enrichment.annotation: GO enrichment annotation

Description Usage Arguments Value References Examples

Description

GO enrichment annotation of the functional molecules or networks.

Usage

1
enrichment.annotation(data, onto = c("MF", "BP", "CC"), pvalue = 0.05)

Arguments

data

An igraph object or vector of vertex names.

onto

GO categories, three possible values are MF for GO function, BP for GO process, and CC for GO componet

pvalue

Significant level. Default value is 0.05.

Value

Numeric vector, pvalue with the length as the size of data.

References

The Gene Ontology Consortium (January 2008). The Gene Ontology project in 2008. Nucleic Acids Res. 36 (Database issue): D440?C4.

Examples

1
2
3
entrez<-data.frame(c("121549","51160","83878","11338","196477","9319","608","7015"))
net<-construction(input=entrez,hierarchy=0,species="human",db="Biogrid",ID.type="Entrez Gene")
res<-enrichment.annotation(net,pvalue=0.05,onto="CC")


Search within the ProNet package
Search all R packages, documentation and source code

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.