find_targeting_nodes: Finds potential affecting node for given particular target.

In selcenari/ceRNAnetsim: Regulation Simulator of Interaction between miRNA and Competing RNAs (ceRNA)

Finds potential affecting node for given particular target.

Description

Finds potential affecting node for given particular target.

Usage

find_targeting_nodes(
  input_graph,
  how = 2,
  cycle = 1,
  limit = 0,
  fast = 0,
  top = 5,
  target = NULL
)

Arguments

input_graph	The graph object that was processed with priming_graph function.
how	The change of count (expression) of the given node in terms of fold change.
cycle	The iteration of simulation.
limit	The minimum fold change which can be taken into account for perturbation calculation on all nodes in terms of percentage.
fast	specifies percentage of affected target in target expression. For example, if fast = 1, the nodes that are affected from miRNA repression activity more than one percent of their expression is determined as subgraph.
top	Determines how many nodes most affected will be evaluated.
target	The target node in which is being investigated.

Details

Lists potential targeting nodes by running find_affected_nodes function for all nodes in network.

Value

It gives a tibble form dataset that includes parturbation node (source) and change in count of targeting node

Examples

data('midsamp')

midsamp%>%
priming_graph(competing_count = Gene_expression, 
              miRNA_count = miRNA_expression)%>%
find_targeting_nodes(how = 2, 
                     cycle = 2, 
                     target = "Gene1", 
                     top = 2)

selcenari/ceRNAnetsim documentation built on Feb. 14, 2024, 4:20 a.m.