assessSymmetry: A function that calcualtes some directed degree statistics on
graphs using a binomial error model
Description
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
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.
Value
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