sortComplexes {apComplex}R Documentation

Sort complex estimates

Description

Sorts complexes recorded in PCMG affiliation matrix into three separate affiliation matrices containing MBME, SBMH, and UnRBB complexes.

Usage

sortComplexes(PCMG, adjMat)

Arguments

PCMG Current PCMG estimate
adjMat Adjacency matrix of bait-hit data from an AP-MS experiment. Rows correspond to baits and columns to hits.

Details

MBME complexes contain multiple bait proteins and multiple edges. SBMH complexes contain one bait and a collection of hit-only proteins. UnRBB complexes contain only two baits (no hit-only proteins) that are connected by an unreciprocated edge.

Value

A list of affiliation matrices representing the MBME, SBMH, and UnRBB complex estimates.

Author(s)

Denise Scholtens

References

Scholtens D and Gentleman R. Making sense of high-throughput protein-protein interaction data. Statistical Applications in Genetics and Molecular Biology 3, Article 39 (2004).

Scholtens D, Vidal M, and Gentleman R. Local modeling of global interactome networks. Submitted.

See Also

findComplexes

Examples


data(apEX)
PCMG2 <- findComplexes(apEX,sensitivity=.7,specificity=.75)
sortComplexes(PCMG2,apEX)


[Package apComplex version 1.4.0 Index]