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 |
parallelFit | Fit ternary network models using parallel tempering |
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 |