probesToEntrez: probesToEntrez

In Sage-Bionetworks/CMSclassifier: prediction of the Consensus Molecular Subtype (CMS) of colorectal carcinomas based on log2_scaled Gene Expression Profiles (GEP)

Description

aggregate probe level GEP to gene level (entrez id) GEP

Usage

probesToEntrez(Exp,Gpl,entrez="Entrez")

Arguments

Exp	a dataframe with log2_scaled GEP data values, samples in columns, genes in rows, rownames corresponding to Entrez IDs
Gpl	a dataframe giving the mapping between probes and Entrez gene Ids, probes correspond to rownames, Entrez Gene Ids are given in the column entrez
entrez	a character string, the name of the column of the Entrez Gene Ids

Value

a dataframe with GEP data - 1 row per entrez ID

Note

This is a contribution from the Tumor Identity Cards (CIT) program founded by the 'Ligue Nationale Contre le Cancer' (France): http://cit.ligue-cancer.net. For any question please contact [e-mail]

Author(s)

Aurelien de Reynies

Sage-Bionetworks/CMSclassifier documentation built on May 9, 2019, 12:10 p.m.