# Multiscale Clustering of Geometrical Network

## Documentation for package ‘MEGENA’ version 1.3.7

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

## Help Pages

MEGENA-package | co-expression network analysis
calculate.correlation | correlation calculation
calculate.PFN | PFN calculation
compute.PFN.par | Parallelized PFN computation
datExpr | Toy example data
do.MEGENA | MEGENA clustering + MHA
draw_sunburst_wt_fill | Draw sunburst plot showing MEGENA module hierarchy.
get.DegreeHubStatistic | calculate module degree statistics based on random triangulation model via T1 and T2 moves.
get.hub.summary | summarize hub information.
get.union.cut | Scale-thresholding of multiscale modules.
MEGENA | co-expression network analysis
MEGENA.ModuleSummary | MEGENA module summary
module_convert_to_table | conversion of module list object to a data.frame table format
output.geneSet.file | output gene signatures into .gmt file format
planaritytest | Boyer-Myvold Planarity test of a network
plot_module | Module plotting function.
plot_module_hierarchy | Plot module hierarchy
plot_subgraph | subnetwork plotting functionality.
read.geneSet | .gmt file reader function
Sample_Expression.RData | Toy example data