Man pages for cbg-ethz/epiNEM
epiNEM
| AddLogicGates | Add logic. |
| CreateExtendedAdjacency | Create an extended adjacency matrix |
| CreateRandomGraph | Create a random graph |
| CreateTopology | Create Topology. |
| epiAnno | Gate visualisation. |
| epiNEM | Epistatic NEMs - main function. |
| epiScreen | Analyse large double knock-out screen. |
| ExtendTopology | Extending topology of normal "nem" |
| GenerateData | Generate data from extended model. |
| HeatmapOP | Heatmap. |
| Mll | Evaluation of graphs |
| perm.rank.test | AUC permutation test |
| plot.epiNEM | Plot pathway. |
| plot.epiScreen | Plot screen. |
| plot.epiSim | Plot simulations. |
| rank.enrichment | Rank enrichment |
| sameith_GO | graph-based GO similarity scores, string GO annotations for... |
| sameith_string | sig. of string interaction scores for Sameith et al., 2015... |
| samscreen | Example data: epiNEM results for the Sameith et al., 2015... |
| sim | Example data: simulation results |
| SimEpiNEM | Compare algorithms. |
| wageningen_GO | graph-based GO similarity scores, string GO annotations for... |
| wageningen_string | sig. of string interaction scores for van Wageningen et al.,... |
| wagscreen | Example data: epiNEM results for the Wageningen et al., 2010... |
