| attractorSummary | Summarize Attractors |
| backupStage | Ternary Network Fitting Parameters |
| backupStage-method | Ternary Network Fitting Parameters |
| backupStage<- | Ternary Network Fitting Parameters |
| backupStage<--method | Ternary Network Fitting Parameters |
| beta0 | Ternary Network Fitting Parameters |
| beta0-method | Ternary Network Fitting Parameters |
| beta0<- | Ternary Network Fitting Parameters |
| beta0<--method | Ternary Network Fitting Parameters |
| chi0 | Ternary Network Fitting Parameters |
| chi0-method | Ternary Network Fitting Parameters |
| chi0<- | Ternary Network Fitting Parameters |
| chi0<--method | Ternary Network Fitting Parameters |
| class:ternaryFit | Ternary Network Fit |
| class:ternaryFitParameters | Ternary Network Fitting Parameters |
| class:ternaryPost | Ternary Network Posterior |
| degreeObjMin | Ternary Network Fit |
| degreeObjMin-method | Ternary Network Fit |
| degreeObjMin<- | Ternary Network Fit |
| degreeObjMin<--method | Ternary Network Fit |
| degreeObjs | Ternary Network Posterior |
| degreeObjs-method | Ternary Network Posterior |
| degreeObjs<- | Ternary Network Posterior |
| degreeObjs<--method | Ternary Network Posterior |
| delta | Ternary Network Fitting Parameters |
| delta-method | Ternary Network Fitting Parameters |
| delta<- | Ternary Network Fitting Parameters |
| delta<--method | Ternary Network Fitting Parameters |
| dim-method | Ternary Network Fit |
| dim-method | Ternary Network Posterior |
| edgePenalty | Ternary Network Fitting Parameters |
| edgePenalty-method | Ternary Network Fitting Parameters |
| edgePenalty<- | Ternary Network Fitting Parameters |
| edgePenalty<--method | Ternary Network Fitting Parameters |
| epsilon | Ternary Network Fitting Parameters |
| epsilon-method | Ternary Network Fitting Parameters |
| epsilon<- | Ternary Network Fitting Parameters |
| epsilon<--method | Ternary Network Fitting Parameters |
| experimentNames | Ternary Network Fit |
| experimentNames-method | Ternary Network Fit |
| experimentNames-method | Ternary Network Posterior |
| experimentNames<- | Ternary Network Fit |
| experimentNames<--method | Ternary Network Fit |
| experimentNames<--method | Ternary Network Posterior |
| finalTemperature | Ternary Network Fit |
| finalTemperature-method | Ternary Network Fit |
| finalTemperature<- | Ternary Network Fit |
| finalTemperature<--method | Ternary Network Fit |
| geneNames | Ternary Network Fit |
| geneNames-method | Ternary Network Fit |
| geneNames-method | Ternary Network Posterior |
| geneNames<- | Ternary Network Fit |
| geneNames<--method | Ternary Network Fit |
| geneNames<--method | Ternary Network Posterior |
| graphObjMin | Ternary Network Fit |
| graphObjMin-method | Ternary Network Fit |
| graphObjMin<- | Ternary Network Fit |
| graphObjMin<--method | Ternary Network Fit |
| graphObjs | Ternary Network Posterior |
| graphObjs-method | Ternary Network Posterior |
| graphObjs<- | Ternary Network Posterior |
| graphObjs<--method | Ternary Network Posterior |
| graphPosterior | Network Topology |
| initialize-method | Ternary Network Fit |
| initialize-method | Ternary Network Fitting Parameters |
| initialize-method | Ternary Network Posterior |
| inputParams | Ternary Network Fit |
| inputParams-method | Ternary Network Fit |
| inputParams-method | Ternary Network Posterior |
| inputParams<- | Ternary Network Fit |
| inputParams<--method | Ternary Network Fit |
| inputParams<--method | Ternary Network Posterior |
| m0 | Ternary Network Fitting Parameters |
| m0-method | Ternary Network Fitting Parameters |
| m0<- | Ternary Network Fitting Parameters |
| m0<--method | Ternary Network Fitting Parameters |
| maxDegree | Ternary Network Fitting Parameters |
| maxDegree-method | Ternary Network Fitting Parameters |
| maxDegree<- | Ternary Network Fitting Parameters |
| maxDegree<--method | Ternary Network Fitting Parameters |
| maxStage | Ternary Network Fitting Parameters |
| maxStage-method | Ternary Network Fitting Parameters |
| maxStage<- | Ternary Network Fitting Parameters |
| maxStage<--method | Ternary Network Fitting Parameters |
| maxTransition | Ternary Network Fitting Parameters |
| maxTransition-method | Ternary Network Fitting Parameters |
| maxTransition<- | Ternary Network Fitting Parameters |
| maxTransition<--method | Ternary Network Fitting Parameters |
| minScore | Ternary Network Fit |
| minScore-method | Ternary Network Fit |
| minScore<- | Ternary Network Fit |
| minScore<--method | Ternary Network Fit |
| ne | Ternary Network Fitting Parameters |
| ne-method | Ternary Network Fitting Parameters |
| ne<- | Ternary Network Fitting Parameters |
| ne<--method | Ternary Network Fitting Parameters |
| neighborDegree | Ternary Network Fitting Parameters |
| neighborDegree-method | Ternary Network Fitting Parameters |
| neighborDegree<- | Ternary Network Fitting Parameters |
| neighborDegree<--method | Ternary Network Fitting Parameters |
| newScore | Ternary Network Fit |
| newScore-method | Ternary Network Fit |
| newScore<- | Ternary Network Fit |
| newScore<--method | Ternary Network Fit |
| pAddParent | Ternary Network Fitting Parameters |
| pAddParent-method | Ternary Network Fitting Parameters |
| pAddParent<- | Ternary Network Fitting Parameters |
| pAddParent<--method | Ternary Network Fitting Parameters |
| perturbationObj | Ternary Network Fit |
| perturbationObj-method | Ternary Network Fit |
| perturbationObj-method | Ternary Network Posterior |
| perturbationObj<- | Ternary Network Fit |
| perturbationObj<--method | Ternary Network Fit |
| perturbationObj<--method | Ternary Network Posterior |
| perturbationType | Ternary Network Fitting Parameters |
| perturbationType-method | Ternary Network Fitting Parameters |
| perturbationType<- | Ternary Network Fitting Parameters |
| perturbationType<--method | Ternary Network Fitting Parameters |
| pExchangeParent | Ternary Network Fitting Parameters |
| pExchangeParent-method | Ternary Network Fitting Parameters |
| pExchangeParent<- | Ternary Network Fitting Parameters |
| pExchangeParent<--method | Ternary Network Fitting Parameters |
| plotFit | Network Fit Plot |
| plotPost | Network Posterior Plot |
| plotTraces | Network Fit Traces |
| pNeighborhood | Ternary Network Fitting Parameters |
| pNeighborhood-method | Ternary Network Fitting Parameters |
| pNeighborhood<- | Ternary Network Fitting Parameters |
| pNeighborhood<--method | Ternary Network Fitting Parameters |
| predictAttractor | Predict the attractor(s) resulting from a given perturbation |
| rho | Ternary Network Fitting Parameters |
| rho-method | Ternary Network Fitting Parameters |
| rho<- | Ternary Network Fitting Parameters |
| rho<--method | Ternary Network Fitting Parameters |
| scores | Ternary Network Posterior |
| scores-method | Ternary Network Posterior |
| scores<- | Ternary Network Posterior |
| scores<--method | Ternary Network Posterior |
| scoreType | Ternary Network Fitting Parameters |
| scoreType-method | Ternary Network Fitting Parameters |
| scoreType<- | Ternary Network Fitting Parameters |
| scoreType<--method | Ternary Network Fitting Parameters |
| show-method | Ternary Network Fit |
| show-method | Ternary Network Fitting Parameters |
| show-method | Ternary Network Posterior |
| simulateSteadyState | Simulate Steady State Data |
| stageCount | Ternary Network Fit |
| stageCount-method | Ternary Network Fit |
| stageCount<- | Ternary Network Fit |
| stageCount<--method | Ternary Network Fit |
| steadyStateObj | Ternary Network Fit |
| steadyStateObj-method | Ternary Network Fit |
| steadyStateObj-method | Ternary Network Posterior |
| steadyStateObj<- | Ternary Network Fit |
| steadyStateObj<--method | Ternary Network Fit |
| steadyStateObj<--method | Ternary Network Posterior |
| tableObjMin | Ternary Network Fit |
| tableObjMin-method | Ternary Network Fit |
| tableObjMin<- | Ternary Network Fit |
| tableObjMin<--method | Ternary Network Fit |
| tableObjs | Ternary Network Posterior |
| tableObjs-method | Ternary Network Posterior |
| tableObjs<- | Ternary Network Posterior |
| tableObjs<--method | Ternary Network Posterior |
| ternaryFit | Ternary Network Fit |
| ternaryFit-class | Ternary Network Fit |
| ternaryFit-methods | Ternary Network Fit |
| ternaryFitParameters | Ternary Network Fitting Parameters |
| ternaryFitParameters-class | Ternary Network Fitting Parameters |
| ternaryFitParameters-methods | Ternary Network Fitting Parameters |
| ternaryPost | Ternary Network Posterior |
| ternaryPost-class | Ternary Network Posterior |
| ternaryPost-methods | Ternary Network Posterior |
| tnetfit | Ternary Network Fitting |
| tnetpost | Ternary Network Posterior Sampling |
| traces | Ternary Network Fit |
| traces-method | Ternary Network Fit |
| traces<- | Ternary Network Fit |
| traces<--method | Ternary Network Fit |
| xSeed | Ternary Network Fit |
| xSeed-method | Ternary Network Fit |
| xSeed<- | Ternary Network Fit |
| xSeed<--method | Ternary Network Fit |