ProCoNA (version 1.10.0)

goStatTest: goStatTest

Description

Wrapper function to run the hyperGTest from package GOstats, after mapping each peptide to an entrez ID.

Usage

goStatTest(pnet, module, pepinfo, pepColName, protColName, universe,  onto, annot, pvalue, cond)

Arguments

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.

Value

Examples

## 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)