ConvertNames: Conversion between gene naming convenctions and organisms

In Albluca/rpgraph: r interface to VDAOEngine to build elastic principal graphs

Description

Conversion between gene naming convenctions and organisms

Usage

ConvertNames(SourceOrganism, TargetOrganism, Genes, SourceTypes = "Names",
  TargetTypes = "Names", HomologyLevel = 1)

Arguments

SourceOrganism	Source organism (currently either "human" or "mouse")
TargetOrganism	Target organism (currently either "human" or "mouse")
Genes	Vector of strings containing gene names. NAs can be present and will be removed
SourceTypes	Type of gene names used as input (currently either "Names" or "Ensembl"). Default is "Names".
TargetTypes	Type of gene names to be returned (currently either "Names" or "Ensembl"). Default is "Names".
HomologyLevel	minimal level of homology (1 by default)

Examples

GenNames <- c("CCND3", "CD151", "CD2BP2", "CD81", "CDC34", "CDC37", "CDC42BPB", "CDC42EP1","CDC42EP4")

ConvertNames("human", "mouse", SourceTypes = "Names", TargetTypes = "Names", GenNames)

MoN <- ConvertNames("human", "mouse", SourceTypes = "Names", TargetTypes = "Names", GenNames)
MoEn <- ConvertNames("human", "mouse", SourceTypes = "Names", TargetTypes = "Ensembl", GenNames)

ConvertNames("mouse", "human", SourceTypes = "Names", TargetTypes = "Names", MoN)
ConvertNames("mouse", "human", SourceTypes = "Ensembl", TargetTypes = "Ensembl", MoEn)

Albluca/rpgraph documentation built on May 5, 2019, 1:35 p.m.