sortComplexes {apComplex} | R Documentation |
Sorts complexes recorded in PCMG affiliation matrix into three separate affiliation matrices containing MBME, SBMH, and UnRBB complexes.
sortComplexes(PCMG, adjMat)
PCMG |
Current PCMG estimate |
adjMat |
Adjacency matrix of bait-hit data from an AP-MS experiment. Rows correspond to baits and columns to hits. |
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.
A list of affiliation matrices representing the MBME, SBMH, and UnRBB complex estimates.
Denise Scholtens
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.
data(apEX) PCMG2 <- findComplexes(apEX,sensitivity=.7,specificity=.75) sortComplexes(PCMG2,apEX)