elynx-tree-0.1.0: Handle phylogenetic trees

Index

adjacentELynx.Data.Tree.Distance
averageDistanceOriginLeavesELynx.Data.Tree.MeasurableTree
BDCDELynx.Distribution.BirthDeathCritical
bdcdLaELynx.Distribution.BirthDeathCritical
bdcdTOrELynx.Distribution.BirthDeathCritical
BDCNTDELynx.Distribution.BirthDeathCriticalNoTime
bdcntdLaELynx.Distribution.BirthDeathCriticalNoTime
BDDELynx.Distribution.BirthDeath
bddLaELynx.Distribution.BirthDeath
bddMuELynx.Distribution.BirthDeath
bddTOrELynx.Distribution.BirthDeath
BDNCDELynx.Distribution.BirthDeathNearlyCritical
bdncdLaELynx.Distribution.BirthDeathNearlyCritical
bdncdMuELynx.Distribution.BirthDeathNearlyCritical
bdncdTOrELynx.Distribution.BirthDeathNearlyCritical
bifurcatingELynx.Data.Tree.Tree
BipartitionELynx.Data.Tree.Bipartition
bipartitionELynx.Data.Tree.Bipartition
bipartitionsELynx.Data.Tree.Bipartition
bipartitionToBranchLengthELynx.Data.Tree.Bipartition
BirthDeathCriticalDistributionELynx.Distribution.BirthDeathCritical
BirthDeathCriticalNoTimeDistributionELynx.Distribution.BirthDeathCriticalNoTime
BirthDeathDistributionELynx.Distribution.BirthDeath
BirthDeathNearlyCriticalDistributionELynx.Distribution.BirthDeathNearlyCritical
bpELynx.Data.Tree.Bipartition
bphumanELynx.Data.Tree.Bipartition
bpmapELynx.Data.Tree.Bipartition
bpsELynx.Data.Tree.Bipartition
branchLengthELynx.Import.Tree.Newick
branchScoreELynx.Data.Tree.Distance
branchScoreWithELynx.Data.Tree.Distance
BranchSupportELynx.Data.Tree.BranchSupportTree
BranchSupportedELynx.Data.Tree.BranchSupportTree
brLenELynx.Data.Tree.PhyloTree
BrLnNChildrenELynx.Data.Tree.SumStat
brSupELynx.Data.Tree.PhyloTree
cladesELynx.Data.Tree.Tree
coalescentDistributionContELynx.Distribution.CoalescentContinuous
collapseELynx.Data.Tree.BranchSupportTree
compatible 
1 (Function)ELynx.Data.Tree.Bipartition
2 (Function)ELynx.Data.Tree.Multipartition
connectELynx.Data.Tree.Tree
cumulative 
1 (Function)ELynx.Distribution.TimeOfOriginNearCritical
2 (Function)ELynx.Distribution.TimeOfOrigin
3 (Function)ELynx.Distribution.BirthDeathNearlyCritical
4 (Function)ELynx.Distribution.BirthDeathCriticalNoTime
5 (Function)ELynx.Distribution.BirthDeathCritical
6 (Function)ELynx.Distribution.BirthDeath
degreeELynx.Data.Tree.Tree
density 
1 (Function)ELynx.Distribution.TimeOfOriginNearCritical
2 (Function)ELynx.Distribution.TimeOfOrigin
3 (Function)ELynx.Distribution.BirthDeathNearlyCritical
4 (Function)ELynx.Distribution.BirthDeathCriticalNoTime
5 (Function)ELynx.Distribution.BirthDeathCritical
6 (Function)ELynx.Distribution.BirthDeath
distancesOriginLeavesELynx.Data.Tree.MeasurableTree
distancesRootLeavesELynx.Data.Tree.MeasurableTree
EvoLabelELynx.Data.Tree.EvoTree
extantELynx.Data.Tree.EvoTree
externalELynx.Data.Tree.EvoTree
extinctELynx.Data.Tree.EvoTree
findSubsetELynx.Data.Tree.Multipartition
forestELynx.Import.Tree.Newick
formatNChildSumStatELynx.Data.Tree.SumStat
fromBipartitionELynx.Data.Tree.Multipartition
getBranchSupportELynx.Data.Tree.BranchSupportTree
getLenELynx.Data.Tree.MeasurableTree
getNameELynx.Data.Tree.NamedTree
heightELynx.Data.Tree.MeasurableTree
incompatibleSplitsELynx.Data.Tree.Distance
incompatibleSplitsWithELynx.Data.Tree.Distance
internalELynx.Data.Tree.EvoTree
labelELynx.Data.Tree.PhyloTree
leafELynx.Import.Tree.Newick
leavesELynx.Data.Tree.Tree
lengthenStemELynx.Data.Tree.MeasurableTree
manyNewickELynx.Import.Tree.Newick
manyNewickIqTreeELynx.Import.Tree.Newick
MeasurableELynx.Data.Tree.MeasurableTree
mergeELynx.Data.Tree.Tree
mpELynx.Data.Tree.Multipartition
mphumanELynx.Data.Tree.Multipartition
mpmapELynx.Data.Tree.Multipartition
mpsELynx.Data.Tree.Multipartition
MultipartitionELynx.Data.Tree.Multipartition
multipartitionsELynx.Data.Tree.Multipartition
nameELynx.Import.Tree.Newick
NamedELynx.Data.Tree.NamedTree
NChildSumStatELynx.Data.Tree.SumStat
newickELynx.Import.Tree.Newick
newickIqTreeELynx.Import.Tree.Newick
nodeELynx.Import.Tree.Newick
normalize 
1 (Function)ELynx.Data.Tree.BranchSupportTree
2 (Function)ELynx.Data.Tree.MeasurableTree
nSubSamplesELynx.Data.Tree.Tree
oneNewickELynx.Import.Tree.Newick
oneNewickIqTreeELynx.Import.Tree.Newick
originELynx.Simulate.PointProcess
pairwiseELynx.Data.Tree.Distance
ParserELynx.Import.Tree.Newick
partitionTreeELynx.Data.Tree.Tree
PhyloLabel 
1 (Type/Class)ELynx.Data.Tree.PhyloTree
2 (Data Constructor)ELynx.Data.Tree.PhyloTree
PointProcess 
1 (Type/Class)ELynx.Simulate.PointProcess
2 (Data Constructor)ELynx.Simulate.PointProcess
pointsELynx.Simulate.PointProcess
pruneELynx.Data.Tree.MeasurableTree
pruneWithELynx.Data.Tree.Tree
quantile 
1 (Function)ELynx.Distribution.TimeOfOriginNearCritical
2 (Function)ELynx.Distribution.TimeOfOrigin
3 (Function)ELynx.Distribution.BirthDeathNearlyCritical
4 (Function)ELynx.Distribution.BirthDeathCriticalNoTime
5 (Function)ELynx.Distribution.BirthDeathCritical
6 (Function)ELynx.Distribution.BirthDeath
RateELynx.Distribution.Types
removeBrInfoELynx.Data.Tree.PhyloTree
removeMultifurcationsELynx.Data.Tree.MeasurableTree
rootHeightELynx.Data.Tree.MeasurableTree
rootsELynx.Data.Tree.Tree
sdifferenceELynx.Data.Tree.Subset
sdisjointELynx.Data.Tree.Subset
semptyELynx.Data.Tree.Subset
setBranchSupportELynx.Data.Tree.BranchSupportTree
setLenELynx.Data.Tree.MeasurableTree
sfromlistELynx.Data.Tree.Subset
sfromsetELynx.Data.Tree.Subset
shortenStemELynx.Data.Tree.MeasurableTree
simulate 
1 (Function)ELynx.Simulate.Coalescent
2 (Function)ELynx.Simulate.PointProcess
simulateNReconstructedTreesELynx.Simulate.PointProcess
simulateReconstructedTreeELynx.Simulate.PointProcess
singletonELynx.Data.Tree.Tree
sintersectionELynx.Data.Tree.Subset
smapELynx.Data.Tree.Subset
smemberELynx.Data.Tree.Subset
snullELynx.Data.Tree.Subset
sshowELynx.Data.Tree.Subset
ssingletonELynx.Data.Tree.Subset
subForestGetSubsetsELynx.Data.Tree.Tree
subSampleELynx.Data.Tree.Tree
SubsetELynx.Data.Tree.Subset
subTreeELynx.Data.Tree.Tree
summarizeELynx.Data.Tree.MeasurableTree
sunionELynx.Data.Tree.Subset
sunionsELynx.Data.Tree.Subset
symmetricELynx.Data.Tree.Distance
symmetricWithELynx.Data.Tree.Distance
TimeELynx.Distribution.Types
TimeOfOriginDistributionELynx.Distribution.TimeOfOrigin
TimeOfOriginNearCriticalDistributionELynx.Distribution.TimeOfOriginNearCritical
TimeSpecELynx.Simulate.PointProcess
TODELynx.Distribution.TimeOfOrigin
todLa 
1 (Function)ELynx.Distribution.TimeOfOriginNearCritical
2 (Function)ELynx.Distribution.TimeOfOrigin
todMu 
1 (Function)ELynx.Distribution.TimeOfOriginNearCritical
2 (Function)ELynx.Distribution.TimeOfOrigin
todTN 
1 (Function)ELynx.Distribution.TimeOfOriginNearCritical
2 (Function)ELynx.Distribution.TimeOfOrigin
TONCDELynx.Distribution.TimeOfOriginNearCritical
toNChildSumStatELynx.Data.Tree.SumStat
toNewickELynx.Export.Tree.Newick
toReconstructedTreeELynx.Simulate.PointProcess
totalBranchLengthELynx.Data.Tree.MeasurableTree
tZipWithELynx.Data.Tree.Tree
ultrametricELynx.Data.Tree.MeasurableTree
valuesELynx.Simulate.PointProcess