Separation: calculating network-based separation of disease pairs
In PengNi/dSimer: Integration of Disease Similarity Methods

Description Usage Arguments Value Author(s) References See Also Examples

given two vectors of diseases, a list of disease-gene associations and a PPI network, this function will calculate network-based separation by method Separation.

1	Separation(D1, D2, d2g, graph)

`D1`	a vector consists disease ids
`D2`	another vector consists disease ids
`d2g`	a list of disease-gene associations
`graph`	an igraph graph object of PPI network

a matrix of disease disease network-based separation which rownames is D1 and colnames is D2

Peng Ni, Min Li

Menche J, Sharma A, Kitsak M, et al. Uncovering disease-disease relationships through the incomplete interactome[J]. Science, 2015, 347(6224): 1257601.

Separation2Similarity

data(d2g_separation)
data(interactome)

graph_interactome<-graph.data.frame(interactome,directed=FALSE)
ds<-sample(names(d2g_separation),5)
sep<-Separation(ds,ds,d2g_separation,graph_interactome)
sim<-Separation2Similarity(sep)
sim