# Regulation Simulator of Interaction between miRNA and Competing RNAs (ceRNA)

## Documentation for package ‘ceRNAnetsim’ version 1.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

calc_perturbation | Calculates average expression changes of all nodes except trigger and finds the perturbed node count for a given node.
find_iteration | Finds the iteration which provides maximum affected node number
find_node_perturbation | Calculates average expression changes of all (or specified) nodes except trigger and finds the perturbed node count for all (or specified) nodes in system.
huge_example | huge example
midsamp | midsamp
midsamp_new_counts | midsamp_new_counts
minsamp | minsamp
mirtarbasegene | mirtarbasegene
new_counts | new_counts
priming_graph | Converts the given dataframe using first variable as competing and the second as miRNA. The function converts the given dataframe using first variable as competing and the second as miRNA. If user defines interaction factors as affinity or degradation, the factors are taken into account.
simulate | Utilizes the change in expression value/s as triggering.
simulate_vis | Provides visualisation of the graph in addition to simulate function.
TCGA_E9_A1N5_mirnanormal | TCGA_E9_A1N5_mirnanormal
TCGA_E9_A1N5_mirnatumor | TCGA_E9_A1N5_mirnatumor
TCGA_E9_A1N5_normal | TCGA_E9_A1N5_normal
TCGA_E9_A1N5_tumor | TCGA_E9_A1N5_tumor
update_how | Converts the count value of the given node.
update_nodes | Carries variables from edge to node.
update_variables | Replaces new values with previous values of competing or miRNA counts.
vis_graph | Provides visualisation of the graph.