OncoSubtype (version 1.0.0)

centroids_subtype: Predict the subtypes of selected cancer type based published papers

Description

Predict the subtypes of selected cancer type based published papers

Usage

centroids_subtype(data, disease = "LUSC")

Value

an object of class "SubtypeClass" with four slots: genes used for predictiong, predicted subtypes of samples, a matrix of predicting scores, and the method.

Arguments

data

data set to predict the subtypes which is a numeric matrix with row names of features and column names of samples

disease

character string of the disease to predict subtypes, currently support 'LUSC', 'LUAD'

Examples

if (FALSE) {
library(OncoSubtype)
data <- get_median_centered(example_fpkm)
data <- assays(data)$centered
rownames(data) <- rowData(example_fpkm)$external_gene_name
centroids_subtype(data, disease = 'HNSC')
}