phybin-0.3: Utility for clustering phylogenetic trees in Newick format based on Robinson-Foulds distance.

Index

acquireTreeFilesBio.Phylogeny.PhyBin.Util, Bio.Phylogeny.PhyBin
allBipsBio.Phylogeny.PhyBin.RFDistance
all_labelsBio.Phylogeny.PhyBin.CoreTypes
AnnotatedTreeBio.Phylogeny.PhyBin.CoreTypes
annotateWLabListsBio.Phylogeny.PhyBin.Binning, Bio.Phylogeny.PhyBin
anonymize_annotatedBio.Phylogeny.PhyBin.Binning
avg_branchlenBio.Phylogeny.PhyBin.CoreTypes
BinResultsBio.Phylogeny.PhyBin.Binning
BinThemBio.Phylogeny.PhyBin.CoreTypes
binthemBio.Phylogeny.PhyBin.Binning, Bio.Phylogeny.PhyBin
bipSizeBio.Phylogeny.PhyBin.RFDistance
bipsToTreeBio.Phylogeny.PhyBin.RFDistance
bootStrapBio.Phylogeny.PhyBin.CoreTypes
bootstrap_collapse_threshBio.Phylogeny.PhyBin.CoreTypes
branchLenBio.Phylogeny.PhyBin.CoreTypes
branch_collapse_threshBio.Phylogeny.PhyBin.CoreTypes
ClusterThemBio.Phylogeny.PhyBin.CoreTypes
clustMembersBio.Phylogeny.PhyBin.Binning
ClustModeBio.Phylogeny.PhyBin.CoreTypes
clust_modeBio.Phylogeny.PhyBin.CoreTypes
collapseBranchBootStrapThreshBio.Phylogeny.PhyBin.PreProcessor
collapseBranchesBio.Phylogeny.PhyBin.PreProcessor
collapseBranchLenThreshBio.Phylogeny.PhyBin.PreProcessor
compatibleWithBio.Phylogeny.PhyBin.RFDistance
consensusTreeBio.Phylogeny.PhyBin.RFDistance
deAnnotateBio.Phylogeny.PhyBin.Binning, Bio.Phylogeny.PhyBin
default_phybin_configBio.Phylogeny.PhyBin.CoreTypes
DefDecorBio.Phylogeny.PhyBin.CoreTypes
dendrogramToGraphBio.Phylogeny.PhyBin.Visualize
denseDiffBio.Phylogeny.PhyBin.RFDistance
DenseLabelSetBio.Phylogeny.PhyBin.RFDistance
denseUnionsBio.Phylogeny.PhyBin.RFDistance
dispBipBio.Phylogeny.PhyBin.RFDistance
displayDefaultTreeBio.Phylogeny.PhyBin.CoreTypes
displayStrippedTreeBio.Phylogeny.PhyBin.CoreTypes
DistanceMatrixBio.Phylogeny.PhyBin.RFDistance
dist_threshBio.Phylogeny.PhyBin.CoreTypes
dotDendrogramBio.Phylogeny.PhyBin.Visualize
dotNewickTreeBio.Phylogeny.PhyBin.Visualize
dotNewickTree_debugBio.Phylogeny.PhyBin.Visualize
dotToPDFBio.Phylogeny.PhyBin.Visualize
do_drawBio.Phylogeny.PhyBin.CoreTypes
do_graphBio.Phylogeny.PhyBin.CoreTypes
driverBio.Phylogeny.PhyBin
ExpectedBio.Phylogeny.PhyBin.CoreTypes
filterCompatibleBio.Phylogeny.PhyBin.RFDistance
foldBipsBio.Phylogeny.PhyBin.RFDistance
foldIsomorphicTreesBio.Phylogeny.PhyBin.CoreTypes
FullTree 
1 (Type/Class)Bio.Phylogeny.PhyBin.CoreTypes
2 (Data Constructor)Bio.Phylogeny.PhyBin.CoreTypes
getBranchLenBio.Phylogeny.PhyBin.CoreTypes
get_bootstrapsBio.Phylogeny.PhyBin.CoreTypes
get_childrenBio.Phylogeny.PhyBin.CoreTypes
get_decBio.Phylogeny.PhyBin.CoreTypes
get_weightBio.Phylogeny.PhyBin.Binning
HasBranchLenBio.Phylogeny.PhyBin.CoreTypes
HashRFBio.Phylogeny.PhyBin.CoreTypes
hashRFBio.Phylogeny.PhyBin.RFDistance
highlightsBio.Phylogeny.PhyBin.CoreTypes
inputsBio.Phylogeny.PhyBin.CoreTypes
invertDenseBio.Phylogeny.PhyBin.RFDistance
is_regular_fileBio.Phylogeny.PhyBin.Util
LabelBio.Phylogeny.PhyBin.CoreTypes
LabelTableBio.Phylogeny.PhyBin.CoreTypes
labelTableBio.Phylogeny.PhyBin.CoreTypes
liftFTBio.Phylogeny.PhyBin.CoreTypes
linkageBio.Phylogeny.PhyBin.CoreTypes
map_labelsBio.Phylogeny.PhyBin.CoreTypes
markLabelBio.Phylogeny.PhyBin.RFDistance
matchAnyHighlightBio.Phylogeny.PhyBin
mkEmptyDenseBio.Phylogeny.PhyBin.RFDistance
mkSingleDenseBio.Phylogeny.PhyBin.RFDistance
naiveDistMatrixBio.Phylogeny.PhyBin.RFDistance
name_hackBio.Phylogeny.PhyBin.CoreTypes
NewickTreeBio.Phylogeny.PhyBin.CoreTypes
newick_parserBio.Phylogeny.PhyBin.Parser
normalizeBio.Phylogeny.PhyBin.Binning, Bio.Phylogeny.PhyBin
normalizeFTBio.Phylogeny.PhyBin.Binning
NTInteriorBio.Phylogeny.PhyBin.CoreTypes
NTLeafBio.Phylogeny.PhyBin.CoreTypes
numLeavesBio.Phylogeny.PhyBin.CoreTypes
NumTaxaBio.Phylogeny.PhyBin.CoreTypes
num_taxaBio.Phylogeny.PhyBin.CoreTypes
nwtreeBio.Phylogeny.PhyBin.CoreTypes
OneCluster 
1 (Type/Class)Bio.Phylogeny.PhyBin.Binning
2 (Data Constructor)Bio.Phylogeny.PhyBin.Binning
output_dirBio.Phylogeny.PhyBin.CoreTypes
parseNewickBio.Phylogeny.PhyBin.Parser
parseNewickFilesBio.Phylogeny.PhyBin.Parser
parseNewicksBio.Phylogeny.PhyBin.Parser
PBCBio.Phylogeny.PhyBin.CoreTypes
PhyBinConfigBio.Phylogeny.PhyBin.CoreTypes
preprune_labelsBio.Phylogeny.PhyBin.CoreTypes
printDistMatBio.Phylogeny.PhyBin.RFDistance
print_rfmatrixBio.Phylogeny.PhyBin.CoreTypes
pruneTreeLeavesBio.Phylogeny.PhyBin.PreProcessor
retrieveHighlightsBio.Phylogeny.PhyBin
rfmodeBio.Phylogeny.PhyBin.CoreTypes
safePrintDendroBio.Phylogeny.PhyBin.Util
sanityCheckBio.Phylogeny.PhyBin.Util
set_decBio.Phylogeny.PhyBin.CoreTypes
show_interior_consensusBio.Phylogeny.PhyBin.CoreTypes
show_trees_in_dendroBio.Phylogeny.PhyBin.CoreTypes
sortedLabelsBio.Phylogeny.PhyBin.CoreTypes
StandardDecor 
1 (Type/Class)Bio.Phylogeny.PhyBin.CoreTypes
2 (Data Constructor)Bio.Phylogeny.PhyBin.CoreTypes
StrippedTreeBio.Phylogeny.PhyBin.Binning
subtreeWeightBio.Phylogeny.PhyBin.CoreTypes
TolerantNaiveBio.Phylogeny.PhyBin.CoreTypes
TreeNameBio.Phylogeny.PhyBin.CoreTypes
treenameBio.Phylogeny.PhyBin.CoreTypes
treeSizeBio.Phylogeny.PhyBin.CoreTypes
unitTests 
1 (Function)Bio.Phylogeny.PhyBin.Parser
2 (Function)Bio.Phylogeny.PhyBin.Binning, Bio.Phylogeny.PhyBin
UnknownBio.Phylogeny.PhyBin.CoreTypes
VariableBio.Phylogeny.PhyBin.CoreTypes
verboseBio.Phylogeny.PhyBin.CoreTypes
viewNewickTreeBio.Phylogeny.PhyBin.Visualize
WhichRFModeBio.Phylogeny.PhyBin.CoreTypes