Visualize Single Gene Univariable Cox Result in PCAWG

Usage

vis_pcawg_unicox_tree(
  Gene = "TP53",
  measure = "OS",
  data_type = "mRNA",
  use_optimal_cutoff = FALSE,
  values = c("grey", "#E31A1C", "#377DB8"),
  opt_pancan = .opt_pancan
)

Arguments

Gene: a molecular identifier (e.g., "TP53") or a formula specifying genomic signature ("TP53 + 2 * KRAS - 1.3 * PTEN").
measure: a survival measure, e.g. "OS".
data_type: choose gene profile type, including "mRNA","transcript","methylation","miRNA","protein","cnv"
use_optimal_cutoff: use surv_cutpoint from survminer package for thresholding samples in each cancer type.
values: the color to fill tumor or normal
opt_pancan: specify one dataset for some molercular profiles

Value

a ggplot object

Examples

if (FALSE) { # \dontrun{
p <- vis_pcawg_unicox_tree(Gene = "TP53")
} # }