create.sensitivity.plot: Plots sensitivity analysis for class label dichotomization at...

In SIMMS: Subnetwork Integration for Multi-Modal Signatures

Plots sensitivity analysis for class label dichotomization at supplied survtime cutoffs

Description

A method to computer sensitivity, specificity and accuracy at all the survtime cutoff steps provided

Usage

create.sensitivity.plot(
  riskscore = NULL,
  riskgroup = NULL,
  survtime = NULL,
  survstat = NULL,
  survtime.cutoffs = c(seq(5, 10, 1)),
  output.directory = ".",
  file.stem = NULL,
  main.title = "",
  resolution = 100
)

Arguments

riskscore	A vector containing predicted risk scores
riskgroup	A vector containing dichotomized risk groups
survtime	A vector containing survival time of the samples
survstat	A vector containing survival status of the samples
survtime.cutoffs	A vector containing cutoff time points used to dichotomize patients into low- and high-risk groups
output.directory	Path to the output folder where intermediate and results files will be saved
file.stem	A string containing base name for image and text files produced by this method
main.title	A string specifying main title of the image
resolution	A numeric value specifying resolution of the tiff image of KM survival curves. Defaults to 100

Value

The sensitivity analysis plots are stored under output.directory/graphs/. The sensitivity analysis results are stored under output.directory/output/

Author(s)

Syed Haider

SIMMS documentation built on April 24, 2022, 5:06 p.m.