pcsSurvCox: Cox Analysis on Principal Components

In cavei/survClip: Survival Analysis for Pathways

Description

Survival Analysis using Cox Model on Principal Components. For internal use only.

Usage

pcsSurvCox(genes, expr, annotations, method = c("regular", "topological",
  "sparse"), shrink = FALSE, cliques = NULL, maxPCs = 10,
  survFormula = "Surv(days, status) ~", robust = FALSE)

Arguments

genes	vector of genes
expr	whole expression matrix
annotations	survival annotations
method	PCA methods
shrink	shrink covariance matrix
cliques	when method=topological use this cliques to define topology in IPF
maxPCs	maximum number of PC to consider
survFormula	survival forumula to use
robust	should be used the robust mode for cox

Details

For internal use only.

Value

cox model object

cavei/survClip documentation built on June 19, 2019, 8:46 p.m.