trans_exp_new: trans_exp_new

In tinyarray: Expression Data Analysis and Visualization

trans_exp_new

Description

Route expression-matrix ID conversion by type.

Usage

trans_exp_new(
  exp,
  mrna_only = FALSE,
  lncrna_only = FALSE,
  species = "human",
  average = FALSE,
  type = c("ensembl", "array", "entrez"),
  ids = NULL,
  id = NULL
)

Arguments

exp	expression matrix
mrna_only	only keep mrna rows in result when 'type = "ensembl"'
lncrna_only	only keep lncrna rows in result when 'type = "ensembl"'
species	choose human, mouse, or rat; default is human
average	logical, if TRUE, average rows that map to the same target symbol; if FALSE, keep the first matched row for each symbol.
type	conversion type, one of 'ensembl', 'array', or 'entrez'
ids	annotation table used when 'type = "array"'
id	alias of 'ids'; kept for compatibility

Value

a transformed expression set with symbol

Author(s)

Xiaojie Sun

See Also

trans_ensembl_exp;trans_array;trans_entrezexp

Examples

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

tinyarray documentation built on Aug. 2, 2026, 9:07 a.m.