AllSplitPairings: Variation of information for all split pairings
In ms609/TreeDist: Calculate and Map Distances Between Phylogenetic Trees
AllSplitPairings R Documentation
Variation of information for all split pairings
Description
Calculate the variation of clustering information
\insertCiteMeila2007TreeDist for each possible pairing of
non-trivial splits on n leaves \insertCiteSmithDistTreeDist,
tabulating the number of pairings with each similarity.
Usage
AllSplitPairings(n)
Arguments
n
Integer specifying the number of leaves in a tree.
Value
AllSplitPairings() returns a named vector. The name of each
element corresponds to a certain variation of information, in bits; the
value of each element specifies the number of pairings of non-trivial
splits that give rise to that variation of information.
Split AB|CD is treated as distinct from CD|AB. If pairing
AB|CD=CD|AB is considered equivalent to CD|AB=CD|AB (etc), then
values should be divided by four.
Author(s)
Martin R. Smith
(martin.smith@durham.ac.uk)
References
\insertAllCited
Examples
AllSplitPairings(6)
# Treat equivalent splits as identical by dividing by four:
AllSplitPairings(6) / 4L
ms609/TreeDist documentation built on April 26, 2024, 12:02 a.m.
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| AllSplitPairings | R Documentation |
Variation of information for all split pairings
Description
Calculate the variation of clustering information \insertCiteMeila2007TreeDist for each possible pairing of non-trivial splits on n leaves \insertCiteSmithDistTreeDist, tabulating the number of pairings with each similarity.
Usage
AllSplitPairings(n)
Arguments
n |
Integer specifying the number of leaves in a tree. |
Value
AllSplitPairings() returns a named vector. The name of each
element corresponds to a certain variation of information, in bits; the
value of each element specifies the number of pairings of non-trivial
splits that give rise to that variation of information.
Split AB|CD is treated as distinct from CD|AB. If pairing
AB|CD=CD|AB is considered equivalent to CD|AB=CD|AB (etc), then
values should be divided by four.
Author(s)
Martin R. Smith (martin.smith@durham.ac.uk)
References
\insertAllCitedExamples
AllSplitPairings(6)
# Treat equivalent splits as identical by dividing by four:
AllSplitPairings(6) / 4L
R Package Documentation
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