Package: pbkrtest 0.5.2.9002

pbkrtest: Parametric Bootstrap, Kenward-Roger and Satterthwaite Based Methods for Test in Mixed Models

Computes p-values based on (a) Satterthwaite or Kenward-Rogers degree of freedom methods and (b) parametric bootstrap for mixed effects models as implemented in the 'lme4' package. Implements parametric bootstrap test for generalized linear mixed models as implemented in 'lme4' and generalized linear models. The package is documented in the paper by Halekoh and Højsgaard, (2012, <doi:10.18637/jss.v059.i09>). Please see 'citation("pbkrtest")' for citation details.

Authors:Ulrich Halekoh [aut, cph], Søren Højsgaard [aut, cre, cph]

pbkrtest_0.5.2.9002.tar.gz
pbkrtest_0.5.2.9002.zip(r-4.5)pbkrtest_0.5.2.9002.zip(r-4.4)pbkrtest_0.5.2.9002.zip(r-4.3)
pbkrtest_0.5.2.9002.tgz(r-4.4-any)pbkrtest_0.5.2.9002.tgz(r-4.3-any)
pbkrtest_0.5.2.9002.tar.gz(r-4.5-noble)pbkrtest_0.5.2.9002.tar.gz(r-4.4-noble)
pbkrtest_0.5.2.9002.tgz(r-4.4-emscripten)pbkrtest_0.5.2.9002.tgz(r-4.3-emscripten)
pbkrtest.pdf |pbkrtest.html✨
pbkrtest/json (API)
NEWS

# Install 'pbkrtest' in R:

install.packages('pbkrtest', repos = c('https://hojsgaard.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/hojsgaard/pbkrtest/issues

Datasets:

beets - Sugar beets data
budworm - Budworm data

On CRAN:

13.68 score 4 stars 881 packages 656 scripts 342k downloads 102 mentions 19 exports 50 dependencies

Last updated 5 months agofrom:0f96bb2af7. Checks:OK: 1 WARNING: 6. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Nov 23 2024
R-4.5-win	WARNING	Nov 23 2024
R-4.5-linux	WARNING	Nov 23 2024
R-4.4-win	WARNING	Nov 23 2024
R-4.4-mac	WARNING	Nov 23 2024
R-4.3-win	WARNING	Nov 23 2024
R-4.3-mac	WARNING	Nov 23 2024

Exports:compare_column_space ddf_Lb get_Lb_ddf get_SigmaG getKR getLRT getSAT KRmodcomp Lb_ddf make_model_matrix make_restriction_matrix model2restriction_matrix PBmodcomp PBrefdist restriction_matrix2model SATmodcomp tidy vcovAdj vcovAdj.lmerMod

Dependencies:backports boot broom cli colorspace cowplot cpp11 Deriv doBy dplyr fansi farver generics ggplot2 glue gtable isoband labeling lattice lifecycle lme4 magrittr MASS Matrix mgcv microbenchmark minqa modelr munsell nlme nloptr numDeriv pillar pkgconfig purrr R6 RColorBrewer Rcpp RcppEigen rlang scales stringi stringr tibble tidyr tidyselect utf8 vctrs viridisLite withr

01 - Introduction to 'pbkrtest'

Søren Højsgaard and Ulrich Halekoh

Rendered froma01-pbkrtest.rmdusingknitr::rmarkdownon Nov 23 2024.

Last update: 2022-12-01
Started: 2022-11-28

02 - Coercion between model objects and restriction matrices in 'pbkrtest'

Søren Højsgaard and Ulrich Halekoh

Rendered froma02-coercion.rmdusingknitr::rmarkdownon Nov 23 2024.

Last update: 2022-11-28
Started: 2022-11-28

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Compare column spaces	compare_column_space
Sugar beets data	beets data-beets
Budworm data	budworm data-budworm
Adjusted denominator degrees of freedom for linear estimate for linear mixed model.	ddf_Lb get_ddf_Lb get_ddf_Lb.lmerMod get_Lb_ddf get_Lb_ddf.lmerMod Lb_ddf
Extract (or "get") components from a 'KRmodcomp' object.	getKR getSAT get_modcomp
Internal functions for the pbkrtest package	as.data.frame.XXmodcomp internal KRmodcomp_init KRmodcomp_init.lmerMod KRmodcomp_init.mer plot.PBmodcomp print.KRmodcomp print.PBmodcomp print.summary_PBmodcomp summary.KRmodcomp summary.PBmodcomp tidy
pbkrtest internal	internal-pbkrtest
F-test and degrees of freedom based on Kenward-Roger approximation	kr-modcomp KRmodcomp KRmodcomp.lmerMod KRmodcomp.mer KRmodcomp_internal
Adjusted covariance matrix for linear mixed models according to Kenward and Roger	get_SigmaG get_SigmaG.lmerMod get_SigmaG.mer kr-vcovAdj LMM_Sigma_G vcovAdj vcovAdj.lmerMod vcovAdj.mer vcovAdj0 vcovAdj2 vcovAdj_internal
Conversion between a model object and a restriction matrix	make_model_matrix make_restriction_matrix model-coerce model2restriction_matrix restriction_matrix2model
Model comparison using parametric bootstrap methods.	getLRT getLRT.lm getLRT.mer getLRT.merMod pb-modcomp PBmodcomp PBmodcomp.lm PBmodcomp.mer PBmodcomp.merMod plot.XXmodcomp seqPBmodcomp
Calculate reference distribution using parametric bootstrap	pb-refdist PBrefdist PBrefdist.lm PBrefdist.merMod
F-test and degrees of freedom based on Satterthwaite approximation	sat-modcomp SATmodcomp SATmodcomp.lmerMod