Description Usage Arguments Value
Performs survival analysis using an 'Omics' object. The pathway (graph) used is decomposed in modules (cliques) using graph theory.
1 2 3 4 | multiOmicsSurvivalModuleTest(omicsObj, graph, annot,
survFormula = "Surv(days, status) ~", autoCompleteFormula = T,
useThisGenes = NULL, pathName = NULL, robust = FALSE,
include_from_annot = F)
|
omicsObj |
Object of class 'Omics' |
graph |
a pathway in graphNEL, Pathway or geneset format. |
annot |
survival annotation: days and status (0,1). Row.names are samples. Additional covariates can be passed as columns (use include_from_annot). |
survFormula |
Formula to compute survival |
autoCompleteFormula |
logical. If TRUE autocomplete the survFormula using all the available covariates |
useThisGenes |
vector of genes used to filter pathways |
pathName |
title of the pathway. If NULL and graph is "Pathway" graph@title is used as title |
robust |
should be used the robust mode for cox |
include_from_annot |
compute cox using additional covariates from annot |
MultiOmicsModules object
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.