trans_exp function

trans_exp

transform rownames of TCGA or TCGA_Gtex expression set from gdc or xena,from ensembl id to gene symbol

trans_exp(exp, mrna_only = FALSE, lncrna_only = FALSE, gtex = FALSE)

Arguments

• exp: TCGA or TCGA_Gtex expression set from gdc or xena
• mrna_only: only keep mrna rows in result
• lncrna_only: only keep lncrna rows in result
• gtex: logical,whether including Gtex data

Returns

a transformed expression set with symbol

Examples

exp = matrix(rnorm(1000),ncol = 10)
rownames(exp) = sample(mRNA_annov23$gene_id,100)
colnames(exp) = c(paste0("TCGA",1:5),paste0("GTEX",1:5))
k  = trans_exp(exp)

See Also

trans_array

Author(s)

Xiaojie Sun