assessSymmetry: A function that calcualtes some directed degree statistics on...
In ppiStats: Protein-Protein Interaction Statistical Package

Description Usage Arguments Value Author(s) Examples

This function takes in a bait to prey protein-protein interaction graph (undirected) and calculates the reciprocated degree, the unreciprocated in and out degrees. Using this information and binomial error model, it asses the p-value for the in and out degree of each protein. Lastly, it plots the countour curves for these p-values

1 2	assessSymmetry(bpMat, bpGraph = FALSE, prob=0.5, pLevels = 1e-4)

`bpMat`	Either a bait to prey directed graphNEL or its corresponding adjacency matrix.
`bpGraph`	A logical. If TRUE, than bpMat is passed in by the user as a graphNEL.
`pLevels`	A numeric vector. It gives the levels to calculate the countours of the function in p in the (n-in, n-out)-plane
`prob`	A numeric. The bias of the coin used in the function pbinom call.

A list:

`deg`	A 3xn matrix. The rows are indexed by each protein. Column one gives the number of reciprocated edges; column two gives the number of unreciprocated out edges; colunm three gives the number of unreciprocated in-edges
`p`	The p-value for each protein with experimental in and out degrees
`countours`	The countours as a function of p