EGRNi (version 0.1.6)

F_score: To compute F score using probability value

Description

F_score computes the combined edge score from multiple probability values of edges obtained from independent methods. The probability score follows uniform distribution [0,1].The F score follows chi-square distribution with 2k degrees of freedom.

Usage

F_score(p, w, k)

Value

Fw_sum matrix containing F score for significant gene pairs

Arguments

p

Matrix containing probability values of edges for each method column wise having gene pairs in row

w

Matrix containing weight for all individual methods

k

Numbers of independent methods considered for computing edge scores

Author

Chiranjib Sarkar([e-mail])

Details

F_score function generates mixture distribution based on probability value for each method given column wise in p matrix. The probability value for each pair of gene are combined using Fisher's weighted method. The combined score Fw follows chi-square distribution with 2k degrees of freedom. The F_score provides the network file as output containing the interacting pair of genes in row with final score.

References

Sarkar, C., Parsad, R., Mishra, D.C. and Rai, A. (2020). An ensemble approach for gene regulatory network study in rice blast. Journal of Crop and Weed , 16 , 1-8.

Examples

#load "EGRNi" library and probability value data
library(EGRNi)
data(pvalue)
data(weight)
F_score(pvalue, weight, 4)