Man pages for meghapadi/ALPACA
| alpaca | Main ALPACA function |
| CommunityStructureRotation | Comparing node community membership between two networks |
| computeDWBMmat.mscale | Differential modularity matrix |
| computeWBMmat | Compute modularity matrix for weighted bipartite network |
| DeltaZAnalysis | Edge subtraction method (CONDOR optimizaton) |
| DeltaZAnalysis.Louvain | Edge subtraction method (Louvain optimizaton) |
| ExtractTopGenes | Extract core target genes in differential modules |
| genlouvain | Generalized Louvain optimization |
| GOtab.to.genes | The top GO term associated genes in each module |
| go.to.genes | Map GO terms to gene symbols |
| list.to.go | GO term enrichment for a list of gene sets |
| metanetwork | Create metanetwork for Louvain optimization |
| node.to.gene | Remove tags from gene names |
| RotationAnalysis | Community comparison method (CONDOR optimizaton) |
| RotationAnalysis.Louvain | Community comparison method (CONDOR optimizaton) |
| simulateNetwork | Simulated networks |
| TestNodeRank | Enrichment in ranked list |
| tidyconfig | Renumbering community membership vector |
| TopEnsembl.to.TopSym | Translating gene identifiers to gene symbols |
| WBM.louvain | Generalized Louvain method for bipartite networks |
