CompareSplits: Compare status of splits

In ms609/SlowQuartet: Comparison of Phylogenetic Trees Using Quartet and Split Measures

Compare status of splits

Description

Reports whether splits are present or contradicted in a set of reference splits.

Usage

CompareSplits(splits, splits2)

CompareBipartitions(splits, splits2)

Arguments

splits	An object that can be coerced into class Splits using as.Splits.
splits2	Splits against which to compare splits.

Value

A named vector of eight integers, listing the number of unique splits that:

• N exist in total; i.e. the number of splits in splits1 plus the number in splits2, equivalent to 2 s + d1 + d2 + r1 + r2;

• P1 occur in splits1

• P2 occur in splits2

• s occur in both splits1 and splits2;

• d1 occur in splits1 but are contradicted by splits2;

• d2 occur in splits2 but are contradicted by splits1;

• r1 occur in splits1 only, being neither present in nor contradicted by splits2;

• r2 occur in splits2 only, being neither present in nor contradicted by splits1;

• RF occur in one tree only; i.e. d1 + d2 + r1 + r2, the Robinson-Foulds distance.

Author(s)

Martin R. Smith ([e-mail])

References

• \insertRef

  Estabrook1985Quartet

• \insertRef

  Robinson1981Quartet

See Also

Equivalent function for quartets: CompareQuartets()

Other element-by-element comparisons: CompareQuartets(), CompareQuartetsMulti(), PairSharedQuartetStatus(), QuartetState(), SharedQuartetStatus(), SplitStatus()

Examples

splits1 <- TreeTools::BalancedTree(8)
splits2 <- TreeTools::PectinateTree(8)

CompareSplits(splits1, splits2)
        

ms609/SlowQuartet documentation built on April 22, 2024, 5:41 p.m.