convert2hugo: convert ENSGids to HUGO gene names

In patterja/smmartprediction: SMMART Drug Prediction

Description

RNA matrix of ENSG identifiers converted and aggregated (summed) to HUGO identifiers using targetid file from GENCODE v24.

Usage

convert2hugo(
  mat,
 
    targetid_file = "/Users/patterja/Box Sync/Heiser_SMMARTReport/REFERENCE_FILES/target_id.txt",
  combined = FALSE,
  protein_coding = FALSE
)

Arguments

mat	(matrix) columns are sample names, rows are ENSG IDs
targetid_file	(char string) path to target_id.txt
protein_coding	(logical): filter for protein coding only and then aggregate to HUGO

Value

aggregated matrix with HUGO IDs

Author(s)

Janice Patterson

Examples

convert2hugo(mat)

patterja/smmartprediction documentation built on Oct. 10, 2020, 3:35 p.m.