F_score: To compute F score using probability value

In EGRNi: Ensemble Gene Regulatory Network Inference

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)

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

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.

Value

Fw_sum matrix containing F score for significant gene pairs

Author(s)

Chiranjib Sarkar([e-mail])

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)

EGRNi documentation built on Nov. 18, 2022, 5:12 p.m.