Package: pseudoCure 1.1.0

pseudoCure: A Pseudo-Observations Approach for Analyzing Survival Data with a Cure Fraction

A collection of easy-to-use tools for regression analysis of survival data with a cure fraction proposed in Su et al. (2022) <doi:10.1177/09622802221108579>. The modeling framework is based on the Cox proportional hazards mixture cure model and the bounded cumulative hazard (promotion time cure) model. The pseudo-observations approach is utilized to assess covariate effects and embedded in the variable selection procedure.

Authors:Sy Han Chiou [aut, cre], Chien-Lin Su [aut], Feng-Chang Lin [aut]

pseudoCure_1.1.0.tar.gz
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pseudoCure.pdf |pseudoCure.html✨
pseudoCure/json (API)

# Install 'pseudoCure' in R:

install.packages('pseudoCure', repos = c('https://stc04003.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/stc04003/pseudocure/issues

Uses libs:

openblas– Optimized BLAS
c++– GNU Standard C++ Library v3

Datasets:

Teeth500 - Dental data for illustration

On CRAN:

openblas cpp

3.18 score 4 scripts 208 downloads 5 exports 77 dependencies

Last updated from:0654ff3a09. Checks:13 OK. Indexed: yes.

Target	Result	Time
linux-devel-arm64	OK	189
linux-devel-x86_64	OK	179
source / vignettes	OK	270
linux-release-arm64	OK	184
linux-release-x86_64	OK	207
macos-release-arm64	OK	126
macos-release-x86_64	OK	283
macos-oldrel-arm64	OK	155
macos-oldrel-x86_64	OK	234
windows-devel	OK	184
windows-release	OK	223
windows-oldrel	OK	159
wasm-release	OK	156

Exports:geelm km mzTest pCure pCure.control

Dependencies:abind backports boot broom car carData cli colorspace corrplot cowplot cpp11 Deriv doBy dplyr farver forecast Formula fracdiff generics ggplot2 ggpubr ggrepel ggsci ggsignif glue gridExtra gtable isoband labeling lattice lifecycle lme4 lmtest magrittr MASS Matrix MatrixModels mgcv microbenchmark minqa modelr nlme nloptr nnet numDeriv pbkrtest pillar pkgconfig polynom purrr quantreg R6 rbibutils RColorBrewer Rcpp RcppArmadillo RcppEigen Rdpack reformulas rlang rstatix S7 scales SparseM stringi stringr survival tibble tidyr tidyselect timeDate urca utf8 vctrs viridisLite withr zoo

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
pseudoCure: A pseudo-observations approach for analyzing survival data with a cure fraction	pseudoCure-package pseudoCure-packages pseudoCure
Generalized Estimating Equation with Gaussian family	geelm
Kaplan-Meier estimate	km
Maller-Zhou test	mzTest
Cure Rate Model with pseudo-observation approach	pCure
Package options for pseudoCure	pCure.control
Plot method for 'geelm' objects	plot.geelm
Plot method for 'pCure' objects	plot.pCure
Dental data for illustration	Teeth500