getHybridNetwork: Get hybrid network of the predicted PPI

Description Usage Arguments Value Author(s) See Also Examples

Description

Get the hybrid network of the previously predicted PPI. The hybrid network consists of all relevant interactions from the reference species, the predicted interactions in the target species and all relevant homologous relationships.

Usage

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getHybridNetwork(path2ppi, igraph = FALSE)

Arguments

path2ppi

An object of the class Path2PPI.

igraph

Logical; if TRUE then the hybrid network is given as igraph-object. Otherwise a data frame, consisting of each interaction and homologous relationship, will be returned.

Value

See igraph argument.

Author(s)

Oliver Philipp [email protected]

See Also

getPPI

Examples

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data(ai) #Load test data set

ppi <- Path2PPI("Autophagy induction", "Podospora anserina", "5145")

ppi <- addReference(ppi, "Homo sapiens", "9606", human.ai.proteins, 
                    human.ai.irefindex, pa2human.ai.homologs)
ppi <- addReference(ppi, "Saccharomyces cerevisiae (S288c)", "559292", 
                    yeast.ai.proteins, yeast.ai.irefindex, 
                    pa2yeast.ai.homologs)

ppi <- predictPPI(ppi)

#Return the hybrid network as data frame
hybrid <- getHybridNetwork(ppi)

#Return the hybrid network as igraph object
hybrid <- getHybridNetwork(ppi,igraph=TRUE)

Bioconductor-mirror/Path2PPI documentation built on May 31, 2017, 9:43 p.m.