 9 R/import.R | 17 - R/logging.R | 4 R/models.R | 485 +++++++++++++++++++++++++++----- R/parse.R | 17 - R/predict.R | 30 + R/randomforest.R | 2 R/stackedensemble.R | 16 - R/tf-idf.R | 1 R/upliftrandomforest.R | 9 R/zzz.R | 7 inst/branch.txt | 2 inst/buildnum.txt | 2 man/as.h2o.Rd | 2 man/h2o-package.Rd | 6 man/h2o.adaBoost.Rd |only man/h2o.aggregator.Rd | 4 man/h2o.anovaglm.Rd | 7 man/h2o.api.Rd | 12 man/h2o.atc.Rd |only man/h2o.ate.Rd |only man/h2o.att.Rd |only man/h2o.automl.Rd | 4 man/h2o.cut.Rd | 2 man/h2o.decision_tree.Rd | 4 man/h2o.deeplearning.Rd | 13 man/h2o.explain.Rd | 6 man/h2o.explain_row.Rd | 6 man/h2o.exportFile.Rd | 6 man/h2o.extendedIsolationForest.Rd | 15 man/h2o.fair_shap_plot.Rd | 11 man/h2o.gam.Rd | 15 man/h2o.gbm.Rd | 7 man/h2o.glm.Rd | 15 man/h2o.glrm.Rd | 3 man/h2o.h.Rd | 3 man/h2o.importFile.Rd | 8 man/h2o.infogram.Rd | 3 man/h2o.inspect_model_fairness.Rd | 6 man/h2o.isolationForest.Rd | 4 man/h2o.kmeans.Rd | 4 man/h2o.learning_curve_plot.Rd | 3 man/h2o.make_metrics.Rd | 9 man/h2o.modelSelection.Rd | 7 man/h2o.naiveBayes.Rd | 3 man/h2o.parseRaw.Rd | 5 man/h2o.parseSetup.Rd | 5 man/h2o.partialPlot.Rd | 15 man/h2o.performance.Rd | 5 man/h2o.randomForest.Rd | 9 man/h2o.result.Rd |only man/h2o.rulefit.Rd | 3 man/h2o.shap_explain_row_plot.Rd | 5 man/h2o.shap_summary_plot.Rd | 5 man/h2o.stackedEnsemble.Rd | 9 man/h2o.thresholds_and_metric_scores.Rd | 19 - man/h2o.transform_frame.Rd |only man/h2o.upliftRandomForest.Rd | 9 man/h2o.xgboost.Rd | 7 man/predict_contributions.H2OModel.Rd | 26 + man/row_to_tree_assignment.H2OModel.Rd | 2 73 files changed, 974 insertions(+), 339 deletions(-)
Title: Functions to Help in your Coding Etiquette
Description: Adds some functions to help in your coding etiquette.
'tinycodet' primarily focuses on 4 aspects.
1) Safer decimal (in)equality testing, safer atomic conversions, and other functions for safer coding.
2) A new package import system,
that attempts to combine the benefits of using a package without attaching it,
with the benefits of attaching a package.
3) Extending the string manipulation capabilities of the 'stringi' R package.
4) Reducing repetitive code.
Besides linking to 'Rcpp', 'tinycodet' has only one other dependency, namely 'stringi'.
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tony_a_wilkes@outlook.com>
Diff between tinycodet versions 0.3.0 dated 2023-12-11 and 0.4.0 dated 2024-01-11
tinycodet-0.3.0/tinycodet/R/str_truth.R |only tinycodet-0.3.0/tinycodet/inst/tinytest/regular/test-str_truth.R |only tinycodet-0.3.0/tinycodet/man/str_truth.Rd |only tinycodet-0.4.0/tinycodet/DESCRIPTION | 17 tinycodet-0.4.0/tinycodet/MD5 | 150 ++-- tinycodet-0.4.0/tinycodet/NAMESPACE | 10 tinycodet-0.4.0/tinycodet/NEWS.md | 33 tinycodet-0.4.0/tinycodet/R/RcppExports.R |only tinycodet-0.4.0/tinycodet/R/atomic_conversions.R | 2 tinycodet-0.4.0/tinycodet/R/bin.R | 7 tinycodet-0.4.0/tinycodet/R/decimal_truth.R | 6 tinycodet-0.4.0/tinycodet/R/import_as.R | 15 tinycodet-0.4.0/tinycodet/R/import_data.R | 4 tinycodet-0.4.0/tinycodet/R/import_inops.R | 27 tinycodet-0.4.0/tinycodet/R/import_inops.control.R | 10 tinycodet-0.4.0/tinycodet/R/import_misc.R | 8 tinycodet-0.4.0/tinycodet/R/inplace.R | 10 tinycodet-0.4.0/tinycodet/R/internal_functions.R | 1 tinycodet-0.4.0/tinycodet/R/lock.R | 12 tinycodet-0.4.0/tinycodet/R/logic_ops.R | 33 tinycodet-0.4.0/tinycodet/R/matrix_ops.R | 20 tinycodet-0.4.0/tinycodet/R/meta_functions.R | 2 tinycodet-0.4.0/tinycodet/R/pkgs.R | 8 tinycodet-0.4.0/tinycodet/R/pversion.R | 6 tinycodet-0.4.0/tinycodet/R/s_pattern.R | 80 +- tinycodet-0.4.0/tinycodet/R/source_selection.R | 10 tinycodet-0.4.0/tinycodet/R/str_arithmetic.R | 92 +- tinycodet-0.4.0/tinycodet/R/str_search.R |only tinycodet-0.4.0/tinycodet/R/str_subset_ops.R | 52 + tinycodet-0.4.0/tinycodet/R/strcut.R | 41 - tinycodet-0.4.0/tinycodet/R/stri_join_mat.R | 8 tinycodet-0.4.0/tinycodet/R/stri_locate_ith.R | 338 ++++++---- tinycodet-0.4.0/tinycodet/R/subset_if.R | 18 tinycodet-0.4.0/tinycodet/R/tinycodet_dry.R | 10 tinycodet-0.4.0/tinycodet/R/tinycodet_help.R | 15 tinycodet-0.4.0/tinycodet/R/tinycodet_safer.R | 2 tinycodet-0.4.0/tinycodet/R/tinycodet_strings.R | 26 tinycodet-0.4.0/tinycodet/R/transform_if.R | 44 - tinycodet-0.4.0/tinycodet/R/x.import.R | 11 tinycodet-0.4.0/tinycodet/R/zzz.R | 2 tinycodet-0.4.0/tinycodet/inst/tinytest/count/count_number_of_tests.R | 4 tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-dry.R | 32 tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-logic_ops.R | 46 - tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-s_pattern.R | 119 ++- tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-str_arithmetic.R | 104 +-- tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-str_search.R |only tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-str_search_at.R |only tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-str_subset_ops.R | 21 tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-strcut.R | 66 + tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-strfind.R |only tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-stri_locate_ith.R | 179 +++++ tinycodet-0.4.0/tinycodet/inst/tinytest/regular/test-x.import.R | 9 tinycodet-0.4.0/tinycodet/man/aaa0_tinycodet_help.Rd | 10 tinycodet-0.4.0/tinycodet/man/aaa1_tinycodet_safer.Rd | 2 tinycodet-0.4.0/tinycodet/man/aaa3_tinycodet_strings.Rd | 23 tinycodet-0.4.0/tinycodet/man/aaa4_tinycodet_dry.Rd | 10 tinycodet-0.4.0/tinycodet/man/atomic_conversions.Rd | 2 tinycodet-0.4.0/tinycodet/man/decimal_truth.Rd | 2 tinycodet-0.4.0/tinycodet/man/import_as.Rd | 4 tinycodet-0.4.0/tinycodet/man/import_data.Rd | 2 tinycodet-0.4.0/tinycodet/man/import_inops.Rd | 6 tinycodet-0.4.0/tinycodet/man/import_misc.Rd | 4 tinycodet-0.4.0/tinycodet/man/inplace.Rd | 10 tinycodet-0.4.0/tinycodet/man/lock.Rd | 12 tinycodet-0.4.0/tinycodet/man/logic_ops.Rd | 12 tinycodet-0.4.0/tinycodet/man/matrix_ops.Rd | 20 tinycodet-0.4.0/tinycodet/man/pkgs.Rd | 8 tinycodet-0.4.0/tinycodet/man/pversion.Rd | 2 tinycodet-0.4.0/tinycodet/man/s_pattern.Rd | 51 - tinycodet-0.4.0/tinycodet/man/source_selection.Rd | 2 tinycodet-0.4.0/tinycodet/man/str_arithmetic.Rd | 62 + tinycodet-0.4.0/tinycodet/man/str_search.Rd |only tinycodet-0.4.0/tinycodet/man/str_subset_ops.Rd | 16 tinycodet-0.4.0/tinycodet/man/strcut.Rd | 24 tinycodet-0.4.0/tinycodet/man/stri_join_mat.Rd | 8 tinycodet-0.4.0/tinycodet/man/stri_locate_ith.Rd | 186 ++++- tinycodet-0.4.0/tinycodet/man/subset_if.Rd | 6 tinycodet-0.4.0/tinycodet/man/transform_if.Rd | 14 tinycodet-0.4.0/tinycodet/man/x.import.Rd | 2 tinycodet-0.4.0/tinycodet/src |only 80 files changed, 1498 insertions(+), 712 deletions(-)
Title: Matrix Exponential, Log, 'etc'
Description: Computation of the matrix exponential, logarithm, sqrt,
and related quantities, using traditional and modern methods.
Author: Martin Maechler [aut, cre] ,
Christophe Dutang [aut] ,
Vincent Goulet [aut] ,
Douglas Bates [ctb] ,
David Firth [ctb] ),
Marina Shapira [ctb] ),
Michael Stadelmann [ctb]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between expm versions 0.999-8 dated 2023-11-29 and 0.999-9 dated 2024-01-11
ChangeLog | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/balance.R | 6 ++++++ inst/doc/expm.pdf |binary man/balance.Rd | 6 ++++++ tests/ex.R | 4 ++++ tests/ex2.R | 4 ++-- 8 files changed, 34 insertions(+), 13 deletions(-)
Title: Extract and Tidy Canadian 'Hydrometric' Data
Description: Provides functions to access historical and real-time national 'hydrometric'
data from Water Survey of Canada data sources (<https://dd.weather.gc.ca/hydrometric/csv/> and
<https://collaboration.cmc.ec.gc.ca/cmc/hydrometrics/www/>) and then applies tidy data principles.
Author: Sam Albers [aut, cre] ,
David Hutchinson [ctb],
Dewey Dunnington [ctb],
Ryan Whaley [ctb],
Province of British Columbia [cph],
Government of Canada [dtc],
Luke Winslow [rev] ,
Laura DeCicco [rev]
Maintainer: Sam Albers <sam.albers@gmail.com>
Diff between tidyhydat versions 0.6.0 dated 2023-04-04 and 0.6.1 dated 2024-01-11
DESCRIPTION | 6 - MD5 | 60 +++++++++--------- NEWS.md | 5 + R/hy-classes.R | 2 R/realtime-classes.R | 2 R/realtime-webservice.R | 12 +-- R/realtime.R | 5 + R/utils-realtime.R | 4 + R/utils.R | 6 + README.md | 82 +++++++++++------------- build/partial.rdb |binary build/vignette.rds |binary data/allstations.rda |binary data/hy_data_symbols.rda |binary data/hy_data_types.rda |binary inst/doc/tidyhydat_an_introduction.Rmd | 86 ++++++++++++------------- inst/doc/tidyhydat_an_introduction.html | 90 +++++++++++++-------------- inst/doc/tidyhydat_example_analysis.Rmd | 46 +++++++------ inst/doc/tidyhydat_example_analysis.html | 50 +++++++-------- inst/doc/tidyhydat_hydat_db.Rmd | 36 ++++++---- inst/doc/tidyhydat_hydat_db.html | 38 ++++++----- man/figures/README-unnamed-chunk-8-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary tests/testthat/test-realtime-webservice.R | 5 - tests/testthat/test_daily_mean.R | 4 - tests/testthat/test_realtime_plot.R | 2 vignettes/tidyhydat_an_introduction.Rmd | 86 ++++++++++++------------- vignettes/tidyhydat_example_analysis.Rmd | 46 +++++++------ vignettes/tidyhydat_hydat_db.Rmd | 36 ++++++---- vignettes/vignette-fig-pcrtile_plt-1.png |binary vignettes/vignette-fig-unnamed-chunk-8-1.png |binary 31 files changed, 377 insertions(+), 332 deletions(-)
Title: A Universal Differential Expression Prediction Tool for
Single-Cell and Spatial Genomics Data
Description: One key exploratory analysis step in single-cell genomics data analysis
is the prediction of features with different activity levels. For example, we want
to predict differentially expressed genes (DEGs) in single-cell RNA-seq data,
spatial DEGs in spatial transcriptomics data, or differentially accessible
regions (DARs) in single-cell ATAC-seq data. 'singleCellHaystack' predicts differentially
active features in single cell omics datasets without relying on the clustering
of cells into arbitrary clusters. 'singleCellHaystack' uses Kullback-Leibler
divergence to find features (e.g., genes, genomic regions, etc) that are active
in subsets of cells that are non-randomly positioned inside an input space (such as
1D trajectories, 2D tissue sections, multi-dimensional embeddings, etc). For
the theoretical background of 'singleCellHaystack' we refer to our original paper
Vandenbon and Diez (Nature Communications, 2020) <doi:10.1038/s41467-020-17900-3>
and our update Vandenbon and Diez [...truncated...]
Author: Alexis Vandenbon [aut, cre] ,
Diego Diez [aut]
Maintainer: Alexis Vandenbon <alexis.vandenbon@gmail.com>
Diff between singleCellHaystack versions 1.0.0 dated 2022-12-20 and 1.0.2 dated 2024-01-11
DESCRIPTION | 13 +- MD5 | 26 ++--- NAMESPACE | 1 NEWS.md | 16 +++ R/debug.R | 48 ++++++++++ R/haystack_continuous.R | 15 ++- R/s3.R | 5 - R/singleCellHaystack-package.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 20 +++- inst/doc/a01_toy_example.html | 182 +++++++++++++++++++------------------- man/plot_compare_ranks.Rd |only man/plot_rand_KLD.Rd |only man/singleCellHaystack-package.Rd | 13 ++ 15 files changed, 225 insertions(+), 116 deletions(-)
More information about singleCellHaystack at CRAN
Permanent link
Title: 'FlexiBLAS' API Interface
Description: Provides functions to switch the 'BLAS'/'LAPACK' optimized backend
and change the number of threads without leaving the R session, which needs
to be linked against the 'FlexiBLAS' wrapper library
<https://www.mpi-magdeburg.mpg.de/projects/flexiblas>.
Author: Inaki Ucar [aut, cph, cre] ,
Martin Koehler [aut, cph]
Maintainer: Inaki Ucar <iucar@fedoraproject.org>
Diff between flexiblas versions 3.3.0 dated 2023-01-09 and 3.4.0 dated 2024-01-11
DESCRIPTION | 8 ++--- MD5 | 10 +++---- NEWS.md | 5 +++ build/partial.rdb |binary src/flexiblas_api.h | 57 +++++++++++----------------------------- src/flexiblas_api_standalone.c | 58 ++++++++++++----------------------------- 6 files changed, 47 insertions(+), 91 deletions(-)
Title: Easy Study of Patient DICOM Data in Oncology
Description: Exploitation, processing and 2D-3D visualization of DICOM-RT files (structures, dosimetry, imagery) for medical physics and clinical research, in a patient-oriented perspective.
Author: Cathy Fontbonne [aut, cre] ,
Jean-Marc Fontbonne [aut] ,
Nathan Azemar [ctb]
Maintainer: Cathy Fontbonne <contact.espadon@lpccaen.in2p3.fr>
Diff between espadon versions 1.4.1 dated 2023-08-28 and 1.5.1 dated 2024-01-11
espadon-1.4.1/espadon/R/mesh_distances.R |only espadon-1.5.1/espadon/DESCRIPTION | 6 espadon-1.5.1/espadon/MD5 | 124 espadon-1.5.1/espadon/NAMESPACE | 2 espadon-1.5.1/espadon/R/RcppExports.R | 4 espadon-1.5.1/espadon/R/Rdcm_inventory.R | 10 espadon-1.5.1/espadon/R/bin_closing.R | 2 espadon-1.5.1/espadon/R/bin_clustering.R | 2 espadon-1.5.1/espadon/R/bin_dilation.R | 2 espadon-1.5.1/espadon/R/bin_erosion.R | 2 espadon-1.5.1/espadon/R/bin_opening.R | 2 espadon-1.5.1/espadon/R/contour.R | 16 espadon-1.5.1/espadon/R/dicom_set_tag_value.R | 5 espadon-1.5.1/espadon/R/display_DVH.R | 2 espadon-1.5.1/espadon/R/display_DVH_pc.R | 2 espadon-1.5.1/espadon/R/display_dV_dx.R | 2 espadon-1.5.1/espadon/R/display_histo.R | 2 espadon-1.5.1/espadon/R/display_kplane.R | 120 espadon-1.5.1/espadon/R/display_plane.R | 9 espadon-1.5.1/espadon/R/dist_mesh.R |only espadon-1.5.1/espadon/R/dist_to_conformity.R |only espadon-1.5.1/espadon/R/espadon_class.R | 10 espadon-1.5.1/espadon/R/espadon_hidden.R | 226 espadon-1.5.1/espadon/R/get_extreme_pt.R | 8 espadon-1.5.1/espadon/R/get_plane.R | 4 espadon-1.5.1/espadon/R/load_Rdcm_raw_data.R | 34 espadon-1.5.1/espadon/R/load_obj_data.R | 2 espadon-1.5.1/espadon/R/mesh_from_bin.R | 2 espadon-1.5.1/espadon/R/nesting_cube.R | 6 espadon-1.5.1/espadon/R/nesting_roi.R | 12 espadon-1.5.1/espadon/R/polyg.R |only espadon-1.5.1/espadon/R/ref_srctodest_add.R | 2 espadon-1.5.1/espadon/R/rt_chi_index.R | 6 espadon-1.5.1/espadon/R/rt_gamma_index.R | 18 espadon-1.5.1/espadon/R/rt_indices_from_bin.R | 2 espadon-1.5.1/espadon/R/rt_indices_from_roi.R | 4 espadon-1.5.1/espadon/R/sp_similarity_from_bin.R |only espadon-1.5.1/espadon/R/sp_similarity_from_mesh.R |only espadon-1.5.1/espadon/R/struct_from_bin.R | 2 espadon-1.5.1/espadon/R/struct_from_mesh.R | 4 espadon-1.5.1/espadon/R/toy_load_patient.R | 4 espadon-1.5.1/espadon/build/espadon.pdf |19193 +++++++++---------- espadon-1.5.1/espadon/build/partial.rdb |binary espadon-1.5.1/espadon/build/stage23.rdb |binary espadon-1.5.1/espadon/inst/REFERENCES.bib | 36 espadon-1.5.1/espadon/inst/doc/espadon_overview.html | 4 espadon-1.5.1/espadon/man/bin.clustering.Rd | 2 espadon-1.5.1/espadon/man/display.DVH.Rd | 2 espadon-1.5.1/espadon/man/display.DVH.pc.Rd | 2 espadon-1.5.1/espadon/man/display.dV_dx.Rd | 2 espadon-1.5.1/espadon/man/display.histo.Rd | 2 espadon-1.5.1/espadon/man/display.kplane.Rd | 13 espadon-1.5.1/espadon/man/display.plane.Rd | 7 espadon-1.5.1/espadon/man/espadon.class.Rd | 10 espadon-1.5.1/espadon/man/get.extreme.pt.Rd | 6 espadon-1.5.1/espadon/man/get.plane.Rd | 4 espadon-1.5.1/espadon/man/load.obj.data.Rd | 2 espadon-1.5.1/espadon/man/mesh.from.bin.Rd | 2 espadon-1.5.1/espadon/man/ref.srctodest.add.Rd | 2 espadon-1.5.1/espadon/man/rt.chi.index.Rd | 6 espadon-1.5.1/espadon/man/rt.gamma.index.Rd | 6 espadon-1.5.1/espadon/man/rt.indices.from.bin.Rd | 2 espadon-1.5.1/espadon/man/rt.indices.from.roi.Rd | 4 espadon-1.5.1/espadon/man/sp.similarity.from.bin.Rd |only espadon-1.5.1/espadon/man/sp.similarity.from.mesh.Rd |only espadon-1.5.1/espadon/src/RcppExports.cpp | 9 espadon-1.5.1/espadon/src/ptinpolygonC.cpp | 18 67 files changed, 10314 insertions(+), 9680 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-08-08 2.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-04-27 1.1.0
2023-03-26 1.0.0
Title: Interface to the Global Biodiversity Information Facility API
Description: A programmatic interface to the Web Service methods
provided by the Global Biodiversity Information Facility (GBIF;
<https://www.gbif.org/developer/summary>). GBIF is a database
of species occurrence records from sources all over the globe.
rgbif includes functions for searching for taxonomic names,
retrieving information on data providers, getting species occurrence
records, getting counts of occurrence records, and using the GBIF
tile map service to make rasters summarizing huge amounts of data.
Author: Scott Chamberlain [aut] ,
Damiano Oldoni [aut] ,
Vijay Barve [ctb] ,
Peter Desmet [ctb] ,
Laurens Geffert [ctb],
Dan Mcglinn [ctb] ,
Karthik Ram [ctb] ,
rOpenSci [fnd] ,
John Waller [aut, cre]
Maintainer: John Waller <jwaller@gbif.org>
Diff between rgbif versions 3.7.8 dated 2023-09-11 and 3.7.9 dated 2024-01-11
rgbif-3.7.8/rgbif/R/dataset_metrics.r |only rgbif-3.7.8/rgbif/data |only rgbif-3.7.8/rgbif/man/dataset_metrics.Rd |only rgbif-3.7.8/rgbif/man/dataset_suggest.Rd |only rgbif-3.7.8/rgbif/man/isocodes.Rd |only rgbif-3.7.8/rgbif/man/occ_fields.Rd |only rgbif-3.7.8/rgbif/man/typestatus.Rd |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_metrics.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_metrics_error.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_search_keyword.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_search_limit.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_search_query.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_search_repeated_params.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_search_return.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_search_same_length.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_suggest_limit.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_suggest_query.yml |only rgbif-3.7.8/rgbif/tests/fixtures/dataset_suggest_repeated.yml |only rgbif-3.7.8/rgbif/tests/testthat/test-dataset_metrics.r |only rgbif-3.7.9/rgbif/DESCRIPTION | 7 rgbif-3.7.9/rgbif/MD5 | 145 rgbif-3.7.9/rgbif/NAMESPACE | 15 rgbif-3.7.9/rgbif/NEWS.md | 32 rgbif-3.7.9/rgbif/R/count_facet.r | 6 rgbif-3.7.9/rgbif/R/dataset.R |only rgbif-3.7.9/rgbif/R/dataset_doi.R |only rgbif-3.7.9/rgbif/R/dataset_export.R |only rgbif-3.7.9/rgbif/R/dataset_list_funs.R |only rgbif-3.7.9/rgbif/R/dataset_search.r | 349 rgbif-3.7.9/rgbif/R/dataset_suggest.r | 200 rgbif-3.7.9/rgbif/R/dataset_uuid_funs.R |only rgbif-3.7.9/rgbif/R/datasets.r | 53 rgbif-3.7.9/rgbif/R/globals.r | 6 rgbif-3.7.9/rgbif/R/occ_count.r | 2 rgbif-3.7.9/rgbif/R/organizations.r | 3 rgbif-3.7.9/rgbif/R/rgb_country_codes.r | 33 rgbif-3.7.9/rgbif/R/rgbif-package.r | 32 rgbif-3.7.9/rgbif/man/count_facet.Rd | 4 rgbif-3.7.9/rgbif/man/dataset.Rd |only rgbif-3.7.9/rgbif/man/dataset_doi.Rd |only rgbif-3.7.9/rgbif/man/dataset_list_funs.Rd |only rgbif-3.7.9/rgbif/man/dataset_search.Rd | 262 rgbif-3.7.9/rgbif/man/dataset_uuid_funs.Rd |only rgbif-3.7.9/rgbif/man/name_lookup.Rd | 2 rgbif-3.7.9/rgbif/man/occ_data.Rd | 1 rgbif-3.7.9/rgbif/man/occ_search.Rd | 1 rgbif-3.7.9/rgbif/man/organizations.Rd | 3 rgbif-3.7.9/rgbif/man/rgb_country_codes.Rd | 2 rgbif-3.7.9/rgbif/tests/fixtures/dataset.yml |only rgbif-3.7.9/rgbif/tests/fixtures/dataset_doi.yml |only rgbif-3.7.9/rgbif/tests/fixtures/dataset_search.yml | 8185 ++++++---- rgbif-3.7.9/rgbif/tests/fixtures/dataset_search_facet.yml |only rgbif-3.7.9/rgbif/tests/fixtures/dataset_suggest.yml | 5982 +++++-- rgbif-3.7.9/rgbif/tests/fixtures/dataset_suggest_description.yml | 3073 ++- rgbif-3.7.9/rgbif/tests/fixtures/dataset_uuid_funs.yml |only rgbif-3.7.9/rgbif/tests/fixtures/name_backbone.yml | 8 rgbif-3.7.9/rgbif/tests/fixtures/name_backbone_verbose_true.yml | 39 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_catalognumber.yml | 2 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_coordinateUncertaintyInMeters.yml | 302 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_degreeOfEstablishment.yml | 806 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_depth.yml | 8 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_distanceFromCentroidInMeters.yml | 450 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_elevation.yml | 82 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_eventId.yml | 104 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_fails_well.yml | 4 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_gadmGid.yml | 418 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_hierarchy_data.yml | 205 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_identifiedBy.yml | 1087 - rgbif-3.7.9/rgbif/tests/fixtures/occ_search_isInCluster.yml | 117 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_iucnRedListCategory.yml | 347 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_key_gbifid_character_class.yml | 511 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_lifeStage.yml | 737 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_many_inputs.yml | 2398 +- rgbif-3.7.9/rgbif/tests/fixtures/occ_search_networkKey.yml | 741 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_occurrenceId.yml | 157 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_occurrencestatus.yml | 196 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_organismQuantity.yml | 48 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_organismQuantityType.yml | 32 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_relativeOrganismQuantity.yml | 115 rgbif-3.7.9/rgbif/tests/fixtures/occ_search_scientificname.yml | 1222 - rgbif-3.7.9/rgbif/tests/fixtures/occ_search_speciesKey.yml | 1167 - rgbif-3.7.9/rgbif/tests/fixtures/occ_search_verbatimScientificName.yml | 1225 - rgbif-3.7.9/rgbif/tests/testthat/test-country_codes.r | 27 rgbif-3.7.9/rgbif/tests/testthat/test-dataset.R |only rgbif-3.7.9/rgbif/tests/testthat/test-dataset_doi.R |only rgbif-3.7.9/rgbif/tests/testthat/test-dataset_export.R |only rgbif-3.7.9/rgbif/tests/testthat/test-dataset_list_funs.R |only rgbif-3.7.9/rgbif/tests/testthat/test-dataset_search.r | 425 rgbif-3.7.9/rgbif/tests/testthat/test-dataset_suggest.r | 281 rgbif-3.7.9/rgbif/tests/testthat/test-dataset_uuid_funs.R |only rgbif-3.7.9/rgbif/tests/testthat/test-name_backbone.r | 8 91 files changed, 19206 insertions(+), 12461 deletions(-)
Title: Prepare Reproducible Example Code via the Clipboard
Description: Convenience wrapper that uses the 'rmarkdown' package to
render small snippets of code to target formats that include both code
and output. The goal is to encourage the sharing of small,
reproducible, and runnable examples on code-oriented websites, such as
<https://stackoverflow.com> and <https://github.com>, or in email. The
user's clipboard is the default source of input code and the default
target for rendered output. 'reprex' also extracts clean, runnable R
code from various common formats, such as copy/paste from an R
session.
Author: Jennifer Bryan [aut, cre] ,
Jim Hester [aut] ,
David Robinson [aut],
Hadley Wickham [aut] ,
Christophe Dervieux [aut] ,
Posit Software, PBC [cph, fnd]
Maintainer: Jennifer Bryan <jenny@posit.co>
Diff between reprex versions 2.0.2 dated 2022-08-17 and 2.1.0 dated 2024-01-11
DESCRIPTION | 31 +++--- LICENSE | 2 MD5 | 46 ++++----- NEWS.md | 9 + R/reprex-addin.R | 3 R/reprex-package.R | 1 R/reprex-undo.R | 29 +++--- R/reprex.R | 14 -- R/reprex_document.R | 3 R/reprex_impl.R | 1 R/reprex_render.R | 8 + R/utils-io.R | 2 README.md | 8 - build/vignette.rds |binary inst/WORDLIST | 5 - inst/doc/reprex-dos-and-donts.html | 178 +++++++++++++++++++------------------ man/figures/logo.png |binary man/reprex-package.Rd | 13 +- man/reprex.Rd | 13 -- man/reprex_addin.Rd | 3 man/un-reprex.Rd | 27 ++--- tests/testthat/_snaps/utils-io.md | 12 +- tests/testthat/helper.R | 24 ++++ tests/testthat/test-utils.R | 18 +-- 24 files changed, 236 insertions(+), 214 deletions(-)
Title: Multiple Criteria Optimization Algorithms and Related Functions
Description: A collection of function to solve multiple criteria optimization problems
using genetic algorithms (NSGA-II). Also included is a collection of test functions.
Author: Olaf Mersmann [aut, cre],
Heike Trautmann [ctb],
Detlef Steuer [ctb],
Bernd Bischl [ctb],
Kalyanmoy Deb [cph]
Maintainer: Olaf Mersmann <olafm@p-value.net>
Diff between mco versions 1.15.6 dated 2020-10-09 and 1.16 dated 2024-01-11
DESCRIPTION | 18 ++++++++---------- MD5 | 9 +++++---- build/mco.pdf |binary build/stage23.rdb |only man/generationalDistance.Rd | 2 +- src/nsga2.c | 8 ++++---- 6 files changed, 18 insertions(+), 19 deletions(-)
Title: Forecasting Tipping Points at the Community Level
Description: Rolling and expanding window approaches to assessing abundance based early warning signals, non-equilibrium resilience measures, and machine learning. See Dakos et al. (2012) <doi:10.1371/journal.pone.0041010>, Deb et al. (2022) <doi:10.1098/rsos.211475>, Drake and Griffen (2010) <doi:10.1038/nature09389>, Ushio et al. (2018) <doi:10.1038/nature25504> and Weinans et al. (2021) <doi:10.1038/s41598-021-87839-y> for methodological details. Graphical presentation of the outputs are also provided for clear and publishable figures. Visit the 'EWSmethods' website for more information, and tutorials.
Author: Duncan O'Brien [aut, cre, cph]
,
Smita Deb [aut] ,
Sahil Sidheekh [aut],
Narayanan Krishnan [aut],
Partha Dutta [aut] ,
Christopher Clements [aut]
Maintainer: Duncan O'Brien <duncan.a.obrien@gmail.com>
Diff between EWSmethods versions 1.2.4 dated 2024-01-09 and 1.2.5 dated 2024-01-11
DESCRIPTION | 12 +++---- MD5 | 10 +++--- NEWS.md | 3 + R/reset_ewsnet.R | 56 ++++++++++++++++++++++++++++--------- inst/doc/ews_assessments.html | 4 +- tests/testthat/test-reset_ewsnet.R | 11 ++++++- 6 files changed, 69 insertions(+), 27 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-05-19 0.5.0
2020-12-16 0.4.1
2020-11-19 0.4.0
2019-10-24 0.3.0
2019-01-10 0.2.0
2017-04-21 0.1.0
Title: Rectangle Nested Lists
Description: A tool to rectangle a nested list, that is to convert it into
a tibble. This is done automatically or according to a given
specification. A common use case is for nested lists coming from
parsing JSON files or the JSON response of REST APIs. It is supported
by the 'vctrs' package and therefore offers a wide support of vector
types.
Author: Maximilian Girlich [aut, cre, cph],
Kirill Mueller [ctb]
Maintainer: Maximilian Girlich <maximilian.girlich@outlook.com>
Diff between tibblify versions 0.3.0 dated 2022-11-16 and 0.3.1 dated 2024-01-11
tibblify-0.3.0/tibblify/R/compat-obj-type.R |only tibblify-0.3.0/tibblify/R/compat-types-check.R |only tibblify-0.3.0/tibblify/R/lcols.R |only tibblify-0.3.0/tibblify/man/lcol_lgl.Rd |only tibblify-0.3.0/tibblify/man/lcols.Rd |only tibblify-0.3.1/tibblify/DESCRIPTION | 22 tibblify-0.3.1/tibblify/MD5 | 159 +- tibblify-0.3.1/tibblify/NAMESPACE | 24 tibblify-0.3.1/tibblify/NEWS.md | 15 tibblify-0.3.1/tibblify/R/format.R | 8 tibblify-0.3.1/tibblify/R/guess_utils.R |only tibblify-0.3.1/tibblify/R/import-standalone-obj-type.R |only tibblify-0.3.1/tibblify/R/import-standalone-types-check.R |only tibblify-0.3.1/tibblify/R/parse-open-api.R |only tibblify-0.3.1/tibblify/R/shape_utils.R | 149 +- tibblify-0.3.1/tibblify/R/spec_combine.R | 20 tibblify-0.3.1/tibblify/R/spec_guess.R | 178 -- tibblify-0.3.1/tibblify/R/spec_guess_df.R | 138 -- tibblify-0.3.1/tibblify/R/spec_guess_object.R | 50 tibblify-0.3.1/tibblify/R/spec_guess_object_list.R | 186 +- tibblify-0.3.1/tibblify/R/spec_inform_unspecified.R |only tibblify-0.3.1/tibblify/R/tib_spec.R | 201 +-- tibblify-0.3.1/tibblify/R/tibblify.R | 11 tibblify-0.3.1/tibblify/R/unnest-tree.R | 7 tibblify-0.3.1/tibblify/R/unpack-tspec.R |only tibblify-0.3.1/tibblify/R/utils.R | 44 tibblify-0.3.1/tibblify/README.md | 83 - tibblify-0.3.1/tibblify/build/vignette.rds |binary tibblify-0.3.1/tibblify/inst/doc/overview-supported-structures.R | 2 tibblify-0.3.1/tibblify/inst/doc/overview-supported-structures.html | 541 ++++---- tibblify-0.3.1/tibblify/inst/doc/tibblify.R | 2 tibblify-0.3.1/tibblify/inst/doc/tibblify.html | 667 ++++------ tibblify-0.3.1/tibblify/man/guess_tspec.Rd | 6 tibblify-0.3.1/tibblify/man/parse_openapi_spec.Rd |only tibblify-0.3.1/tibblify/man/tibblify.Rd | 4 tibblify-0.3.1/tibblify/man/unpack_tspec.Rd |only tibblify-0.3.1/tibblify/src/add-value.c | 2 tibblify-0.3.1/tibblify/src/add-value.h | 15 tibblify-0.3.1/tibblify/src/collector.c | 110 - tibblify-0.3.1/tibblify/src/collector.h | 13 tibblify-0.3.1/tibblify/src/decl |only tibblify-0.3.1/tibblify/src/finalize.c | 20 tibblify-0.3.1/tibblify/src/finalize.h | 2 tibblify-0.3.1/tibblify/src/globals.c |only tibblify-0.3.1/tibblify/src/globals.h |only tibblify-0.3.1/tibblify/src/guess-utils.c |only tibblify-0.3.1/tibblify/src/init.c | 8 tibblify-0.3.1/tibblify/src/parse-spec.c | 6 tibblify-0.3.1/tibblify/src/rlang/attrib.c | 3 tibblify-0.3.1/tibblify/src/rlang/c-utils.h | 20 tibblify-0.3.1/tibblify/src/rlang/decl/env-decl.h | 2 tibblify-0.3.1/tibblify/src/rlang/dyn-array.c | 14 tibblify-0.3.1/tibblify/src/rlang/dyn-array.h | 77 - tibblify-0.3.1/tibblify/src/rlang/env.c | 9 tibblify-0.3.1/tibblify/src/rlang/env.h | 9 tibblify-0.3.1/tibblify/src/rlang/globals.c | 5 tibblify-0.3.1/tibblify/src/rlang/globals.h | 3 tibblify-0.3.1/tibblify/src/rlang/node.c | 11 tibblify-0.3.1/tibblify/src/rlang/rlang.c | 6 tibblify-0.3.1/tibblify/src/rlang/rlang.hpp | 3 tibblify-0.3.1/tibblify/src/rlang/stack.c | 13 tibblify-0.3.1/tibblify/src/rlang/vec-lgl.c | 110 - tibblify-0.3.1/tibblify/src/rlang/vec.h | 2 tibblify-0.3.1/tibblify/src/tibblify-core.h |only tibblify-0.3.1/tibblify/src/tibblify-vctrs-public.c | 2 tibblify-0.3.1/tibblify/src/tibblify.h | 13 tibblify-0.3.1/tibblify/src/utils.h | 17 tibblify-0.3.1/tibblify/src/vctrs-dim.h |only tibblify-0.3.1/tibblify/src/vctrs-type-info.c |only tibblify-0.3.1/tibblify/src/vctrs-type-info.h |only tibblify-0.3.1/tibblify/src/vctrs-unspecified.c |only tibblify-0.3.1/tibblify/src/vctrs-utils-dispatch.c |only tibblify-0.3.1/tibblify/src/vctrs-utils-dispatch.h |only tibblify-0.3.1/tibblify/src/vctrs-utils.c |only tibblify-0.3.1/tibblify/src/vctrs-utils.h |only tibblify-0.3.1/tibblify/tests/testthat/_snaps/format.md | 9 tibblify-0.3.1/tibblify/tests/testthat/_snaps/spec_combine.md | 126 + tibblify-0.3.1/tibblify/tests/testthat/_snaps/spec_guess.md | 58 tibblify-0.3.1/tibblify/tests/testthat/_snaps/spec_guess_df.md | 4 tibblify-0.3.1/tibblify/tests/testthat/_snaps/spec_guess_object.md | 2 tibblify-0.3.1/tibblify/tests/testthat/_snaps/spec_inform_unspecified.md |only tibblify-0.3.1/tibblify/tests/testthat/_snaps/tib_spec.md | 6 tibblify-0.3.1/tibblify/tests/testthat/_snaps/tibblify.md | 2 tibblify-0.3.1/tibblify/tests/testthat/_snaps/unnest-tree.md | 6 tibblify-0.3.1/tibblify/tests/testthat/_snaps/unpack-tspec.md |only tibblify-0.3.1/tibblify/tests/testthat/test-format.R | 10 tibblify-0.3.1/tibblify/tests/testthat/test-parse-open-api.R |only tibblify-0.3.1/tibblify/tests/testthat/test-shape_utils.R | 16 tibblify-0.3.1/tibblify/tests/testthat/test-spec_combine.R | 1 tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess.R | 53 tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess_df.R | 285 ++-- tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess_object.R | 20 tibblify-0.3.1/tibblify/tests/testthat/test-spec_guess_object_list.R | 182 +- tibblify-0.3.1/tibblify/tests/testthat/test-spec_inform_unspecified.R |only tibblify-0.3.1/tibblify/tests/testthat/test-tibblify.R | 70 - tibblify-0.3.1/tibblify/tests/testthat/test-unpack-tspec.R |only 96 files changed, 2047 insertions(+), 1815 deletions(-)
Title: Best Subset Selection in Linear, Logistic and CoxPH Models
Description: An implementation of best subset selection in generalized linear model and Cox proportional hazard model via the primal dual active set algorithm proposed by Wen, C., Zhang, A., Quan, S. and Wang, X. (2020) <doi:10.18637/jss.v094.i04>. The algorithm formulates coefficient parameters and residuals as primal and dual variables and utilizes efficient active set selection strategies based on the complementarity of the primal and dual variables.
Author: Canhong Wen [aut, cre],
Aijun Zhang [aut],
Shijie Quan [aut],
Xueqin Wang [aut]
Maintainer: Canhong Wen <wencanhong@gmail.com>
Diff between BeSS versions 2.0.3 dated 2021-04-22 and 2.0.4 dated 2024-01-11
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/RcppExports.R | 2 +- src/RcppExports.cpp | 19 ++++++++++++------- 4 files changed, 20 insertions(+), 15 deletions(-)
Title: R Interface to the 'PostgreSQL' Database System
Description: Database interface and 'PostgreSQL' driver for 'R'.
This package provides a Database Interface 'DBI' compliant
driver for 'R' to access 'PostgreSQL' database systems.
In order to build and install this package from source, 'PostgreSQL'
itself must be present your system to provide 'PostgreSQL' functionality
via its libraries and header files. These files are provided as
'postgresql-devel' package under some Linux distributions.
On 'macOS' and 'Microsoft Windows' system the attached 'libpq' library source will be used.
Author: Joe Conway, Dirk Eddelbuettel, Tomoaki Nishiyama, Sameer Kumar Prayaga , Neil Tiffin
Maintainer: Tomoaki Nishiyama <tomoakin@staff.kanazawa-u.ac.jp>
Diff between RPostgreSQL versions 0.7-5 dated 2023-02-10 and 0.7-6 dated 2024-01-11
ChangeLog | 11 +++++++++++ DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- NAMESPACE | 2 +- R/PostgreSQL.R | 21 ++++++++++++--------- R/PostgreSQLSupport.R | 4 ++-- configure | 2 +- configure.ac | 2 +- inst/NEWS | 5 +++++ src/RS-pgsql-copy.c | 2 +- src/libpq/Makefile.global.win64 | 2 +- src/libpq/fe-protocol2.c | 30 ++++++++++++++++++++++++------ 12 files changed, 74 insertions(+), 37 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-30 1.5.0
2022-10-27 1.4.0
2022-03-10 1.3.0
2021-10-01 1.2.0
2020-09-29 1.1.0
2020-03-26 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-10-24 0.3.0
2023-10-01 0.2.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-20 0.1.7
2022-08-17 0.1.6
2022-05-23 0.1.5
2022-04-12 0.1.4
2022-01-24 0.1.3
2021-10-22 0.1.1
2021-08-24 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-12 1.1.1
2021-09-11 1.1.0
2020-09-25 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-11-02 1.0.0
2023-09-14 0.99.13
2023-08-25 0.99.12
2023-01-12 0.99.5
2022-12-21 0.99.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-12-13 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-06-13 0.1.1
2022-02-21 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-25 1.3.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-01-08 0.5.5
2023-02-18 0.5.4
2023-01-20 0.5.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-09-16 0.1.1
2023-08-25 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-11-18 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-04-29 0.2
2021-03-15 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-11 0.2.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-12-10 0.6
2020-03-25 0.3