Title: Hidden Markov Cognitive Diagnosis Models for Learning
Description: Fitting hidden Markov models of learning under the cognitive diagnosis framework.
The estimation of the hidden Markov diagnostic classification model,
the first order hidden Markov model, the reduced-reparameterized unified learning model,
and the joint learning model for responses and response times.
Author: Susu Zhang [aut],
Shiyu Wang [aut],
Yinghan Chen [aut],
Sunbeom Kwon [aut, cre]
Maintainer: Sunbeom Kwon <sunbeom2@illinois.edu>
Diff between hmcdm versions 2.1.0 dated 2023-01-25 and 2.1.1 dated 2023-03-19
DESCRIPTION | 11 - MD5 | 26 +-- R/hmcdm-package.R | 10 + R/pp_check.R | 9 + inst/doc/DINA_FOHM.html | 118 ++++++++-------- inst/doc/DINA_HO_RT_joint.html | 280 ++++++++++++++++++++-------------------- inst/doc/DINA_HO_RT_sep.html | 134 +++++++++---------- inst/doc/HMDCM.html | 286 ++++++++++++++++++++--------------------- inst/doc/NIDA_indept.html | 114 ++++++++-------- inst/doc/rRUM_indept.html | 135 +++++++++---------- man/hmcdm-package.Rd | 10 - man/pp_check.hmcdm.Rd | 6 src/Makevars | 2 src/Makevars.win | 2 14 files changed, 572 insertions(+), 571 deletions(-)
Title: Data Visualization Tools for Statistical Analysis Results
Description: Unified plotting tools for statistics commonly used, such as GLM,
time series, PCA families, clustering and survival analysis. The package offers
a single plotting interface for these analysis results and plots in a unified
style using 'ggplot2'.
Author: Masaaki Horikoshi [aut],
Yuan Tang [aut, cre] ,
Austin Dickey [ctb],
Matthias Grenie [ctb],
Ryan Thompson [ctb],
Luciano Selzer [ctb],
Dario Strbenac [ctb],
Kirill Voronin [ctb],
Damir Pulatov [ctb]
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
Diff between ggfortify versions 0.4.15 dated 2022-11-11 and 0.4.16 dated 2023-03-19
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ R/plotlib.R | 31 ++++++++++++++++++++++++++++--- inst/CITATION | 5 +++-- inst/doc/basics.html | 2 +- inst/doc/plot_dist.html | 6 +++--- inst/doc/plot_pca.html | 12 ++++++------ inst/doc/plot_surv.html | 10 +++++----- inst/doc/plot_ts.html | 2 +- man/grid.draw.ggmultiplot.Rd | 6 ++++-- 11 files changed, 69 insertions(+), 37 deletions(-)
Title: Simple Features for R
Description: Support for simple features, a standardized way to
encode spatial vector data. Binds to 'GDAL' for reading and writing
data, to 'GEOS' for geometrical operations, and to 'PROJ' for
projection conversions and datum transformations. Uses by default the 's2'
package for spherical geometry operations on ellipsoidal (long/lat) coordinates.
Author: Edzer Pebesma [aut, cre] ,
Roger Bivand [ctb] ,
Etienne Racine [ctb],
Michael Sumner [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb] ,
Kirill Mueller [ctb],
Thomas Lin Pedersen [ctb],
Dan Baston [c [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 1.0-11 dated 2023-03-15 and 1.0-12 dated 2023-03-19
DESCRIPTION | 6 - MD5 | 49 +++++----- NAMESPACE | 2 NEWS.md | 8 + R/RcppExports.R | 200 +++++++++++++++++++++--------------------- R/init.R | 2 R/stars.R | 5 - R/valid.R | 6 - inst/doc/sf1.html | 6 - inst/doc/sf2.html | 6 - inst/doc/sf4.html | 2 inst/doc/sf7.R | 2 inst/doc/sf7.Rmd | 2 inst/doc/sf7.html | 10 +- inst/docker/gdal304 |only inst/docker/lowest/Dockerfile | 28 +++-- man/gdal_addo.Rd | 3 man/valid.Rd | 4 src/gdal.cpp | 38 +++---- src/gdal_read.cpp | 4 src/gdal_utils.cpp | 7 - src/gdal_write.cpp | 2 src/polygonize.cpp | 2 src/stars.cpp | 6 - tests/spatstat.Rout.save | 4 vignettes/sf7.Rmd | 2 26 files changed, 212 insertions(+), 194 deletions(-)
Title: Ergonomic Methods for Assessing Spatial Models
Description: Assessing predictive models of spatial data can be
challenging, both because these models are typically built for
extrapolating outside the original region represented by training data
and due to potential spatially structured errors, with "hot spots" of
higher than expected error clustered geographically due to spatial
structure in the underlying data. Methods are provided for assessing
models fit to spatial data, including approaches for measuring the
spatial structure of model errors, assessing model predictions at
multiple spatial scales, and evaluating where predictions can be made
safely. Methods are particularly useful for models fit using the
'tidymodels' framework. Methods include Moran's I ('Moran' (1950)
<doi:10.2307/2332142>), Geary's C ('Geary' (1954)
<doi:10.2307/2986645>), Getis-Ord's G ('Ord' and 'Getis' (1995)
<doi:10.1111/j.1538-4632.1995.tb00912.x>), agreement coefficients from
'Ji' and Gallo (2006) (<doi: 10.14358/PERS.72.7.823>), agreement
m [...truncated...]
Author: Michael Mahoney [aut, cre] ,
Lucas Johnson [ctb] ,
Virgilio Gomez-Rubio [rev] for rOpenSci, see
<https://github.com/ropensci/software-review/issues/571>),
Jakub Nowosad [rev] for
rOpenSci, see
<https://github.com/ropensci/software-review/issues/571 [...truncated...]
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>
Diff between waywiser versions 0.2.0 dated 2022-10-22 and 0.3.0 dated 2023-03-19
waywiser-0.2.0/waywiser/inst/WORDLIST |only waywiser-0.2.0/waywiser/tests/spelling.R |only waywiser-0.3.0/waywiser/DESCRIPTION | 84 +- waywiser-0.3.0/waywiser/MD5 | 182 +++-- waywiser-0.3.0/waywiser/NAMESPACE | 61 + waywiser-0.3.0/waywiser/NEWS.md | 49 + waywiser-0.3.0/waywiser/R/agreement_coefficient.R |only waywiser-0.3.0/waywiser/R/area_of_applicability.R | 292 ++++++-- waywiser-0.3.0/waywiser/R/data.R |only waywiser-0.3.0/waywiser/R/global_geary.R | 192 ++--- waywiser-0.3.0/waywiser/R/global_moran.R | 200 ++--- waywiser-0.3.0/waywiser/R/local_geary.R | 189 +---- waywiser-0.3.0/waywiser/R/local_getis.R | 238 ++---- waywiser-0.3.0/waywiser/R/local_moran.R | 180 +---- waywiser-0.3.0/waywiser/R/misc.R | 57 + waywiser-0.3.0/waywiser/R/misc_yardstick.R |only waywiser-0.3.0/waywiser/R/multi_scale.R |only waywiser-0.3.0/waywiser/R/sysdata.rda |only waywiser-0.3.0/waywiser/R/tidy_importance.R | 12 waywiser-0.3.0/waywiser/R/waywiser-package.R | 6 waywiser-0.3.0/waywiser/R/willmott_d.R |only waywiser-0.3.0/waywiser/README.md | 345 ++++------ waywiser-0.3.0/waywiser/build/partial.rdb |binary waywiser-0.3.0/waywiser/build/vignette.rds |only waywiser-0.3.0/waywiser/data |only waywiser-0.3.0/waywiser/inst/CITATION |only waywiser-0.3.0/waywiser/inst/doc |only waywiser-0.3.0/waywiser/inst/generate_srr.R |only waywiser-0.3.0/waywiser/inst/srr_template_nonspatial_yardstick.R |only waywiser-0.3.0/waywiser/inst/srr_template_spatial_yardstick.R |only waywiser-0.3.0/waywiser/inst/worldclim_simulation.gpkg |only waywiser-0.3.0/waywiser/man/figures/README-2022_06_29-guerry-1.png |binary waywiser-0.3.0/waywiser/man/figures/README-unnamed-chunk-5-1.png |only waywiser-0.3.0/waywiser/man/figures/logo.png |binary waywiser-0.3.0/waywiser/man/global_geary_c.Rd | 106 +-- waywiser-0.3.0/waywiser/man/global_moran_i.Rd | 109 +-- waywiser-0.3.0/waywiser/man/guerry.Rd |only waywiser-0.3.0/waywiser/man/local_geary_c.Rd | 101 +- waywiser-0.3.0/waywiser/man/local_getis_ord_g.Rd | 120 +-- waywiser-0.3.0/waywiser/man/local_moran_i.Rd | 100 +- waywiser-0.3.0/waywiser/man/ny_trees.Rd |only waywiser-0.3.0/waywiser/man/predict.ww_area_of_applicability.Rd | 4 waywiser-0.3.0/waywiser/man/print.ww_area_of_applicability.Rd | 2 waywiser-0.3.0/waywiser/man/waywiser-package.Rd | 14 waywiser-0.3.0/waywiser/man/worldclim_simulation.Rd |only waywiser-0.3.0/waywiser/man/ww_agreement_coefficient.Rd |only waywiser-0.3.0/waywiser/man/ww_area_of_applicability.Rd | 55 - waywiser-0.3.0/waywiser/man/ww_build_neighbors.Rd | 7 waywiser-0.3.0/waywiser/man/ww_build_weights.Rd | 7 waywiser-0.3.0/waywiser/man/ww_make_point_neighbors.Rd | 8 waywiser-0.3.0/waywiser/man/ww_make_polygon_neighbors.Rd | 8 waywiser-0.3.0/waywiser/man/ww_multi_scale.Rd |only waywiser-0.3.0/waywiser/man/ww_willmott_d.Rd |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/area_of_applicability.md | 82 +- waywiser-0.3.0/waywiser/tests/testthat/_snaps/global_geary.md | 22 waywiser-0.3.0/waywiser/tests/testthat/_snaps/global_moran.md | 22 waywiser-0.3.0/waywiser/tests/testthat/_snaps/local_geary.md | 29 waywiser-0.3.0/waywiser/tests/testthat/_snaps/local_getis.md | 119 ++- waywiser-0.3.0/waywiser/tests/testthat/_snaps/local_moran.md | 29 waywiser-0.3.0/waywiser/tests/testthat/_snaps/misc.md | 38 + waywiser-0.3.0/waywiser/tests/testthat/_snaps/misc_yardstick.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/multi_scale.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_agreement_coefficient.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_area_of_applicability.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_global_geary_c.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_global_geary_pvalue.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_global_moran_i.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_global_moran_pvalue.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_geary_c.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_geary_pvalue.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_getis_ord_g.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_getis_ord_g_pvalue.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_getis_ord_pvalue.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_moran_i.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_local_moran_pvalue.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_systematic_agreement_coefficient.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_systematic_mpd.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_systematic_mse.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_systematic_rmpd.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_systematic_rmse.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_unsystematic_agreement_coefficient.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_unsystematic_mpd.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_unsystematic_mse.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_unsystematic_rmpd.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_unsystematic_rmse.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_willmott_d.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_willmott_d1.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/srr-ww_willmott_dr.md |only waywiser-0.3.0/waywiser/tests/testthat/_snaps/tidy_importance.md |only waywiser-0.3.0/waywiser/tests/testthat/helper.R |only waywiser-0.3.0/waywiser/tests/testthat/test-agreement_coefficient.R |only waywiser-0.3.0/waywiser/tests/testthat/test-area_of_applicability.R | 208 ++++-- waywiser-0.3.0/waywiser/tests/testthat/test-global_geary.R | 53 - waywiser-0.3.0/waywiser/tests/testthat/test-global_moran.R | 55 - waywiser-0.3.0/waywiser/tests/testthat/test-local_geary.R | 57 - waywiser-0.3.0/waywiser/tests/testthat/test-local_getis.R | 93 +- waywiser-0.3.0/waywiser/tests/testthat/test-local_moran.R | 59 - waywiser-0.3.0/waywiser/tests/testthat/test-misc.R | 40 - waywiser-0.3.0/waywiser/tests/testthat/test-misc_yardstick.R |only waywiser-0.3.0/waywiser/tests/testthat/test-multi_scale.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_agreement_coefficient.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_area_of_applicability.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_global_geary_c.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_global_geary_pvalue.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_global_moran_i.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_global_moran_pvalue.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_local_geary_c.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_local_geary_pvalue.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_local_getis_ord_g.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_local_getis_ord_g_pvalue.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_local_moran_i.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_local_moran_pvalue.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_systematic_agreement_coefficient.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_systematic_mpd.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_systematic_mse.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_systematic_rmpd.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_systematic_rmse.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_unsystematic_agreement_coefficient.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_unsystematic_mpd.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_unsystematic_mse.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_unsystematic_rmpd.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_unsystematic_rmse.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_willmott_d.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_willmott_d1.R |only waywiser-0.3.0/waywiser/tests/testthat/test-srr-ww_willmott_dr.R |only waywiser-0.3.0/waywiser/tests/testthat/test-tidy_importance.R |only waywiser-0.3.0/waywiser/tests/testthat/test-willmott_d.R |only waywiser-0.3.0/waywiser/vignettes |only 128 files changed, 1951 insertions(+), 1683 deletions(-)
Title: Survival Analysis in Health Economic Evaluation
Description: Contains a suite of functions for survival analysis in health economics.
These can be used to run survival models under a frequentist (based on maximum likelihood)
or a Bayesian approach (both based on Integrated Nested Laplace Approximation or Hamiltonian
Monte Carlo). To run the Bayesian models, the user needs to install additional modules
(packages), i.e. 'survHEinla' and 'survHEhmc'. These can be installed using
'remotes::install_github' from their GitHub repositories:
(<https://github.com/giabaio/survHEhmc> and <https://github.com/giabaio/survHEinla/>
respectively). 'survHEinla' is based on the package INLA, which is available for download at
<https://inla.r-inla-download.org/R/stable/>. The user can specify a set of parametric models
using a common notation and select the preferred mode of inference. The results can also be
post-processed to produce probabilistic sensitivity analysis and can be used to export the
output to an Excel file (e.g. for a Markov model, [...truncated...]
Author: Gianluca Baio [aut, cre],
Andrea Berardi [ctb],
Philip Cooney [ctb],
Andrew Jones [ctb],
Nathan Green [ctb]
Maintainer: Gianluca Baio <g.baio@ucl.ac.uk>
Diff between survHE versions 1.1.2 dated 2021-02-08 and 2.0.1 dated 2023-03-19
survHE-1.1.2/survHE/R/poly.weibull.R |only survHE-1.1.2/survHE/R/stanmodels.R |only survHE-1.1.2/survHE/R/test.linear.assumptions.R |only survHE-1.1.2/survHE/R/zzz.R |only survHE-1.1.2/survHE/cleanup |only survHE-1.1.2/survHE/cleanup.win |only survHE-1.1.2/survHE/inst/CITATION |only survHE-1.1.2/survHE/inst/extdata |only survHE-1.1.2/survHE/inst/include |only survHE-1.1.2/survHE/man/internal_stan.Rd |only survHE-1.1.2/survHE/man/poly.weibull.Rd |only survHE-1.1.2/survHE/src |only survHE-1.1.2/survHE/tools |only survHE-2.0.1/survHE/DESCRIPTION | 64 + survHE-2.0.1/survHE/MD5 | 104 +-- survHE-2.0.1/survHE/NAMESPACE | 28 survHE-2.0.1/survHE/NEWS.md |only survHE-2.0.1/survHE/R/data.R | 84 ++ survHE-2.0.1/survHE/R/digitise.R | 16 survHE-2.0.1/survHE/R/fit_models.R | 33 - survHE-2.0.1/survHE/R/global.R | 23 survHE-2.0.1/survHE/R/make.surv.R | 97 +- survHE-2.0.1/survHE/R/make.transition.probs.R | 504 ++++++++++++++- survHE-2.0.1/survHE/R/plot.survHE.R | 68 +- survHE-2.0.1/survHE/R/plot_tranformed_km.R |only survHE-2.0.1/survHE/R/psa.plot.R | 67 +- survHE-2.0.1/survHE/R/summary.survHE.R | 14 survHE-2.0.1/survHE/R/survHE-package.R | 29 survHE-2.0.1/survHE/R/utils_fit_models.R | 754 +---------------------- survHE-2.0.1/survHE/R/utils_make_surv.R | 133 ++-- survHE-2.0.1/survHE/R/utils_plot_survHE.R | 295 ++++++-- survHE-2.0.1/survHE/R/utils_print_survHE.R | 76 +- survHE-2.0.1/survHE/data/TA174.RData |only survHE-2.0.1/survHE/data/datalist | 2 survHE-2.0.1/survHE/data/msmdata.RData |only survHE-2.0.1/survHE/inst/NEWS.Rd |only survHE-2.0.1/survHE/man/data.Rd | 28 survHE-2.0.1/survHE/man/digitise.Rd | 20 survHE-2.0.1/survHE/man/fit.models.Rd | 10 survHE-2.0.1/survHE/man/make.surv.Rd | 23 survHE-2.0.1/survHE/man/make.transition.probs.Rd | 32 survHE-2.0.1/survHE/man/make_data_multi_state.Rd |only survHE-2.0.1/survHE/man/markov_trace.Rd |only survHE-2.0.1/survHE/man/model.fit.plot.Rd | 6 survHE-2.0.1/survHE/man/msmdata.Rd |only survHE-2.0.1/survHE/man/plot.survHE.Rd | 61 + survHE-2.0.1/survHE/man/plot_transformed_km.Rd |only survHE-2.0.1/survHE/man/print.survHE.Rd | 6 survHE-2.0.1/survHE/man/psa.plot.Rd | 21 survHE-2.0.1/survHE/man/summary.survHE.Rd | 4 survHE-2.0.1/survHE/man/survHE-package.Rd | 6 survHE-2.0.1/survHE/man/ta174.Rd |only survHE-2.0.1/survHE/man/three_state_mm.Rd |only survHE-2.0.1/survHE/man/write.surv.Rd | 10 survHE-2.0.1/survHE/tests |only 55 files changed, 1379 insertions(+), 1239 deletions(-)
Title: Randomization for Clinical Trials
Description: This tool enables the user to choose a randomization procedure
based on sound scientific criteria. It comprises the generation of
randomization sequences as well the assessment of randomization procedures
based on carefully selected criteria. Furthermore, 'randomizeR' provides a
function for the comparison of randomization procedures.
Author: David Schindler [aut],
Diane Uschner [aut],
Denis Razsolkov [ctb],
Dimitar Mihaylov [ctb],
Marcia Viviane Rueckbeil [ctb],
Martin Manolov [ctb],
Thi Mui Pham [ctb],
Michael Martini [ctb],
Ralf-Dieter Hilgers [aut, ths, cre],
Nicole Heussen [aut, ths]
Maintainer: Ralf-Dieter Hilgers <rhilgers@ukaachen.de>
Diff between randomizeR versions 3.0.0 dated 2023-03-14 and 3.0.1 dated 2023-03-19
DESCRIPTION | 6 +- MD5 | 14 +++-- NAMESPACE | 3 + R/doublyF.R | 55 ++++++++++---------- R/doublyT.R | 128 +++++++++++++++++++++++++++--------------------- man/doublyF_value.Rd | 2 man/genNcps_new.Rd |only man/get_p_values_new.Rd |only man/makeDesignMatrix.Rd | 4 - 9 files changed, 118 insertions(+), 94 deletions(-)
Title: Fast Symbolic Multivariate Polynomials
Description: Fast manipulation of symbolic multivariate polynomials
using the 'Map' class of the Standard Template Library. The package
uses print and coercion methods from the 'mpoly' package (Kahle
2013, "Multivariate polynomials in R", The R Journal, 5(1):162), but
offers speed improvements. It is comparable in speed to the 'spray'
package for sparse arrays, but retains the symbolic benefits of
'mpoly'. To cite the package in publications, use Hankin 2022
<doi:10.48550/ARXIV.2210.15991>. Uses 'disordR' discipline.
Author: Robin K. S. Hankin [aut, cre]
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between mvp versions 1.0-12 dated 2022-01-12 and 1.0-14 dated 2023-03-19
mvp-1.0-12/mvp/inst/coercion.R |only mvp-1.0-12/mvp/inst/freealg_mvp.Rmd |only mvp-1.0-12/mvp/inst/gastineau.R |only mvp-1.0-12/mvp/inst/mvp_screenshot.xcf |only mvp-1.0-12/mvp/inst/timings.Rmd |only mvp-1.0-14/mvp/DESCRIPTION | 23 +++++------ mvp-1.0-14/mvp/MD5 | 64 ++++++++++++++----------------- mvp-1.0-14/mvp/NAMESPACE | 3 + mvp-1.0-14/mvp/R/skimpy.R | 17 +++++--- mvp-1.0-14/mvp/R/skimpy_ops.R | 26 ++++++++++-- mvp-1.0-14/mvp/README.md | 20 ++++----- mvp-1.0-14/mvp/build/partial.rdb |binary mvp-1.0-14/mvp/build/vignette.rds |binary mvp-1.0-14/mvp/inst/CITATION |only mvp-1.0-14/mvp/inst/doc/mvp.Rmd | 11 +---- mvp-1.0-14/mvp/inst/doc/mvp.pdf |binary mvp-1.0-14/mvp/man/Ops.mvp.Rd | 8 ++- mvp-1.0-14/mvp/man/allvars.Rd | 19 +-------- mvp-1.0-14/mvp/man/as.function.Rd | 1 mvp-1.0-14/mvp/man/coeffs.Rd | 19 ++++----- mvp-1.0-14/mvp/man/constant.Rd | 1 mvp-1.0-14/mvp/man/deriv.Rd | 1 mvp-1.0-14/mvp/man/invert.Rd | 3 - mvp-1.0-14/mvp/man/kahle.Rd | 2 mvp-1.0-14/mvp/man/lose.Rd | 4 - mvp-1.0-14/mvp/man/mpoly.Rd | 8 +-- mvp-1.0-14/mvp/man/mvp-package.Rd | 2 mvp-1.0-14/mvp/man/mvp.Rd | 13 ++++-- mvp-1.0-14/mvp/man/ooom.Rd | 2 mvp-1.0-14/mvp/man/rmvp.Rd | 2 mvp-1.0-14/mvp/man/series.Rd | 31 ++++++++++----- mvp-1.0-14/mvp/man/subs.Rd | 5 +- mvp-1.0-14/mvp/man/zero.Rd | 6 +- mvp-1.0-14/mvp/src/RcppExports.cpp | 5 ++ mvp-1.0-14/mvp/tests/testthat/test_aag.R | 4 + mvp-1.0-14/mvp/vignettes/mvp.Rmd | 11 +---- 36 files changed, 175 insertions(+), 136 deletions(-)
Title: Generalized Linear Mixed Models using Template Model Builder
Description: Fit linear and generalized linear mixed models with various
extensions, including zero-inflation. The models are fitted using maximum
likelihood estimation via 'TMB' (Template Model Builder). Random effects are
assumed to be Gaussian on the scale of the linear predictor and are integrated
out using the Laplace approximation. Gradients are calculated using automatic
differentiation.
Author: Mollie Brooks [aut, cre] ,
Ben Bolker [aut] ,
Kasper Kristensen [aut],
Martin Maechler [aut] ,
Arni Magnusson [aut] ,
Maeve McGillycuddy [ctb],
Hans Skaug [aut] ,
Anders Nielsen [aut] ,
Casper Berg [aut] ,
Koen van Bentham [aut],
Nafis Sadat [ctb] ,
[...truncated...]
Maintainer: Mollie Brooks <mollieebrooks@gmail.com>
Diff between glmmTMB versions 1.1.5 dated 2022-11-16 and 1.1.6 dated 2023-03-19
DESCRIPTION | 13 +- MD5 | 99 +++++++-------- NAMESPACE | 4 R/diagnose.R | 2 R/emmeans.R | 161 ++++++++++++++----------- R/enum.R | 3 R/glmmTMB.R | 32 +++- R/methods.R | 13 +- R/profile.R | 28 +++- R/utils.R | 96 ++++++++++++++ build/partial.rdb |binary build/vignette.rds |binary inst/Matrix-version | 2 inst/NEWS.Rd | 75 +++++++++-- inst/TMB-version | 2 inst/doc/covstruct.R | 10 - inst/doc/covstruct.html | 28 ++-- inst/doc/covstruct.rmd | 24 ++- inst/doc/glmmTMB.R | 10 - inst/doc/glmmTMB.Rnw | 20 ++- inst/doc/glmmTMB.pdf |binary inst/doc/hacking.R | 6 inst/doc/hacking.html | 23 +++ inst/doc/hacking.rmd | 21 ++- inst/doc/mcmc.html | 4 inst/doc/miscEx.html | 4 inst/doc/model_evaluation.R | 11 + inst/doc/model_evaluation.Rnw | 23 +++ inst/doc/model_evaluation.pdf |binary inst/doc/parallel.html | 4 inst/doc/sim.R | 117 ++++++++++++++++++ inst/doc/sim.html | 153 ++++++++++++++++++++++- inst/doc/sim.rmd | 206 +++++++++++++++++++++++++++++++- inst/doc/troubleshooting.html | 6 inst/vignette_data/model_evaluation.rda |binary man/bootmer_methods.Rd | 8 - man/confint.glmmTMB.Rd | 2 man/downstream_methods.Rd | 34 +++-- man/fitTMB.Rd | 6 man/get_cor.Rd | 18 ++ man/glmmTMB.Rd | 1 man/simulate_new.Rd |only src/glmmTMB.cpp | 25 +++ tests/testthat/test-diagnose.R | 10 + tests/testthat/test-methods.R | 14 ++ tests/testthat/test-varstruc.R | 8 + vignettes/covstruct.rmd | 24 ++- vignettes/glmmTMB.Rnw | 20 ++- vignettes/hacking.rmd | 21 ++- vignettes/model_evaluation.Rnw | 23 +++ vignettes/sim.rmd | 206 +++++++++++++++++++++++++++++++- 51 files changed, 1338 insertions(+), 282 deletions(-)
Title: A Toolkit for Recursive Partytioning
Description: A toolkit with infrastructure for representing, summarizing, and
visualizing tree-structured regression and classification models. This
unified infrastructure can be used for reading/coercing tree models from
different sources ('rpart', 'RWeka', 'PMML') yielding objects that share
functionality for print()/plot()/predict() methods. Furthermore, new and improved
reimplementations of conditional inference trees (ctree()) and model-based
recursive partitioning (mob()) from the 'party' package are provided based
on the new infrastructure. A description of this package was published
by Hothorn and Zeileis (2015) <https://jmlr.org/papers/v16/hothorn15a.html>.
Author: Torsten Hothorn [aut, cre] ,
Heidi Seibold [ctb] ,
Achim Zeileis [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between partykit versions 1.2-18 dated 2023-03-09 and 1.2-19 dated 2023-03-19
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 9 +++++++++ inst/doc/constparty.pdf |binary inst/doc/ctree.pdf |binary inst/doc/mob.pdf |binary inst/doc/partykit.pdf |binary man/prune.modelparty.Rd | 2 +- 10 files changed, 23 insertions(+), 14 deletions(-)
Title: Meta-Analysis Package for R
Description: A comprehensive collection of functions for conducting meta-analyses in R. The package includes functions to calculate various effect sizes or outcome measures, fit equal-, fixed-, random-, and mixed-effects models to such data, carry out moderator and meta-regression analyses, and create various types of meta-analytical plots (e.g., forest, funnel, radial, L'Abbe, Baujat, bubble, and GOSH plots). For meta-analyses of binomial and person-time data, the package also provides functions that implement specialized methods, including the Mantel-Haenszel method, Peto's method, and a variety of suitable generalized linear (mixed-effects) models (i.e., mixed-effects logistic and Poisson regression models). Finally, the package provides functionality for fitting meta-analytic multivariate/multilevel models that account for non-independent sampling errors and/or true effects (e.g., due to the inclusion of multiple treatment studies, multiple endpoints, or other forms of clustering). Network meta [...truncated...]
Author: Wolfgang Viechtbauer [aut, cre]
Maintainer: Wolfgang Viechtbauer <wvb@metafor-project.org>
Diff between metafor versions 3.8-1 dated 2022-08-26 and 4.0-0 dated 2023-03-19
DESCRIPTION | 17 - MD5 | 304 ++++++++++++++-------------- NAMESPACE | 1 NEWS.md | 46 ++++ R/addpoly.default.r | 8 R/addpoly.predict.rma.r | 4 R/addpoly.rma.r | 4 R/aggregate.escalc.r | 4 R/anova.rma.r | 77 ++++--- R/blup.rma.uni.r | 4 R/confint.rma.ls.r | 8 R/confint.rma.mv.r | 16 - R/confint.rma.uni.r | 4 R/confint.rma.uni.selmodel.r | 6 R/conv.2x2.r |only R/conv.delta.r |only R/conv.fivenum.r |only R/conv.wald.r |only R/cumul.rma.mh.r | 4 R/cumul.rma.peto.r | 4 R/cumul.rma.uni.r | 4 R/dfround.r | 17 + R/emmprep.r |only R/escalc.r | 347 +++++++++++++++++++------------- R/fitstats.rma.r | 2 R/fitted.rma.r | 4 R/forest.cumul.rma.r | 15 - R/forest.default.r | 27 +- R/forest.rma.r | 26 +- R/formatters.r |only R/fsn.r | 35 ++- R/funnel.default.r | 18 - R/funnel.rma.r | 18 - R/gosh.rma.r | 4 R/hc.rma.uni.r | 8 R/labbe.rma.r | 16 - R/leave1out.rma.mh.r | 4 R/leave1out.rma.peto.r | 4 R/leave1out.rma.uni.r | 4 R/llplot.r | 14 - R/matreg.r | 20 - R/methods.anova.rma.r | 10 R/methods.escalc.r | 11 - R/misc.func.hidden.escalc.r | 31 ++ R/misc.func.hidden.evals.r |only R/misc.func.hidden.glmm.r | 6 R/misc.func.hidden.mv.r | 37 +-- R/misc.func.hidden.prof.r | 40 +-- R/misc.func.hidden.r | 212 ++++++++++--------- R/misc.func.hidden.selmodel.r | 107 ++++++++-- R/misc.func.hidden.uni.r | 12 - R/misc.func.hidden.vif.r | 20 + R/model.matrix.rma.r | 8 R/permutest.rma.ls.r | 99 +++++---- R/permutest.rma.uni.r | 13 - R/plot.cumul.rma.r | 10 R/plot.gosh.rma.r | 2 R/plot.infl.rma.uni.r | 4 R/plot.rma.uni.selmodel.r | 11 - R/plot.vif.rma.r | 5 R/predict.rma.ls.r | 22 +- R/predict.rma.r | 26 +- R/print.anova.rma.r | 44 ++-- R/print.confint.rma.r | 4 R/print.escalc.r | 14 - R/print.fsn.r | 18 - R/print.gosh.rma.r | 4 R/print.hc.rma.uni.r | 12 - R/print.list.anova.rma.r | 8 R/print.list.confint.rma.r | 2 R/print.list.rma.r | 34 +-- R/print.matreg.r | 4 R/print.permutest.rma.uni.r | 16 - R/print.ranktest.r | 2 R/print.regtest.r | 10 R/print.rma.glmm.r | 38 +-- R/print.rma.mh.r | 24 +- R/print.rma.mv.r | 38 +-- R/print.rma.peto.r | 12 - R/print.rma.uni.r | 77 ++++--- R/print.tes.r | 16 - R/print.vif.rma.r | 30 +- R/profile.rma.ls.r | 11 - R/profile.rma.mv.r | 19 - R/profile.rma.uni.r | 13 - R/profile.rma.uni.selmodel.r | 11 - R/radial.rma.r | 40 +-- R/ranef.rma.mv.r | 10 R/ranef.rma.uni.r | 4 R/rcalc.r | 16 - R/regplot.rma.r | 8 R/regtest.r | 4 R/replmiss.r | 2 R/reporter.rma.uni.r | 30 +- R/residuals.rma.r | 2 R/rma.glmm.r | 131 +++++++----- R/rma.mh.r | 105 ++++----- R/rma.mv.r | 214 +++++++++++++------- R/rma.peto.r | 16 - R/rma.uni.r | 146 ++++++++----- R/robust.rma.mv.r | 36 ++- R/robust.rma.uni.r | 35 ++- R/selmodel.rma.uni.r | 152 +++++++++++--- R/summary.escalc.r | 50 ++-- R/tes.r | 12 - R/to.long.r | 41 ++- R/to.table.r | 65 +++--- R/to.wide.r | 2 R/transf.r | 93 +++++--- R/trimfill.rma.uni.r | 8 R/vcalc.r | 13 - R/vcov.rma.r | 4 R/vec2mat.r | 2 R/vif.rma.r | 10 R/zzz.r | 2 README.md | 8 build/metafor.pdf |binary build/vignette.rds |binary inst/CITATION | 26 +- inst/doc/diagram.pdf |binary man/anova.rma.Rd | 6 man/confint.rma.Rd | 2 man/conv.2x2.Rd |only man/conv.delta.Rd |only man/conv.fivenum.Rd |only man/conv.wald.Rd |only man/dfround.Rd | 5 man/emmprep.Rd |only man/escalc.Rd | 383 +++++++++++++++++++++--------------- man/forest.default.Rd | 2 man/forest.rma.Rd | 2 man/formatters.Rd |only man/fsn.Rd | 2 man/metafor-package.Rd | 2 man/methods.escalc.Rd | 1 man/misc-recs.Rd | 4 man/model.matrix.rma.Rd | 3 man/permutest.Rd | 18 + man/predict.rma.Rd | 4 man/print.escalc.Rd | 2 man/profile.rma.Rd | 2 man/rcalc.Rd | 59 ++++- man/rma.glmm.Rd | 4 man/rma.mh.Rd | 30 +- man/rma.mv.Rd | 2 man/rma.peto.Rd | 22 +- man/rma.uni.Rd | 15 - man/selmodel.Rd | 44 ++-- man/tes.Rd | 2 man/to.long.Rd | 44 ++-- man/to.table.Rd | 42 +-- man/to.wide.Rd | 2 man/transf.Rd | 117 ++++++---- man/update.rma.Rd | 4 man/vcalc.Rd | 2 man/vif.Rd | 6 tests/testthat/test_misc_emmprep.r |only tests/testthat/test_misc_rma_mv.r | 22 ++ tests/testthat/test_misc_selmodel.r | 34 +++ tests/testthat/test_misc_vec2mat.r | 6 160 files changed, 2671 insertions(+), 1756 deletions(-)
Title: Psychometric Functions from the Waller Lab
Description: Computes fungible coefficients and Monte Carlo data. Underlying theory for these functions is described in the following publications:
Waller, N. (2008). Fungible Weights in Multiple Regression. Psychometrika, 73(4), 691-703, <DOI:10.1007/s11336-008-9066-z>.
Waller, N. & Jones, J. (2009). Locating the Extrema of Fungible Regression Weights.
Psychometrika, 74(4), 589-602, <DOI:10.1007/s11336-008-9087-7>.
Waller, N. G. (2016). Fungible Correlation Matrices:
A Method for Generating Nonsingular, Singular, and Improper Correlation Matrices for
Monte Carlo Research. Multivariate Behavioral Research, 51(4), 554-568, <DOI:10.1080/00273171.2016.1178566>.
Jones, J. A. & Waller, N. G. (2015). The normal-theory and asymptotic distribution-free (ADF)
covariance matrix of standardized regression coefficients: theoretical extensions
and finite sample behavior. Psychometrika, 80, 365-378, <DOI:10.1007/s11336-013-9380-y>.
Waller, N. G. (2018). Direct Schmid-Leiman tran [...truncated...]
Author: Niels Waller [aut, cre],
Jeff Jones [ctb],
Casey Giordano [ctb],
Hoang V. Nguyen [ctb]
Maintainer: Niels Waller <nwaller@umn.edu>
Diff between fungible versions 2.2.1 dated 2022-06-10 and 2.3 dated 2023-03-19
DESCRIPTION | 16 MD5 | 21 NAMESPACE | 1 R/CompleteRdev.R | 1 R/faAlign.R | 22 R/faBounds.R | 10 R/promaxQ.R | 4 R/simFA.R | 1376 +++++++++++++++++++++++++++++++++---------------------- inst/CITATION | 19 inst/doc |only man/faAlign.Rd | 18 man/simFA.Rd | 791 +++++++++++++++++-------------- 12 files changed, 1340 insertions(+), 939 deletions(-)
Title: Embed 'SWI'-'Prolog'
Description: Interface to 'SWI'-'Prolog', <https://www.swi-prolog.org/>. This package is normally not loaded directly, please refer to package 'rolog' instead. The purpose of this package is to provide the 'Prolog' runtime on systems that do not have a software installation of 'SWI'-'Prolog'.
Author: Matthias Gondan [aut, com, cre] ,
Jan Wielemaker [ctb, cph] ,
European Commission [fnd]
Maintainer: Matthias Gondan <Matthias.Gondan-Rochon@uibk.ac.at>
Diff between rswipl versions 9.1.6 dated 2023-02-20 and 9.1.7 dated 2023-03-19
DESCRIPTION | 8 MD5 | 160 +++-- NEWS.md | 4 README.md | 9 src/swipl-devel/VERSION | 2 src/swipl-devel/boot/bags.pl | 30 - src/swipl-devel/boot/init.pl | 28 src/swipl-devel/boot/syspred.pl | 2 src/swipl-devel/library/backcomp.pl | 13 src/swipl-devel/library/base64.pl | 23 src/swipl-devel/library/dcg/basics.pl | 619 +++++++++++----------- src/swipl-devel/library/dialect/xsb/basics.pl | 9 src/swipl-devel/library/dif.pl | 81 ++ src/swipl-devel/library/explain.pl | 29 - src/swipl-devel/library/lists.pl | 32 + src/swipl-devel/library/main.pl | 61 +- src/swipl-devel/library/prolog_debug.pl | 16 src/swipl-devel/library/prolog_stack.pl | 20 src/swipl-devel/library/prolog_xref.pl | 2 src/swipl-devel/library/statistics.pl | 38 - src/swipl-devel/library/streams.pl | 14 src/swipl-devel/library/threadutil.pl | 3 src/swipl-devel/packages/clib/CMakeLists.txt | 2 src/swipl-devel/packages/clib/clib.doc | 217 ------- src/swipl-devel/packages/clib/nonblockio.c | 180 +++++- src/swipl-devel/packages/clib/nonblockio.h | 14 src/swipl-devel/packages/clib/process.c | 16 src/swipl-devel/packages/clib/socket.c | 381 ++++++++++--- src/swipl-devel/packages/clib/socket.pl | 405 +++++++++++++- src/swipl-devel/packages/clib/test_socket.pl | 25 src/swipl-devel/packages/clib/test_uri.pl | 22 src/swipl-devel/packages/clib/time.pl | 43 + src/swipl-devel/packages/clib/uri.c | 30 + src/swipl-devel/packages/clib/uri.pl | 13 src/swipl-devel/packages/cpp/test_ffi.c | 354 ++++++++++-- src/swipl-devel/packages/cpp/test_ffi.pl | 160 +++++ src/swipl-devel/packages/http/http.doc | 28 src/swipl-devel/packages/http/http_client.pl | 22 src/swipl-devel/packages/http/http_open.pl | 20 src/swipl-devel/packages/http/http_unix_daemon.pl | 6 src/swipl-devel/packages/http/thread_httpd.pl | 15 src/swipl-devel/packages/pcre/pcre.pl | 47 + src/swipl-devel/packages/pcre/pcre4pl.c | 37 + src/swipl-devel/packages/pcre/test_pcre.pl | 8 src/swipl-devel/packages/yaml |only src/swipl-devel/packages/zlib/zlib4pl.c | 6 src/swipl-devel/src/SWI-Prolog.h | 3 src/swipl-devel/src/Tests/attvar/test_dif.pl | 7 src/swipl-devel/src/Tests/core/test_text.pl | 4 src/swipl-devel/src/Tests/core/test_write.pl | 12 src/swipl-devel/src/os/SWI-Stream.h | 17 src/swipl-devel/src/os/pl-file.c | 2 src/swipl-devel/src/pl-bag.c | 5 src/swipl-devel/src/pl-ext.c | 5 src/swipl-devel/src/pl-fli.c | 4 src/swipl-devel/src/pl-funct.c | 7 src/swipl-devel/src/pl-funct.h | 10 src/swipl-devel/src/pl-gc.c | 35 - src/swipl-devel/src/pl-global.h | 16 src/swipl-devel/src/pl-incl.h | 6 src/swipl-devel/src/pl-proc.c | 37 - src/swipl-devel/src/pl-proc.h | 5 src/swipl-devel/src/pl-prof.c | 182 ++++-- src/swipl-devel/src/pl-prof.h | 4 src/swipl-devel/src/pl-term.c | 22 src/swipl-devel/src/pl-vmi.c | 85 +-- src/swipl-devel/src/pl-wam.c | 92 ++- src/swipl-devel/src/pl-wic.c | 277 ++++----- src/swipl-devel/src/pl-wic.h | 10 src/swipl-devel/src/pl-write.c | 10 src/swipl-devel/src/test.pl | 11 src/swipl-devel/src/wasm/prolog.js | 30 - 72 files changed, 2785 insertions(+), 1367 deletions(-)
Title: Global Sensitivity Analysis of Model Outputs
Description: A collection of functions for sensitivity analysis of model outputs (factor screening, global sensitivity analysis and robustness analysis), as well as for interpretability of machine learning models. Most of the functions have to be applied on scalar output, but several functions support multi-dimensional outputs.
Author: Bertrand Iooss, Sebastien Da Veiga, Alexandre Janon and Gilles Pujol, with contributions from Baptiste Broto, Khalid Boumhaout, Thibault Delage, Reda El Amri, Jana Fruth, Laurent Gilquin, Joseph Guillaume, Margot Herin, Marouane Il Idrissi, Loic Le G [...truncated...]
Maintainer: Bertrand Iooss <biooss@yahoo.fr>
Diff between sensitivity versions 1.28.0 dated 2022-09-29 and 1.28.1 dated 2023-03-19
DESCRIPTION | 6 MD5 | 126 +++--- NAMESPACE | 8 NEWS | 8 R/parameterSets.R | 2 R/pcc.R | 5 R/pme.R | 3 R/qosa.R | 4 R/sensiFdiv.R | 399 +++++++++---------- R/sensiHSIC.R | 9 R/shapleyPermEx.R | 3 R/shapleyPermRand.R | 3 R/shapleysobol_knn.R | 6 R/sobol.R | 3 R/sobol2002.R | 3 R/sobol2007.R | 3 R/sobolEff.R | 3 R/sobolMultOut.R | 3 R/sobolSalt.R | 551 +++++++++++++-------------- R/sobolTIIlo.R | 298 +++++++------- R/sobolTIIpf.R | 286 +++++++------- R/soboljansen.R | 6 R/sobolmara.R | 3 R/sobolmartinez.R | 5 R/sobolowen.R | 295 +++++++------- R/sobolrank.R | 193 ++++----- R/sobolroalhs.R | 3 R/sobolroauc.R | 793 +++++++++++++++++++-------------------- R/sobolshap_knn.R | 3 R/soboltouati.R | 345 ++++++++-------- R/src.R | 3 man/PLI.Rd | 6 man/discrepancyCriteria_cplus.Rd | 131 +++--- man/pcc.Rd | 10 man/pme.Rd | 7 man/qosa.Rd | 8 man/sensiFdiv.Rd | 8 man/sensiHSIC.Rd | 5 man/sensitivity-package.Rd | 4 man/shapleyBlockEstimation.Rd | 5 man/shapleyLinearGaussian.Rd | 5 man/shapleyPermEx.Rd | 8 man/shapleyPermRand.Rd | 8 man/shapleysobol_knn.Rd | 15 man/sobol.Rd | 8 man/sobol2002.Rd | 10 man/sobol2007.Rd | 10 man/sobolEff.Rd | 8 man/sobolMultOut.Rd | 8 man/sobolSalt.Rd | 10 man/sobolTIIlo.Rd | 8 man/sobolTIIpf.Rd | 8 man/soboljansen.Rd | 10 man/sobolmara.Rd | 10 man/sobolmartinez.Rd | 10 man/sobolowen.Rd | 10 man/sobolrank.Rd | 17 man/sobolrec.Rd | 3 man/sobolroalhs.Rd | 8 man/sobolroauc.Rd | 8 man/sobolshap_knn.Rd | 16 man/soboltouati.Rd | 10 man/src.Rd | 7 man/testHSIC.Rd | 1 64 files changed, 1986 insertions(+), 1795 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] ,
Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.4.4 dated 2023-01-06 and 0.5 dated 2023-03-19
DESCRIPTION | 10 +- MD5 | 31 ++++---- NEWS.md | 4 + R/jskm.R | 119 ++++++++++++++++++++++--------- README.md | 37 +++++++-- inst/doc/jskm.html | 4 - man/figures/README-unnamed-chunk-1-2.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-3-2.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-4-2.png |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-5-2.png |binary man/figures/README-unnamed-chunk-5-3.png |binary man/figures/README-unnamed-chunk-6-1.png |only man/figures/README-unnamed-chunk-6-2.png |only man/figures/README-unnamed-chunk-6-3.png |only man/jskm.Rd | 5 + 18 files changed, 148 insertions(+), 62 deletions(-)
Title: Access Live Sports Odds from the Odds API
Description: A utility to quickly obtain clean and tidy sports
odds from The Odds API <https://the-odds-api.com>.
Author: Saiem Gilani [aut, cre]
Maintainer: Saiem Gilani <saiem.gilani@gmail.com>
Diff between oddsapiR versions 0.0.2 dated 2023-01-05 and 0.0.3 dated 2023-03-19
DESCRIPTION | 12 ++++++------ MD5 | 18 +++++++++++------- NAMESPACE | 2 ++ NEWS.md | 4 ++++ R/toa_event_odds.R |only R/toa_sports_odds.R | 2 +- R/toa_sports_odds_history.R |only man/toa_event_odds.Rd |only man/toa_sports_odds.Rd | 2 +- man/toa_sports_odds_history.Rd |only tests/testthat/test-toa_sports_odds.R | 2 +- tests/testthat/test-toa_sports_scores.R | 2 +- 12 files changed, 27 insertions(+), 17 deletions(-)
Title: Maximum Likelihood Estimation of a Log-Concave Density Based on
Censored Data
Description: Based on right or interval censored data, compute the maximum likelihood estimator of a (sub)probability density under the assumption that it is log-concave. For further information see Duembgen, Rufibach and Schuhmacher (2014) <doi:10.1214/14-EJS930>.
Author: Dominic Schuhmacher <dominic.schuhmacher@mathematik.uni-goettingen.de>, Kaspar Rufibach <kaspar.rufibach@gmail.com>, Lutz Duembgen <duembgen@stat.unibe.ch>
Maintainer: Dominic Schuhmacher <dominic.schuhmacher@mathematik.uni-goettingen.de>
Diff between logconcens versions 0.17-1 dated 2022-10-17 and 0.17-2 dated 2023-03-19
logconcens-0.17-1/logconcens/src/logconcens_init.c |only logconcens-0.17-2/logconcens/DESCRIPTION | 8 ++++---- logconcens-0.17-2/logconcens/MD5 | 10 +++++----- logconcens-0.17-2/logconcens/NAMESPACE | 2 +- logconcens-0.17-2/logconcens/R/logconcens.R | 4 ++-- logconcens-0.17-2/logconcens/build/partial.rdb |binary logconcens-0.17-2/logconcens/src/init.c |only 7 files changed, 12 insertions(+), 12 deletions(-)
Title: Sampling and Estimation Methods
Description: Functions to take samples of data, sample size estimation and getting useful estimators such as total, mean, proportion about its population using simple random sampling and stratified sampling.
Author: Javier Estevez [aut, cre, cph]
Maintainer: Javier Estevez <javier.estase@gmail.com>
Diff between samplingR versions 0.1.1 dated 2023-03-09 and 0.1.2 dated 2023-03-19
DESCRIPTION | 8 ++++---- MD5 | 21 +++++++++++++-------- NAMESPACE | 3 +++ R/samplesize.R | 9 ++++++--- R/srsdomainestimator.R | 5 +++-- R/srsestimator.R | 10 +++++----- R/stratifiedestimator.R |only R/stratifiedsample.R |only R/utils.R |only man/samplesize.Rd | 9 ++++++--- man/srsdomainestimator.Rd | 5 +++-- man/srsestimator.Rd | 2 +- man/stratifiedestimator.Rd |only man/stratifiedsample.Rd |only 14 files changed, 44 insertions(+), 28 deletions(-)
Title: Bayesian Discharge Rating Curves
Description: Fits a discharge rating curve based on the power-law and the generalized power-law from data on paired stage and discharge measurements in a given river using a Bayesian hierarchical model as described in Hrafnkelsson et al. (2020) <arXiv:2010.04769>.
Author: Birgir Hrafnkelsson [aut, cph]
,
Solvi Rognvaldsson [aut, cre] ,
Axel Orn Jansson [aut],
Rafael Vias [aut]
Maintainer: Solvi Rognvaldsson <solviro@gmail.com>
Diff between bdrc versions 1.0.0 dated 2021-07-28 and 1.1.0 dated 2023-03-19
DESCRIPTION | 8 MD5 | 118 +++--- NAMESPACE | 4 NEWS.md | 7 R/data.R | 90 ++++ R/gplm.R | 106 ++--- R/gplm0.R | 42 +- R/help_functions.R | 14 R/plm.R | 39 + R/plm0.R | 37 + R/plm_methods.R | 213 ++++++---- R/report.R | 26 - R/tournament.R | 168 +++++--- R/tournament_methods.R | 46 +- README.md | 55 +- build/vignette.rds |binary data/jokdal.rda |only data/jokfjoll.rda |only data/kallstorp.rda |only data/melby.rda |only data/nordura.rda |only data/skjalf.rda |only inst/doc/background.Rmd | 32 - inst/doc/background.html | 329 +++++++++++++++- inst/doc/introduction.Rmd | 71 +-- inst/doc/introduction.html | 481 +++++++++++++++++++----- inst/doc/tournament.R | 21 - inst/doc/tournament.Rmd | 81 ++-- inst/doc/tournament.html | 607 ++++++++++++++++++++++++------- man/autoplot.plm0.Rd | 75 ++- man/autoplot.tournament.Rd | 8 man/evaluate_game.Rd | 14 man/get_report.Rd | 12 man/get_report_pages.Rd | 12 man/gplm.Rd | 79 ++-- man/gplm0.Rd | 17 man/jokdal.Rd |only man/jokfjoll.Rd |only man/kallstorp.Rd |only man/krokfors.Rd | 4 man/melby.Rd |only man/nordura.Rd |only man/norn.Rd | 4 man/plm.Rd | 17 man/plm0.Rd | 17 man/plot.plm0.Rd | 73 ++- man/plot.tournament.Rd | 8 man/plot_fun.Rd | 15 man/predict.plm0.Rd | 22 - man/print.plm0.Rd | 10 man/skjalf.Rd |only man/skogsliden.Rd | 4 man/spanga.Rd | 4 man/summary.plm0.Rd | 10 man/tournament.Rd | 38 + tests/testthat.R | 1 tests/testthat/setup.R | 2 tests/testthat/test-gplm.R | 12 tests/testthat/test-gplm0.R | 12 tests/testthat/test-plm.R | 12 tests/testthat/test-plm0.R | 12 tests/testthat/test-tournament.R | 22 - tests/testthat/test-tournament_methods.R | 4 vignettes/background.Rmd | 32 - vignettes/introduction.Rmd | 71 +-- vignettes/tournament.Rmd | 81 ++-- 66 files changed, 2345 insertions(+), 954 deletions(-)
Title: Starter Kit for New Projects
Description: Get started with new projects by dropping a skeleton of a new
project into a new or existing directory, initialise git repositories,
and create reproducible environments with the 'renv' package. The
package allows for dynamically named files, folders, file content, as
well as the functionality to drop individual template files into
existing projects.
Author: Daniel D. Sjoberg [aut, cre] ,
Emily Vertosick [ctb]
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between starter versions 0.1.12 dated 2022-10-31 and 0.1.13 dated 2023-03-19
DESCRIPTION | 14 ++--- MD5 | 12 ++-- NEWS.md | 4 + R/create_project.R | 2 README.md | 4 - build/vignette.rds |binary inst/doc/create_project.html | 119 +++++++++++++++++++++---------------------- 7 files changed, 79 insertions(+), 76 deletions(-)
Title: Tools for Designing and Weighting Survey Samples
Description: Functions and datasets to support Valliant, Dever, and Kreuter, Practical Tools for Designing and Weighting Survey Samples (2nd edition, 2018). Contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs, and single-stage audit sample designs. Functions are included that will group geographic units accounting for distances apart and measures of size. Other functions compute variance components for multistage designs and sample sizes in two-phase designs. A number of example data sets are included.
Author: Richard Valliant, Jill A. Dever, Frauke Kreuter, George Zipf
Maintainer: Richard Valliant <valliant@umich.edu>
Diff between PracTools versions 1.2.8 dated 2022-08-17 and 1.3 dated 2023-03-19
PracTools-1.2.8/PracTools/data/datalist |only PracTools-1.2.8/PracTools/inst/doc/Singlestage-samsize.pdf |only PracTools-1.2.8/PracTools/inst/doc/Varcomps-multistage.pdf |only PracTools-1.2.8/PracTools/vignettes/Singlestage-samsize.html |only PracTools-1.2.8/PracTools/vignettes/Varcomps-multistage.html |only PracTools-1.2.8/PracTools/vignettes/test.pdf |only PracTools-1.3/PracTools/DESCRIPTION | 20 +-- PracTools-1.3/PracTools/MD5 | 73 ++++++----- PracTools-1.3/PracTools/NAMESPACE | 24 +++ PracTools-1.3/PracTools/R/BW2stagePPS.R | 10 + PracTools-1.3/PracTools/R/BW2stagePPSe.R | 4 PracTools-1.3/PracTools/R/GeoDistMOS.R |only PracTools-1.3/PracTools/R/GeoDistPSU.R |only PracTools-1.3/PracTools/R/nContOpt.R |only PracTools-1.3/PracTools/build/vignette.rds |binary PracTools-1.3/PracTools/data/Domainy1y2.RData |binary PracTools-1.3/PracTools/data/MDarea.pop.RData |binary PracTools-1.3/PracTools/data/TPV.RData |only PracTools-1.3/PracTools/data/Test_Data_US.RData |only PracTools-1.3/PracTools/data/ThirdGrade.RData |binary PracTools-1.3/PracTools/data/hospital.RData |binary PracTools-1.3/PracTools/data/labor.RData |binary PracTools-1.3/PracTools/data/mibrfss.RData |binary PracTools-1.3/PracTools/data/nhis.RData |binary PracTools-1.3/PracTools/data/nhis.large.RData |binary PracTools-1.3/PracTools/data/nhispart.RData |binary PracTools-1.3/PracTools/data/smho.N874.RData |binary PracTools-1.3/PracTools/data/smho98.RData |binary PracTools-1.3/PracTools/inst/doc/Distance-and-MOS-PSUs.R |only PracTools-1.3/PracTools/inst/doc/Distance-and-MOS-PSUs.Rmd |only PracTools-1.3/PracTools/inst/doc/Distance-and-MOS-PSUs.html |only PracTools-1.3/PracTools/inst/doc/Singlestage-samsize.Rmd | 2 PracTools-1.3/PracTools/inst/doc/Singlestage-samsize.html |only PracTools-1.3/PracTools/inst/doc/Varcomps-multistage.Rmd | 4 PracTools-1.3/PracTools/inst/doc/Varcomps-multistage.html |only PracTools-1.3/PracTools/man/BW2stagePPS.Rd | 2 PracTools-1.3/PracTools/man/BW2stagePPSe.Rd | 5 PracTools-1.3/PracTools/man/GeoDistMOS.Rd |only PracTools-1.3/PracTools/man/GeoDistPSU.Rd |only PracTools-1.3/PracTools/man/TPV.Rd |only PracTools-1.3/PracTools/man/Test_Data_US.Rd |only PracTools-1.3/PracTools/man/nAuditMUS.Rd | 4 PracTools-1.3/PracTools/man/nCont.Rd | 1 PracTools-1.3/PracTools/man/nContOpt.Rd |only PracTools-1.3/PracTools/vignettes/Distance-and-MOS-PSUs.Rmd |only PracTools-1.3/PracTools/vignettes/Singlestage-samsize.Rmd | 2 PracTools-1.3/PracTools/vignettes/Varcomps-multistage.Rmd | 4 PracTools-1.3/PracTools/vignettes/practools.bib | 30 +++- PracTools-1.3/PracTools/vignettes/usmap.png |only 49 files changed, 125 insertions(+), 60 deletions(-)
Title: Exact Mediation Analysis for Binary Outcomes
Description: A tool for conducting exact parametric regression-based causal mediation analysis of binary outcomes
as described in Samoilenko, Blais and Lefebvre (2018) <doi:10.1353/obs.2018.0013>;
Samoilenko, Lefebvre (2021) <doi:10.1093/aje/kwab055>; and Samoilenko, Lefebvre (2022) <doi:10.1002/sim.9621>.
Author: Miguel Caubet [aut, cre],
Mariia Samoilenko [aut],
Genevieve Lefebvre [aut]
Maintainer: Miguel Caubet <caubet_fernandez.miguel@uqam.ca>
Diff between ExactMed versions 0.1.0 dated 2022-03-09 and 0.2.0 dated 2023-03-19
ExactMed-0.1.0/ExactMed/R/data.R |only ExactMed-0.2.0/ExactMed/DESCRIPTION | 14 ExactMed-0.2.0/ExactMed/MD5 | 37 ExactMed-0.2.0/ExactMed/NAMESPACE | 11 ExactMed-0.2.0/ExactMed/NEWS.md | 13 ExactMed-0.2.0/ExactMed/R/check_input_param.R | 34 ExactMed-0.2.0/ExactMed/R/check_input_param_c.R |only ExactMed-0.2.0/ExactMed/R/datamed.R |only ExactMed-0.2.0/ExactMed/R/datamed_c.R |only ExactMed-0.2.0/ExactMed/R/exactmed.R | 707 ++++-- ExactMed-0.2.0/ExactMed/R/exactmed_c.R |only ExactMed-0.2.0/ExactMed/R/print.results.R |only ExactMed-0.2.0/ExactMed/R/print.results_c.R |only ExactMed-0.2.0/ExactMed/build/partial.rdb |only ExactMed-0.2.0/ExactMed/build/vignette.rds |binary ExactMed-0.2.0/ExactMed/data/datamed_c.RData |only ExactMed-0.2.0/ExactMed/inst/doc/Introduction.R | 50 ExactMed-0.2.0/ExactMed/inst/doc/Introduction.Rmd | 117 - ExactMed-0.2.0/ExactMed/inst/doc/Introduction.html | 2001 ++++++++++++++---- ExactMed-0.2.0/ExactMed/man/datamed.Rd | 4 ExactMed-0.2.0/ExactMed/man/datamed_c.Rd |only ExactMed-0.2.0/ExactMed/man/exactmed.Rd | 109 ExactMed-0.2.0/ExactMed/man/exactmed_c.Rd |only ExactMed-0.2.0/ExactMed/tests/testthat/testExactMed.R | 984 ++++++++ ExactMed-0.2.0/ExactMed/vignettes/Introduction.Rmd | 117 - 25 files changed, 3487 insertions(+), 711 deletions(-)
Title: Tools for Parsing and Generating XML Within R and S-Plus
Description: Many approaches for both reading and
creating XML (and HTML) documents (including DTDs), both local
and accessible via HTTP or FTP. Also offers access to an
'XPath' "interpreter".
Author: CRAN Team [ctb, cre] ,
Duncan Temple Lang [aut] ,
Tomas Kalibera [ctb]
Maintainer: CRAN Team <CRAN@r-project.org>
Diff between XML versions 3.99-0.13 dated 2022-12-04 and 3.99-0.14 dated 2023-03-19
DESCRIPTION | 6 +- MD5 | 114 ++++++++++++++++++++--------------------- NAMESPACE | 6 +- R/XMLClasses.R | 2 R/assignChild.R | 13 ++-- R/getDependencies.R | 6 +- R/nodeAccessors.R | 4 - R/xmlIncludes.R | 12 ++-- configure.win | 2 man/AssignXMLNode.Rd | 2 man/Doctype-class.Rd | 2 man/Doctype.Rd | 2 man/SAXMethods.Rd | 2 man/SAXState-class.Rd | 2 man/XMLNode-class.Rd | 2 man/addNode.Rd | 2 man/append.XMLNode.Rd | 9 ++- man/asXMLNode.Rd | 2 man/asXMLTreeNode.Rd | 2 man/dtdElement.Rd | 2 man/dtdElementValidEntry.Rd | 2 man/dtdIsAttribute.Rd | 2 man/dtdValidElement.Rd | 2 man/genericSAXHandlers.Rd | 2 man/getNodeSet.Rd | 2 man/getXIncludes.Rd | 4 - man/length.XMLNode.Rd | 2 man/libxmlVersion.Rd | 2 man/names.XMLNode.Rd | 2 man/newXMLDoc.Rd | 2 man/parseDTD.Rd | 2 man/print.Rd | 2 man/saveXML.Rd | 2 man/supportsExpat.Rd | 2 man/toString.Rd | 2 man/xmlApply.Rd | 2 man/xmlAttributeType.Rd | 2 man/xmlAttrs.Rd | 2 man/xmlChildren.Rd | 2 man/xmlContainsEntity.Rd | 2 man/xmlDOMApply.Rd | 2 man/xmlElementsByTagName.Rd | 2 man/xmlEventHandler.Rd | 2 man/xmlEventParse.Rd | 2 man/xmlGetAttr.Rd | 2 man/xmlHashTree.Rd | 2 man/xmlName.Rd | 2 man/xmlNamespace.Rd | 2 man/xmlNamespaceDefinitions.Rd | 2 man/xmlNode.Rd | 2 man/xmlOutput.Rd | 2 man/xmlParent.Rd | 2 man/xmlRoot.Rd | 2 man/xmlSize.Rd | 2 man/xmlSubset.Rd | 2 man/xmlTree.Rd | 2 man/xmlTreeParse.Rd | 4 - man/xmlValue.Rd | 2 58 files changed, 139 insertions(+), 135 deletions(-)
Title: Parsing and Code Generation Functions for 'rxode2'
Description: Provides the parsing needed for 'rxode2' (Wang, Hallow and
James (2016) <doi:10.1002/psp4.12052>). It also provides the 'stan'
based advan linear compartment model solutions with gradients
(Carpenter et al (2015), <arXiv:1509.07164>) needed in 'nlmixr2'
(Fidler et al (2019) <doi:10.1002/psp4.12445>).
This split will reduce computational burden of recompiling 'rxode2'.
Author: Matthew L. Fidler [aut, cre] ,
Wenping Wang [aut],
Richard Upton [ctb],
Gabriel Staples [ctb],
Goro Fuji [ctb],
Morwenn [ctb],
Igor Kushnir [ctb],
Kevin Ushey [ctb],
David Cooley [ctb]
Maintainer: Matthew L. Fidler <matthew.fidler@gmail.com>
Diff between rxode2parse versions 2.0.14 dated 2023-03-17 and 2.0.15 dated 2023-03-19
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ src/Makevars.in | 2 +- 4 files changed, 11 insertions(+), 7 deletions(-)
Title: Simulation Methods for Legislative Redistricting
Description: Enables researchers to sample redistricting plans from a pre-specified
target distribution using Sequential Monte Carlo and Markov Chain Monte Carlo
algorithms. The package allows for the implementation of various constraints in
the redistricting process such as geographic compactness and population parity
requirements. Tools for analysis such as computation of various summary statistics
and plotting functionality are also included. The package implements the SMC
algorithm of McCartan and Imai (2020) <arXiv:2008.06131>, the enumeration
algorithm of Fifield, Imai, Kawahara, and Kenny (2020) <doi:10.1080/2330443X.2020.1791773>,
the Flip MCMC algorithm of Fifield, Higgins, Imai and Tarr (2020) <doi:10.1080/10618600.2020.1739532>,
the Merge-split/Recombination algorithms of Carter et al. (2019) <arXiv:1911.01503>
and DeFord et al. (2021) <doi:10.1162/99608f92.eb30390f>, and the Short-burst
optimization algorithm of Cannon et al. (2020) <arXiv:2011.02288> [...truncated...]
Author: Christopher T. Kenny [aut, cre],
Cory McCartan [aut],
Ben Fifield [aut],
Kosuke Imai [aut],
Jun Kawahara [ctb],
Alexander Tarr [ctb],
Michael Higgins [ctb]
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Diff between redist versions 4.0.1 dated 2022-06-16 and 4.1.0 dated 2023-03-19
redist-4.0.1/redist/man/redist_smc_ci.Rd |only redist-4.0.1/redist/src/redist_init.c |only redist-4.1.0/redist/DESCRIPTION | 30 +- redist-4.1.0/redist/MD5 | 195 +++++++------ redist-4.1.0/redist/NAMESPACE | 3 redist-4.1.0/redist/NEWS.md | 9 redist-4.1.0/redist/R/RcppExports.R | 16 + redist-4.1.0/redist/R/compactness.R | 9 redist-4.1.0/redist/R/confint.R |only redist-4.1.0/redist/R/cores.R | 2 redist-4.1.0/redist/R/data.R | 4 redist-4.1.0/redist/R/diagnostics.R | 28 +- redist-4.1.0/redist/R/distances.R | 30 +- redist-4.1.0/redist/R/enumpart.R | 10 redist-4.1.0/redist/R/filler_generics.R | 8 redist-4.1.0/redist/R/metrics.R | 3 redist-4.1.0/redist/R/plot_map.R | 14 - redist-4.1.0/redist/R/plot_plans.R | 147 +++++++--- redist-4.1.0/redist/R/redist-package.R | 9 redist-4.1.0/redist/R/redist_constr.R | 1 redist-4.1.0/redist/R/redist_findparams.R | 4 redist-4.1.0/redist/R/redist_flip_tidy.R | 18 - redist-4.1.0/redist/R/redist_map.R | 4 redist-4.1.0/redist/R/redist_mcmc.R | 14 - redist-4.1.0/redist/R/redist_ms.R | 20 - redist-4.1.0/redist/R/redist_ms_parallel.R | 5 redist-4.1.0/redist/R/redist_plans.R | 11 redist-4.1.0/redist/R/redist_smc.R | 135 +-------- redist-4.1.0/redist/R/rsg.R | 4 redist-4.1.0/redist/R/splits.R | 2 redist-4.1.0/redist/R/tidy.R | 30 +- redist-4.1.0/redist/README.md | 50 +-- redist-4.1.0/redist/build/partial.rdb |only redist-4.1.0/redist/build/vignette.rds |binary redist-4.1.0/redist/inst/CITATION | 76 ++++- redist-4.1.0/redist/inst/WORDLIST |only redist-4.1.0/redist/inst/doc/common_args.html | 128 ++++----- redist-4.1.0/redist/inst/doc/map-preproc.Rmd | 2 redist-4.1.0/redist/inst/doc/map-preproc.html | 164 ++++++----- redist-4.1.0/redist/inst/doc/mcmc.Rmd | 2 redist-4.1.0/redist/inst/doc/mcmc.html | 162 ++++++----- redist-4.1.0/redist/inst/doc/mpi-slurm.html | 124 ++++---- redist-4.1.0/redist/inst/doc/redist.Rmd | 4 redist-4.1.0/redist/inst/doc/redist.html | 210 +++++++-------- redist-4.1.0/redist/man/avg_by_prec.Rd | 12 redist-4.1.0/redist/man/constraints.Rd | 4 redist-4.1.0/redist/man/figures/README-readme-plot-1.png |binary redist-4.1.0/redist/man/figures/README-readme-plot-2.png |binary redist-4.1.0/redist/man/figures/README-readme-plot-3.png |binary redist-4.1.0/redist/man/figures/README-readme-plot-4.png |binary redist-4.1.0/redist/man/figures/logo.png |binary redist-4.1.0/redist/man/fl250.Rd | 2 redist-4.1.0/redist/man/fl70.Rd | 2 redist-4.1.0/redist/man/plans_diversity.Rd | 4 redist-4.1.0/redist/man/plot.redist_constr.Rd | 6 redist-4.1.0/redist/man/print.redist_plans.Rd | 2 redist-4.1.0/redist/man/redist-package.Rd | 6 redist-4.1.0/redist/man/redist.compactness.Rd | 5 redist-4.1.0/redist/man/redist.enumpart.Rd | 10 redist-4.1.0/redist/man/redist.flip.Rd | 2 redist-4.1.0/redist/man/redist.flip.anneal.Rd | 2 redist-4.1.0/redist/man/redist.identify.cores.Rd | 4 redist-4.1.0/redist/man/redist.ipw.Rd | 2 redist-4.1.0/redist/man/redist.mcmc.mpi.Rd | 2 redist-4.1.0/redist/man/redist.plot.distr_qtys.Rd | 57 +++- redist-4.1.0/redist/man/redist.plot.penalty.Rd | 6 redist-4.1.0/redist/man/redist.plot.plans.Rd | 2 redist-4.1.0/redist/man/redist.plot.wted.adj.Rd | 6 redist-4.1.0/redist/man/redist.prec.pop.overlap.Rd | 4 redist-4.1.0/redist/man/redist.random.subgraph.Rd | 2 redist-4.1.0/redist/man/redist.rsg.Rd | 4 redist-4.1.0/redist/man/redist.smc_is_ci.Rd | 4 redist-4.1.0/redist/man/redist_ci.Rd |only redist-4.1.0/redist/man/redist_flip.Rd | 13 redist-4.1.0/redist/man/redist_flip_anneal.Rd | 2 redist-4.1.0/redist/man/redist_mergesplit.Rd | 20 - redist-4.1.0/redist/man/redist_mergesplit_parallel.Rd | 3 redist-4.1.0/redist/man/redist_smc.Rd | 8 redist-4.1.0/redist/man/scorer-arith.Rd | 6 redist-4.1.0/redist/man/summary.redist_plans.Rd | 7 redist-4.1.0/redist/man/tally_var.Rd | 6 redist-4.1.0/redist/src/Makevars | 2 redist-4.1.0/redist/src/Makevars.win | 2 redist-4.1.0/redist/src/RcppExports.cpp | 101 +++++++ redist-4.1.0/redist/src/labeling.cpp | 8 redist-4.1.0/redist/src/merge_split.cpp | 10 redist-4.1.0/redist/src/random.cpp |only redist-4.1.0/redist/src/random.h |only redist-4.1.0/redist/src/smc.cpp | 24 + redist-4.1.0/redist/src/smc_base.cpp | 34 -- redist-4.1.0/redist/src/smc_base.h | 16 - redist-4.1.0/redist/src/tree_op.cpp | 28 +- redist-4.1.0/redist/src/tree_op.h | 7 redist-4.1.0/redist/src/wilson.cpp | 90 ++---- redist-4.1.0/redist/tests/spelling.R |only redist-4.1.0/redist/tests/testthat/setup.R | 1 redist-4.1.0/redist/tests/testthat/test_enumpart.R | 5 redist-4.1.0/redist/tests/testthat/test_ms.R | 9 redist-4.1.0/redist/tests/testthat/test_redist_map.R | 2 redist-4.1.0/redist/tests/testthat/test_smc.R | 3 redist-4.1.0/redist/vignettes/map-preproc.Rmd | 2 redist-4.1.0/redist/vignettes/mcmc.Rmd | 2 redist-4.1.0/redist/vignettes/redist.Rmd | 4 103 files changed, 1268 insertions(+), 984 deletions(-)
Title: The 2019 Novel Coronavirus COVID-19 (2019-nCoV) Dataset
Description: Provides a daily summary of the Coronavirus (COVID-19) cases by state/province. Data source: Johns Hopkins University Center for Systems Science and Engineering (JHU CCSE) Coronavirus <https://systems.jhu.edu/research/public-health/ncov/>.
Author: Rami Krispin [aut, cre],
Jarrett Byrnes [aut]
Maintainer: Rami Krispin <rami.krispin@gmail.com>
Diff between coronavirus versions 0.4.0 dated 2023-02-13 and 0.4.1 dated 2023-03-19
DESCRIPTION | 6 - MD5 | 34 +++++-- NEWS.md | 11 ++ R/data_refresh.R | 180 +++++++++++++++++++--------------------- README.md | 177 +++++++++++++++++---------------------- data/coronavirus.rda |binary data/covid19_vaccine.rda |binary man/figures/brazil_cases.svg | 2 man/figures/country_summary.svg | 2 man/figures/treemap_conf.svg | 2 man/update_dataset.Rd | 11 -- vignettes/ojs.qmd |only vignettes/ojs_files |only 13 files changed, 207 insertions(+), 218 deletions(-)
Title: Utilities for Data Analysis in Agriculture
Description: Utilities designed to make the analysis of field trials easier and
more accessible for everyone working in plant breeding. It provides a simple
and intuitive interface for conducting single and multi-environmental trial
analysis, with minimal coding required. Whether you're a beginner or an
experienced user, 'agriutilities' will help you quickly and easily carry out
complex analyses with confidence. With built-in functions for fitting Linear
Mixed Models, 'agriutilities' is the ideal choice for anyone who wants to save
time and focus on interpreting their results.
Some of the functions require the R package 'asreml' for the 'ASReml' software,
this can be obtained upon purchase from 'VSN' international (<https://vsni.co.uk/software/asreml-r>).
Author: Johan Aparicio [aut, cre],
Alexia Bornhorst [aut],
The Alliance of Bioversity International and CIAT [cph]
Maintainer: Johan Aparicio <johanstevenapa@gmail.com>
Diff between agriutilities versions 1.0.0 dated 2023-02-16 and 1.1.0 dated 2023-03-19
DESCRIPTION | 12 LICENSE | 4 MD5 | 60 ++- NAMESPACE | 4 R/checkDesign.R | 4 R/extractG.R | 10 R/fa.R | 26 + R/fitSingle.R | 27 - R/ggCor.R | 16 - R/global.R | 5 R/utils_S3_methods.R | 328 +++++++++++++++++++++ README.md | 233 ++++++++++----- build/vignette.rds |binary inst/doc/how-to-start.html | 463 +++++++++++++++++++++--------- man/check_design_met.Rd | 166 +++++----- man/covcor_heat.Rd | 5 man/figures/README-unnamed-chunk-10-1.png |only man/figures/README-unnamed-chunk-10-2.png |only man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-2-2.png |only man/figures/README-unnamed-chunk-3-1.png |only man/figures/README-unnamed-chunk-3-2.png |only man/figures/README-unnamed-chunk-4-1.png |only man/figures/README-unnamed-chunk-4-2.png |only man/figures/README-unnamed-chunk-5-1.png |only man/figures/README-unnamed-chunk-5-2.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/README-unnamed-chunk-6-2.png |only man/figures/README-unnamed-chunk-7-1.png |only man/figures/README-unnamed-chunk-7-2.png |only man/figures/README-unnamed-chunk-8-1.png |only man/figures/README-unnamed-chunk-8-2.png |only man/figures/README-unnamed-chunk-9-1.png |only man/figures/README-unnamed-chunk-9-2.png |only man/gg_cor.Rd | 2 man/plot.checkAgri.Rd | 110 +++---- man/plot.metAgri.Rd |only man/plot.smaAgri.Rd |only man/print.metAgri.Rd | 88 ++--- man/print.smaAgri.Rd | 86 ++--- vignettes/bibliography.bib |only 41 files changed, 1151 insertions(+), 498 deletions(-)