Man pages for songw01/MEGENA
Multiscale Clustering of Geometrical Network
| calculate.PFN | PFN calculation |
| calculate.rho.signed | correlation 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. |
| FrequenctSets.v6.2 | Curated MSigDB signatures for testing funtion/pathway... |
| get.DegreeHubStatistic | calculate module degree statistics based on random... |
| get.hub.summary | summarize hub information. |
| get_module_hierarchy_graph | Module Hierarchy Visualization |
| get.union.cut | Scale-thresholding of multiscale modules. |
| MEGENA.ModuleSummary | MEGENA module summary |
| MEGENA-package | co-expression network analysis |
| 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 |
| perform.AllPairs.FET | Fisher Exact Test (FET) analysis for ALL possible pairs of... |
| perform.ijPairs.FET | Fisher Exact Test (FET) analysis for user specific pairs of... |
| 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 | Toy example data |
