sumStats {ScISI}R Documentation

A function to calculate some summary statistics between an two interactomes

Description

This function takes in a named list of in silico interactomes (by its incidence matrix representation of the bi-partite graph). The function compares each interactome pairwise (with itself as well as with each other interactome) and generates some summary statistics: e.g. the number of redundant protein complexes, the number of protein sub-complexes one interactome may posses with respect to some other interactome (possibly itself), etc.

Usage

sumStats(imList, pathToSave = NULL)

Arguments

imList A named list of in silic interactomes (incidence matrix)
pathToSave A character vector of a path location to where the summary statistics will be saved

Details

Value

redundantM A symmetric matrix with the row and column names named by the interactome names. The shows the number of redundancies (i.e. the number of repeated protein complexes) within two interactomes
subM A matrix with the row and column names named by the interactome names. Each entry details how many protein sub-complexes are found within the interactome indexed by the row with respect to the interactome indexed by the column

Author(s)

TC

Examples

gavin <- getAPMSData("Gavin")
krogan <- getAPMSData("Krogan")
imList <- lisst()
imList[[1]] <- gavin
imList[[2]] <- krogan
names(imList) <- c("Gavin", "Krogan")

sumStats(imList)


[Package ScISI version 1.2.0 Index]