convert_geneid: This function converts a vector of gene identifiers to other...

In Single-Cell-Genomics-Group-CNAG-CRG/SCrafty-package: R package to store useful functions to analyze single-cell data that the entire team can benefit

This function converts a vector of gene identifiers to other identifiers

Description

This function converts a vector of gene identifiers to other identifiers

Usage

convert_geneid(
  gene_vec,
  gene_from = "SYMBOL",
  gene_to = "ENTREZID",
  annotation = "org.Hs.eg.db"
)

Arguments

gene_vec	Vector of gene identifiers to convert to entrezID.
gene_from	Character string specifying the gene identifier is gene_vec, By default SYMBOL, can also be ENTREZID, ENSEMBL, UNIGENE
gene_to	Character string specifying what the gene id we want to convert the gene_vec to. By default ENTREZID, can also be SYMBOL, ENSEMBL, UNIGENE
annotation	Character string specifying specifying the annotation of the organism to use. By default human org.Hs.eg.db but you can also choose mouse org.Mm.eg.db.

Value

Named vector with ENTREZID as the values.

Examples

## Not run: 
  symbol_vec <- c("MS4A1", "CD4", "FOXP3")
  entrezid_vec <- convert_geneid(
  gene_vec = symbol_vec,
  gene_from = "SYMBOL",
  gene_to = "ENTREZID",
  annotation = "org.Hs.eg.db")

## End(Not run)

Single-Cell-Genomics-Group-CNAG-CRG/SCrafty-package documentation built on Aug. 20, 2022, 9:29 a.m.