View source: R/find_targeting_nodes.R

find_targeting_nodes | R Documentation |

Finds potential affecting node for given particular target.

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

`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. |

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

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

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 March 17, 2022, 6:37 p.m.

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