Sun_function: Sun's function measure of disease similarity calculating

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

View source: R/Sun.R

Description

given two vectors of diseases and a list of disease-go term associations, this function will calculate disease similarity by method Sun_function

Usage

1
Sun_function(D1, D2, d2go)

Arguments

D1

a vector consists disease ids

D2

another vector consists disease ids

d2go

a list of disease-go term associations

Value

a matrix of disease disease simialrity which rownames is D1 and colnames is D2

Author(s)

Peng Ni, Min Li

References

Sun K, Goncalves JP, Larminie C. Predicting disease associations via biological network analysis[J]. BMC bioinformatics, 2014, 15(1): 304.

See Also

get_GOterm2GeneAssos, HypergeometricTest

Examples

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
## get a sample of disease-GO associations
data(d2go_sample)

##### the entire disease-GO associations can be obtained by follows:
## go2g<-get_GOterm2GeneAssos(GOONTOLOGY = "BP", geneid="SYMBOL") #get go-gene associations
## data(d2g_fundo_symbol)
## d2go<-HypergeometricTest(d2g = d2g_fundo_symbol,go2g = go2g)
##### ###################################################

ds<-names(d2go_sample)
Sun_function(ds,ds,d2go_sample)

dSimer documentation built on Nov. 17, 2017, 12:51 p.m.