subtypeCMS.RF: Applying the random forest classifier of the CMS consortium...

View source: R/subtyping_tools_CMS.R

subtypeCMS.RFR Documentation

Applying the random forest classifier of the CMS consortium (CMSclassifier::classifyCMS.RF) Installing the CMS classifier: "library(devtools); install_github("Sage-Bionetworks/CMSclassifier")"

Description

Applying the random forest classifier of the CMS consortium (CMSclassifier::classifyCMS.RF) Installing the CMS classifier: "library(devtools); install_github("Sage-Bionetworks/CMSclassifier")"

Usage

subtypeCMS.RF(mat)

Arguments

mat

- the matrix to be subtyped, genes by samples, genes are typically represented as gene symbols

Value

- table of subtype information, columns are predicted CMS, nearest CMS and posterior probabilities of CMS assignment; rownames are samples

Examples

mat = get_TCGA_synapse()
res = subtypeCMS.RF(mat)

aeolianine/CRCsubtyping documentation built on Jan. 13, 2023, 12:16 p.m.