Separation {dSimer} | R Documentation

## calculating network-based separation of disease pairs

### Description

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.

### Usage

    Separation(D1, D2, d2g, graph)

### Arguments

`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

### Value

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

### Author(s)

Peng Ni, Min Li

### References

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

### See Also

`Separation2Similarity`

### Examples

    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

[Package dSimer version 1.6.0 Index]