peptideConnectivityTest: peptideConnectivityTest
In ProCoNA: Protein co-expression network analysis (ProCoNA).

Description Usage Arguments Value Author(s) Examples

This function will compare the connectivity between peptides mapped to a given protein, against a randomly drawn, similarly sized, selection of peptides. The hypothesis is that peptides from a given protein should be more connected than random.

1	peptideConnectivityTest(pnet, pepInfo, pepCol, protCol, repsPerProt)

`pnet`	The peptide net object
`pepInfo`	The peptide information table, mapping peptides to proteins
`pepCol`	The string identifying the column in the pepInfo table with peptide ID
`protCol`	String identifying column in pepInfo with Protein ID.
`repsPerProt`	number of repetitions for the null

Returns a list of the connected peptides and the random samples.

David L Gibbs

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data(ProCoNA_Data)
#net1 <- buildProconaNetwork("peptide network", peptideData, pow=12)
p <- peptideConnectivityTest(net1, masstagdb, "Mass_Tag_ID", "Reference", 200)