find_edge: Detecting loops with a certain edge

In LoopDetectR: Comprehensive Feedback Loop Detection in ODE Models

Description

Finds those loops in a loop list that contain a regulation from a certain variable (source node) to a certain variable (target node).

Usage

find_edge(loop_list, source_node, target_node)

Arguments

loop_list	Dataframe with a column loop that contains the lists of loops, e.g. obtained from find_loops.
source_node	Index of the variable that is the source of the queried interaction, i.e. that regulates the target node.
target_node	Index of the variable that is the target of the queried interaction, i.e. that is regulated by the source node.

Value

A vector that gives the indices in the loop list of those loops that contain the indicated edge.

Examples

#sample Jacobian matrix of a system with 4 variables
jac_matrix <- rbind(c(-1,0,0,-1),c(1,-1,0,1),c(0,1,-1,0),c(0,0,1,-1))
#find the feedback loops of the system
loop_list <- find_loops(jac_matrix,10)
#find the loops containing the regulation from variable 3 to variable 4
inds_3_to_4 <- find_edge(loop_list,3,4)

LoopDetectR documentation built on July 20, 2020, 5:07 p.m.