penCSC {CSCNet}

penCSC

Description

Function to fit penalized cause-specific-cox with elastic-net penalty.

Usage

penCSC(
  time,
  status,
  vars.list,
  data,
  alpha.list,
  lambda.list,
  standardize = TRUE,
  keep = NULL
)

Arguments

time

A character showing the name of the time variable in the data.

status

A character showing the name of the status/event variable in the data.

vars.list

A named list containing the variables to be included in each cause-specific model. Variables can be vectors of variable names or a one sided formula. Names of the list must be the events and exactly the same as values in the status variable. See 'Examples' for details.

data

A data frame containing the information of the variables.

alpha.list

A named list containing the single alpha values of each cause-specific model. Names of the list must be the events and exactly the same as values in the status variable. See 'Examples' for details.

lambda.list

A named list containing the single lambda values of each cause-specific model. Names of the list must be the events and exactly the same as values in the status variable. See 'Examples' for details.

standardize

Logical indicating whether the variables must be standardized or not. Default is TRUE.

keep

A character vector of the names of variables that should not be shrunk. Default is NULL.

Value

A named list containing all the information related to the used data and the fitted models for all causes. Use $ to explore all the involved information.

Author(s)

Shahin Roshani

References

Friedman J, Hastie T, Tibshirani R (2010). "Regularization Paths for Generalized Linear Models via Coordinate Descent." Journal of Statistical Software, 33(1), 1-22. doi:10.18637/jss.v033.i01, https://www.jstatsoft.org/v33/i01/.

Therneau T (2022). A Package for Survival Analysis in R. R package version 3.3-1, https://CRAN.R-project.org/package=survival.

Wickham H, Averick M, Bryan J, Chang W, McGowan L, François R, et al. Welcome to the tidyverse. J Open Source Softw. 2019 Nov 21;4(43):1686.

Bache S, Wickham H (2022). magrittr: A Forward-Pipe Operator for R. https://magrittr.tidyverse.org, https://github.com/tidyverse/magrittr.

Examples

library(riskRegression)

data(Melanoma)

vl <- list('1'=c('age','sex','ulcer','thick'),

          '2'=~age+sex+epicel+thick+ici)

al <- list('1'=0,'2'=.5)

ll <- list('1'=.01,'2'=.04)

penCSC(time='time',status='status',vars.list=vl,

      data=Melanoma,alpha.list=al,lambda.list=ll)