Package: xhaz 2.0.2

xhaz: Excess Hazard Modelling Considering Inappropriate Mortality Rates

Fits relative survival regression models with or without proportional excess hazards and with the additional possibility to correct for background mortality by one or more parameter(s). These models are relevant when the observed mortality in the studied group is not comparable to that of the general population or in population-based studies where the available life tables used for net survival estimation are insufficiently stratified. In the latter case, the proposed model by Touraine et al. (2020) <doi:10.1177/0962280218823234> can be used. The user can also fit a model that relaxes the proportional expected hazards assumption considered in the Touraine et al. excess hazard model. This extension was proposed by Mba et al. (2020) <doi:10.1186/s12874-020-01139-z> to allow non-proportional effects of the additional variable on the general population mortality. In non-population-based studies, researchers can identify non-comparability source of bias in terms of expected mortality of selected individuals. An excess hazard model correcting this selection bias is presented in Goungounga et al. (2019) <doi:10.1186/s12874-019-0747-3>. This class of model with a random effect at the cluster level on excess hazard is presented in Goungounga et al. (2023) <doi:10.1002/bimj.202100210>.

Authors:Juste Goungounga [aut, cre], Hadrien Charvat [aut], Darlin Mba [aut], Nathalie Graffeo [aut], Roch Giorgi [aut]

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xhaz.pdf |xhaz.html
xhaz/json (API)

# Install 'xhaz' in R:
install.packages('xhaz', repos = c('https://jgoungounga.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Datasets:
  • breast - Simulated clinical trial data with non comparability bias in term of individuals expected hazard
  • ccr.mevents - Colorectum cancer data with multiple events
  • dataCancer - Simulated data with cause death information with non comparability bias in term of individuals expected hazard
  • rescaledData - Simulated data with cause death information with non comparability bias in term of individuals expected hazard
  • simuData - Simulated data with cause death information in long term follow-up setting without non comparability bias in term of individuals expected hazard

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

3.04 score 11 scripts 178 downloads 5 exports 22 dependencies

Last updated 5 months agofrom:801a061d36. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 16 2024
R-4.5-winOKNov 16 2024
R-4.5-linuxOKNov 16 2024
R-4.4-winOKNov 16 2024
R-4.4-macOKNov 16 2024
R-4.3-winOKNov 16 2024
R-4.3-macOKNov 16 2024

Exports:duplicateexphazmexhazLTqbsxhaz

Dependencies:cligluegtoolslamWlatticelifecyclemagrittrMASSMatrixmexhaznumDerivoptimParallelRcppRcppParallelrlangstatmodstringistringrsurvexp.frsurvivalvctrsWriteXLS

Introduction to Excess Hazard Modelling Considering Inappropriate Mortality Rates

Rendered fromintroduction.Rmdusingknitr::rmarkdownon Nov 16 2024.

Last update: 2024-06-30
Started: 2022-09-07

How to implement a rescaled random-effects excess hazard regression model to handle situations involving inappropriate life tables.

Rendered fromrescaling_excess_hazard_models.Rmdusingknitr::rmarkdownon Nov 16 2024.

Last update: 2024-06-30
Started: 2024-06-30

Readme and manuals

Help Manual

Help pageTopics
anova.bsplines function used for likelihood-ratio Test of two models from xhaz functionanova.bsplines
anova.constant function used for likelihood-ratio Test of two models from xhaz functionanova.constant
anova.mexhazLT function used for likelihood-ratio Test of two models from mexhaz functionanova.mexhazLT
Simulated clinical trial data with non comparability bias in term of individuals expected hazardbreast
colorectum cancer data with multiple eventsccr.mevents
Simulated data with cause death information with non comparability bias in term of individuals expected hazarddataCancer
duplicate functionduplicate
exphaz functionexphaz
mexhazLT functionmexhazAlpha mexhazLT
plot.bsplinesplot.bsplines
plots of excess hazard and net Survival from an 'predxhaz' objectplot.predxhaz
Predictions of excess hazard and net Survival from a 'bsplines' objectpredict.bsplines
Predictions of excess hazard and net Survival from an 'constant' objectpredict.constant
A print.bsplines Function used to print a object of class 'bsplines'print.bsplines
A print.constant Function used to print a object of class constantprint.constant
A print.predxhaz Function used to print a object of class predxhazprint.predxhaz
qbs functionqbs
Simulated data with cause death information with non comparability bias in term of individuals expected hazardrescaledData
Simulated data with cause death information in long term follow-up setting without non comparability bias in term of individuals expected hazardsimuData
A summary.bsplines Function used to print a object of class 'bsplines'summary.bsplines
A summary.constant Function used to print a object of class 'xhaz.constant'summary.constant
xhaz functionxhaz