goStatTest {ProCoNA} | R Documentation |
Wrapper function to run the hyperGTest from package GOstats, after mapping each peptide to an entrez ID.
goStatTest(pnet, module, pepinfo, pepColName, protColName, universe, onto, annot, pvalue, cond)
pnet |
Procona network object. |
module |
Module of interest (numeric) |
pepinfo |
The mass tag info, mapping peptides to proteins. |
pepColName |
Column name in mass tag info for peptides |
protColName |
Column name in mass tag info for proteins |
universe |
Table mapping protein IDs to entrez IDs |
onto |
The ontology catagory (bp etc).. |
annot |
The annotation database to use |
pvalue |
pvalue cutoff |
cond |
conditional parameter, see GOstats. |
Returns the results of the hyper geometric test.
David L Gibbs
## Not run: data(ProCoNA_Data) #net1 <- buildProconaNetwork("peptide network", peptideData, pow=12) goStatTest(net1, 1, masstagdb, "Mass_Tag_ID", "Reference", universe, "BP", "org.Mm.eg.db", 0.005, FALSE) ## End(Not run)