ScISI (version 1.44.0)

graphSumStats: An initiation function to generate graph statistics

Description

This function takes an in silico interactome and a list of Y2H experimental data (see details) and generates various graph summary statistics.

Usage

graphSumStats(ISI, bait2PreyL)

Arguments

ISI

An incidence matrix representation of a bi-partite graph of an in silico interactome

bait2PreyL

A list of y2h information. The data structure is that of intactInfo.rda of the y2hStat package

Value

complex

A character vector of the constituent members of the proteinn complex of interest

complexBait

A character vector of those protein members which were also tested as baits in the y2h experiment

notBait

A character vector of those protein members which were not tested as baits

avgDegOut

The average out-degree of the bait proteins of the complex of interest

notIsolated

A character vector of proteins that showed experimental binary affiliation for some other complex member

y2hGraph

An instance of the class graph; a graphNEL induceds Y2H graph on the protein complex

popMeanDegree

The population mean degree derived from the bait proteins

edgeProp

The estimated edge proportions derived between undirected Y2H edges

degBait

A named list; each name corresponds to each member of the protein complex with the entry the number of proteins to which it is adjacent

Details

Examples