getKEGGdata {domainsignatures} | R Documentation |
Get all available KEGG annotations and InterPro domains for a set of
entrezgene identifiers from the KEGG
annotation package and
from the ensembl biomaRt
.
getKEGGdata(universe, pathways)
universe |
Character vector of entrezgene identifiers. This is the global universe of genes to test against. |
pathways |
Optional character vector of KEGG pathway identifiers. This can be used in order to test for over-representation of only a subset of all the available KEGG pathways. |
This function is a wrapper around the KEGG
annotation
package and a customized query of the ensembl biomaRt
database. For the gene identifiers in universe
and all KEGG
pathways it will fetch the necessary information and create an object
of class ipDataSource
which can later be used as input to
gseDomain
An object of class ipDataSource
.
Florian Hahne
getKEGGdata()