/usr/lib/R/site-library/phylobase/help/AnIndex is in r-cran-phylobase 0.8.2-1.
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addData addData-methods
addData,phylo4-method addData-methods
addData,phylo4d-method addData-methods
addData-methods addData-methods
ancestor ancestors
ancestors ancestors
as setAs-methods
as,nexml,phylo4-method setAs-methods
as,nexml,phylo4d-method setAs-methods
as,phylo,phylo4-method setAs-methods
as,phylo,phylo4d-method setAs-methods
as,phylo4,phylo-method setAs-methods
as-method setAs-methods
as_phylo4vcov phylomat-class
checkPhylo4 checkPhylo4
checkPhylo4Data checkPhylo4
checkTree checkPhylo4
check_pdata pdata
children ancestors
depthTips edgeLength-methods
depthTips,phylo4-method edgeLength-methods
depthTips,phylo4-methods edgeLength-methods
descendants ancestors
edgeId nodeId-methods
edgeId,phylo4-method nodeId-methods
edgeLabels labels-methods
edgeLabels,phylo4-method labels-methods
edgeLabels<- labels-methods
edgeLabels<-,phylo4-method labels-methods
edgeLength edgeLength-methods
edgeLength,phylo4-method edgeLength-methods
edgeLength<- edgeLength-methods
edgeLength<-,phylo4,ANY-method edgeLength-methods
edgeLength<-,phylo4-method edgeLength-methods
edgeOrder edges-accessors
edgeOrder,phylo4-method edges-accessors
edges edges-accessors
edges,phylo4-method edges-accessors
extractTree extractTree
formatData formatData
geospiza geospiza
geospiza_raw geospiza
getEdge getNode-methods
getEdge,phylo4-method getNode-methods
getEdge-methods getNode-methods
getNode getNode-methods
getNode,phylo4-method getNode-methods
hasDuplicatedLabels labels-methods
hasDuplicatedLabels,phylo4,ANY-method labels-methods
hasDuplicatedLabels,phylo4-method labels-methods
hasEdgeLabels labels-methods
hasEdgeLabels,phylo4-method labels-methods
hasEdgeLength edgeLength-methods
hasEdgeLength,phylo4-method edgeLength-methods
hasNodeData phylo4d-accessors
hasNodeData,phylo4d-method phylo4d-accessors
hasNodeData-methods phylo4d-accessors
hasNodeLabels labels-methods
hasNodeLabels,phylo4-method labels-methods
hasPoly treeStructure-methods
hasPoly,phylo4-method treeStructure-methods
hasRetic treeStructure-methods
hasRetic,phylo4-method treeStructure-methods
hasSingle treeStructure-methods
hasSingle,phylo4-method treeStructure-methods
hasTipData phylo4d-accessors
hasTipData,phylo4d-method phylo4d-accessors
hasTipData-method,phylo4d-method phylo4d-accessors
head print-methods
head,phylo4-method print-methods
Import Nexus and Newick files readNexus
internalEdges edges-accessors
internalEdges,phylo4-method edges-accessors
isRooted root-methods
isRooted,phylo4-method root-methods
isUltrametric edgeLength-methods
isUltrametric,phylo4-method edgeLength-methods
labels labels-methods
labels,phylo4-method labels-methods
labels<- labels-methods
labels<-,phylo4-method labels-methods
MRCA MRCA
MRCA,phylo-method MRCA
MRCA,phylo4-method MRCA
multiPhylo-class multiPhylo-class
multiPhylo4-class multiPhylo-class
multiPhylo4d-class multiPhylo-class
names print-methods
names,phylo4-method print-methods
nData phylo4d-accessors
nData,phylo4d-method phylo4d-accessors
nEdges nTips-methods
nEdges,phylo4-method nTips-methods
nexml,phylo4-method phylo4-methods
nexml,phylo4d-method phylo4d-methods
nNodes nTips-methods
nNodes,phylo4-method nTips-methods
nodeData tdata-methods
nodeData,phylo4d-method tdata-methods
nodeData-method tdata-methods
nodeData<- tdata-methods
nodeData<-,phylo4d,ANY-method tdata-methods
nodeData<-,phylo4d-method tdata-methods
nodeDepth edgeLength-methods
nodeDepth,phylo4-method edgeLength-methods
nodeHeight edgeLength-methods
nodeHeight,phylo4-method edgeLength-methods
nodeId nodeId-methods
nodeId,phylo4-method nodeId-methods
nodeLabels labels-methods
nodeLabels,phylo4-method labels-methods
nodeLabels<- labels-methods
nodeLabels<-,phylo4-method labels-methods
nodeType summary-methods
nodeType,phylo4-method summary-methods
nTips nTips-methods
nTips,phylo-method nTips-methods
nTips,phylo4-method nTips-methods
owls4 owls4
pdata pdata
pdata-class pdata-class
phylo4 phylo4-methods
phylo4,matrix-method phylo4-methods
phylo4,nexml-method phylo4-methods
phylo4,phylo-method phylo4-methods
phylo4-class phylo4-class
phylo4-labels labels-methods
phylo4-methods phylo4-methods
phylo4d phylo4d-methods
phylo4d,matrix,matrix-method phylo4d-methods
phylo4d,matrix-method phylo4d-methods
phylo4d,nexml-method phylo4d-methods
phylo4d,phylo,phylo-method phylo4d-methods
phylo4d,phylo-method phylo4d-methods
phylo4d,phylo4,phylo4-method phylo4d-methods
phylo4d,phylo4-method phylo4d-methods
phylo4d,phylo4d,phylo4d-method phylo4d-methods
phylo4d,phylo4d-method phylo4d-methods
phylo4d-class phylo4d-class
phylo4d-methods phylo4d-methods
phylo4vcov-class phylomat-class
phylo4_orderings phylo4-methods
phylobase phylobase-package
phylobase.options phylobase.options
phylobubbles phylobubbles
phylomat-class phylomat-class
phylomat-setAs phylomat-class
phyloXXYY phyloXXYY
plot treePlot-methods
plot,ANY,ANY-method treePlot-methods
plot,pdata,missing-method treePlot-methods
plot,phylo4,missing-method treePlot-methods
plot,phylo4-method treePlot-methods
plotOneTree plotOneTree
print print-methods
print,phylo4-method print-methods
prune subset-methods
prune,phylo4-method subset-methods
prune,phylo4d-method subset-methods
ptypes pdata-class
readNCL readNexus
readNewick readNexus
readNexus readNexus
reorder reorder-methods
reorder,phylo4-method reorder-methods
reorder-methods reorder-methods
rootNode root-methods
rootNode,phylo4-method root-methods
rootNode<- root-methods
rootNode<-,phylo4-method root-methods
setAs setAs-methods
setAs,phylo,phylo4vcov-method phylomat-class
setAs,phylo4,data.frame-method setAs-methods
setAs,phylo4,phylog-method setAs-methods
setAs,phylo4vcov,phylo4-method phylomat-class
shortestPath shortestPath-methods
shortestPath,phylo-method shortestPath-methods
shortestPath,phylo4-method shortestPath-methods
shortestPath-phylo shortestPath-methods
shortestPath-phylo4 shortestPath-methods
show print-methods
show,phylo4-method print-methods
siblings ancestors
subset subset-methods
subset,phylo4-method subset-methods
subset-methods subset-methods
sumEdgeLength edgeLength-methods
sumEdgeLength,phylo4-method edgeLength-methods
summary summary-methods
summary,phylo4-method summary-methods
summary,phylo4d-method summary-methods
summary-methods summary-methods
tail print-methods
tail,phylo4-method print-methods
tbind multiPhylo-class
tdata tdata-methods
tdata,phylo4d-method tdata-methods
tdata<- tdata-methods
tdata<-,phylo4d,ANY-method tdata-methods
tdata<-,phylo4d-method tdata-methods
terminalEdges edges-accessors
terminalEdges,phylo4-method edges-accessors
tip.data.plot tip.data.plot
tipData tdata-methods
tipData,phylo4d-method tdata-methods
tipData-method tdata-methods
tipData<- tdata-methods
tipData<-,phylo4d,ANY-method tdata-methods
tipData<-,phylo4d-method tdata-methods
tipLabels labels-methods
tipLabels,phylo4-method labels-methods
tipLabels<- labels-methods
tipLabels<-,phylo4-method labels-methods
treePlot treePlot-methods
treePlot,phylo4,phylo4d-method treePlot-methods
treePlot-method treePlot-methods
treePlot-methods treePlot-methods
[ subset-methods
[,pdata,ANY,ANY,ANY-method pdata-class
[,pdata-method pdata-class
[,phylo4,ANY,ANY,ANY-method subset-methods
[,phylo4,character,missing,missing-method subset-methods
[,phylo4,character,missing-method subset-methods
[,phylo4,logical,missing,missing-method subset-methods
[,phylo4,logical,missing-method subset-methods
[,phylo4,missing,missing,missing-method subset-methods
[,phylo4,missing,missing-method subset-methods
[,phylo4,numeric,missing,missing-method subset-methods
[,phylo4,numeric,missing-method subset-methods
[,phylo4d,ANY,character,missing-method subset-methods
[,phylo4d,ANY,logical,missing-method subset-methods
[,phylo4d,ANY,numeric,missing-method subset-methods
[<-,pdata-method pdata-class
[[,pdata,ANY,ANY-method pdata-class
[[,pdata,ANY,missing-method pdata-class
[[,pdata-method pdata-class
[[<-,pdata-method pdata-class
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