get.konecny.subtypes: Get ovarian cancer subtypes as defined by Konecny et al.,...

In bhklab/consensusOV: Gene expression-based subtype classification for high-grade serous ovarian cancer

Get ovarian cancer subtypes as defined by Konecny et al., 2014

Description

Get ovarian cancer subtypes as defined by Konecny et al., 2014

Usage

get.konecny.subtypes(expression.matrix, entrez.ids)

Arguments

expression.matrix	A matrix of gene expression values with rows as genes, columns as samples.
entrez.ids	A vector of Entrez Gene IDs, corresponding to the rows of expression.matrix

Value

A list with first value Konecny.subtypes containing a factor of subtype names; and second value spearman.cc.vals containing the Spearman correlation values per subtype

References

Konecny et al. Prognostic and therapeutic relevance of molecular subtypes in high-grade serous ovarian cancer. Journal of the National Cancer Institute (2014).

Examples

library(Biobase)
data(GSE14764.eset)
expression.matrix <- exprs(GSE14764.eset)
entrez.ids <- as.character(fData(GSE14764.eset)$EntrezGene.ID)
get.konecny.subtypes(expression.matrix, entrez.ids)

bhklab/consensusOV documentation built on Feb. 13, 2024, 4:50 a.m.