subtypeCMS.SSP: Applying the single-sample classifier of the CMS consortium...

In aeolianine/CRCsubtyping: Subtyping Colorectal Expression Data

Applying the single-sample classifier of the CMS consortium (CMSclassifier::classifyCMS.SSP) Installing the CMS classifier: "library(devtools); install_github("Sage-Bionetworks/CMSclassifier")"

Description

Applying the single-sample classifier of the CMS consortium (CMSclassifier::classifyCMS.SSP) Installing the CMS classifier: "library(devtools); install_github("Sage-Bionetworks/CMSclassifier")"

Usage

subtypeCMS.SSP(mat)

Arguments

mat	- the matrix to be subtyped, genes by samples, genes are typically in gene symbol format

Value

- table of samples and their predicted, nearest CMS assignment, as well as min/median and max correlations to predefined CMS1, CMS2, CMS3 and CMS4 centroids

Examples

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

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