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pcoxtime (version 1.0.4)

Penalized Cox Proportional Hazard Model for Time-Dependent Covariates

Description

Fits penalized models for both time-independent and time-dependent survival data. It fully implements elastic net and uses proximal gradient descent to solve the optimization problem. The package is an implementation of Steve Cygu and Benjamin M. Bolker. (2021) .

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Version

Install

install.packages('pcoxtime')

Monthly Downloads

85

Version

1.0.4

License

GPL (>= 2)

Issues

1

Pull Requests

0

Stars

3

Forks

0

Maintainer

Bicko Cygu

Last Published

May 13th, 2022

Functions in pcoxtime (1.0.4)

plot.Score

Prediction performance
unscale

Unscale scaled predictors.
predictRisk.pcoxtime

Extract predictions from pcoxtime model
predict.pcoxtime

Prediction for pcoxtime model
simtdc

Simulate survival data for time-dependent covariates
plot.pcoxtimecv

Plot solution path for pcoxtimecv
print.pcoxtimecv

Print cross-validated pcoxtime object
plot.varimp

Generic method for plotting variable importance
print.pcoxtime

Print coefficients from a pcoxtime object
pcoxtimecv

Cross-validation for pcoxtime
plot.pcoxsurvfit

Plot survival and cumulative hazard curves
getResponse

Extract response from the formula
varimp.pcoxtime

Compute variable or coefficient importance score
predictSurvProb.pcoxtime

Predict survival probabilities at various time points
predictedHazard

Compute predicted hazard
pvimp.pcoxtime

Permutation variable importance
riskset

Compute the risk set indicator
pkgsExport

Import and export various functions from various packages
print.pcoxsurvfit

Print a short summary of survival function
print.pcoxbasehaz

Print baseline hazard function data frame
pcoxtime

Fit penalized Cox model
pcoxtheme

Set theme for pcoxtime plots
extractoptimal.pcoxtimecv

Extract optimal parameter values
coefvimp.pcoxtime

Coefficient variable importance
coef.pcoxtime

Extract coefficient estimates of pcoxtime object
coef.pcoxtimecv

Extract coefficient estimates of pcoxtimecv object
concordScore.pcoxtime

Compute the concordance statistic for the pcoxtime model
pcoxsurvfit.pcoxtime

Compute survival curve and cumulative hazard from a pcoxtime model
parseFormula

Parse formula and return response variable.