pmartR (version 2.4.6)

plot_km: Basic survival analysis plot

Description

Implements overall survival analysis or progression-free survival analysis, depending upon the datatypes supplied to surv_designation, and plot the resulting Kaplan-Meier curve.

Usage

plot_km(omicsData)

Value

a Kaplan-Meier curve

Arguments

omicsData

A pmartR data object of any class, which has a `group_df` attribute that is usually created by the `group_designation()` function

Examples

if (FALSE) { # requireNamespace("pmartRdata", quietly = TRUE)
if (FALSE) {
library(MSomicsSTAT)
library(OvarianPepdataBP)
attr(tcga_ovarian_pepdata_bp, "survDF") <- list(t_death = "survival_time",
                                                ind_death = "vital_status")
plot_km(omicsData = tcga_ovarian_pepdata_bp)

# Add covariates to "survDF" attribute
attr(tcga_ovarian_pepdata_bp, "survDF") <- list(
  t_death = "survival_time",
  ind_death = "vital_status",
  covariates = "age_at_initial_pathologic_diagnosis"
)
plot_km(omicsData = tcga_ovarian_pepdata_bp)
}
}