API for thej022214/hisse
Hidden State Speciation and Extinction

Global functions
AdaptiveConfidenceIntervalSampling Source code
AdaptiveConfidenceIntervalSamplingGeoHiSSE Source code
AdaptiveConfidenceIntervalSamplingMiSSE Source code
AdaptiveConfidenceIntervalSamplingMuHiSSE Source code
AdaptiveConfidenceIntervalSamplingfHiSSE Source code
BisseToHisse Man page Source code
CheckFull Source code
CheckKeepRunning Source code
CheckReconBounds Source code
ConvertManyToBinaryState Source code
ConvertManyToMultiState Source code
ConvertManyToRate Source code
ConvertManyToRate_ModelAve Source code
ConvertToBinaryState Source code
ConvertToRate Source code
DevOptimize Source code
DevOptimizeGeoHiSSE Source code
DevOptimizeGeoHiSSEfast Source code
DevOptimizeMiSSE Source code
DevOptimizeMuHiSSE Source code
DevOptimizeNull Source code
DevOptimizefHiSSE Source code
DownPass Source code
DownPassGeoHisse Source code
DownPassGeoHissefast Source code
DownPassHiSSE Source code
DownPassMisse Source code
DownPassMuHisse Source code
DownPassMusse Source code
DownPassNull Source code
EqFreqCID4 Source code
EqFreqHiSSE Source code
EqFreqsGeoHiSSE Source code
EqFreqsMuHiSSE Source code
EqFreqsMuSSE Source code
FindGenerations Source code
FocalNodeProb Source code
FocalNodeProbGeo Source code
FocalNodeProbHiSSE Source code
FocalNodeProbMiSSE Source code
GenerateValues Source code Source code
GenerateValuesGeo Source code
GeoHiSSE Man page Source code
GetAICWeights Man page Source code
GetAllDiags Source code
GetAllModels.anc Source code
GetArgnamesClasse Source code
GetBirthRate Source code
GetConversionOfAncestralNode Source code
GetDeathRate Source code
GetModelAveEqFreqs Man page Source code
GetModelAveRates Man page Source code
GetModelWeight Source code
GetNormalizedDensityPlot Source code
GetRateRange Source code
GetRelevantRowEntries Source code
GetRootProb Source code
GetRootProbGeo Source code
GetRootProbHiSSE Source code
GetRootProbMiSSE Source code
MarginRecon Man page Source code
MarginReconGeoSSE Man page Source code
MarginReconMiSSE Man page Source code
MarginReconMuHiSSE Man page Source code
MarginReconfGeoSSE Man page Source code
MarginReconfHiSSE Man page Source code
MergeAcrossHidden Source code
MiSSE Man page Source code
MiSSEGreedy Man page Source code
MuHiSSE Man page Source code
Multiply Source code
OrganizeData Source code
OrganizeDataGeo Source code
OrganizeDataHiSSE Source code
OrganizeDataMiSSE Source code
ParDrop Man page Source code
ParEqual Man page Source code
ParNamesKeyClaSSEtoGeoHiSSE Source code
ParameterTransform Source code Source code
ParameterTransformGeoSSE Source code
ParameterTransformMiSSE Source code
ParameterTransformMuHiSSE Source code
ParameterTransformfGeoSSE Source code
ParameterTransformfHiSSE Source code
ParametersToPass Source code
ParametersToPassGeoHiSSE Source code
ParametersToPassGeoHiSSEfast Source code
ParametersToPassMiSSE Source code
ParametersToPassMuHiSSE Source code
ParametersToPassMuSSE Source code
ParametersToPassNull Source code
ParametersToPassfHiSSE Source code
PassAscertainmentFilter Source code
SimToPhylo Man page Source code
SimulateGeoHiSSE Man page Source code
SimulateHisse Man page Source code
SingleChildProb Source code
SingleChildProbGeo Source code
SingleChildProbHiSSE Source code
SingleChildProbMiSSE Source code
SupportRegion Man page Source code
SupportRegionGeoSSE Man page Source code
SupportRegionMiSSE Man page Source code
SupportRegionMuHiSSE Man page Source code
SupportRegionfHiSSE Man page Source code
TransMatGeoSSEsingle Source code
TransMatMaker Man page Source code
TransMatMakerGeoHiSSE Man page Source code
TransMatMakerMuHiSSE Man page Source code
TransMatMakerfGeoHiSSE Man page Source code
TransMatMakerfHiSSE Man page Source code
TransMatMuSSEsingle Source code
TransMatfGeoSSEsingle Source code
TranslateParsMakerGeoHiSSE Man page Source code
contMapGivenAnc Source code
fGeoHiSSE Man page Source code
fhisse Man page
getState Source code
hisse Man page Source code
hisse.new Man page Source code
hisse.null4 Man page Source code
makeHiSSELikelihood Man page Source code
makeMappedEdge Source code
plot.contMapHisse Source code
plot.geohisse.states Man page Source code
plot.hisse.states Man page Source code
plot.misse.states Man page Source code
plot.muhisse.states Man page Source code
plotFanHiSSE Source code
plotPhylogramHiSSE Source code
plotSimmapHiSSE Source code
print.fhisse.fit Source code
print.fhisse.support Source code
print.geohisse.fit Source code
print.geohisse.support Source code
print.hisse.fit Source code
print.hisse.geosse.states Source code
print.hisse.null4.fit Source code
print.hisse.states Source code
print.hisse.support Source code
print.misse.fit Source code
print.misse.states Source code
print.misse.support Source code
print.muhisse.fit Source code
print.muhisse.states Source code
print.muhisse.support Source code
qNamesKeyClaSSEtoGeoSSE Source code
reorderSimmapHiSSE Source code
starting.point.generator Source code
starting.point.geosse Source code
starting.point.tree Source code
whichorder Source code
thej022214/hisse documentation built on Sept. 11, 2019, 5:47 p.m.