GetTree: Get tree

In markgene/gorthoR: R package

Description

Given a query, fetch the tree of it and its orthologous cluster from gOrtholog website

Usage

GetTree(query.id = query.id, id.type = c("entrez_gene_id", "ensembl_pep_id",
  "ensembl_gene_id"), taxid = taxid, clusterid.cidx = 1, taxid.cidx = 2,
  id.cidx = 3, no.id = NA, diagnose = FALSE,
  url.base = "http://resdev.gene.com/gOrtholog/")

Arguments

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

Value

An object of class "phylo" (see read.tree).

Author(s)

Mark J Chen [e-mail]

See Also

read.tree

Examples

ptpn4a1.aln <- GetAlignment(query.id="ENSP00000359685", id.type="ensembl_pep_id")

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