peptideConnectivityTest {ProCoNA} | R Documentation

## peptideConnectivityTest

### Description

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.

### Usage

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

### Arguments

`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

### Value

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

### Author(s)

David L Gibbs

### Examples

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

[Package ProCoNA version 1.18.0 Index]