GetAllOrthologs: Get all orthologs in given species

In markgene/gorthoR: R package

Description

Get all orthologs in given species by taxonomy IDs.

Usage

GetAllOrthologs(taxid = taxid, id.type = c("entrez_gene_id",
  "ensembl_pep_id", "ensembl_gene_id"), taxid.ridx = 2)

Arguments

taxid	NCBI taxonomy ID of given species
type.id	which type of IDs are used: Entrez Gene ID, Ensembl gene ID, Ensembl peptide ID

Value

data frame of three columns: cluster ID, taxonomy ID, Ensembl peptide ID.

Author(s)

Mark J Chen [e-mail]

Examples

human.mouse <- GetAllOrthologs(taxid=c(9606, 10090), id.type="ensembl_pep_id")
scer.pombe <- GetAllOrthologs(taxid=c(4932, 4896), id.type="entrez_gene_id")

markgene/gorthoR documentation built on May 21, 2019, noon