Splits representation of graphs and trees.
as.splits produces a list of splits or bipartitions.
allSplits(k, labels = NULL)
allCircularSplits(k, labels = NULL)
as.splits(x, ...)
## S3 method for class 'splits'
as.matrix(x, zero.print = 0L, one.print = 1L, ...)
## S3 method for class 'splits'
as.Matrix(x, ...)
## S3 method for class 'splits'
print(x, maxp = getOption("max.print"), zero.print = ".", one.print = "|", ...)
## S3 method for class 'splits'
c(..., recursive = FALSE)
## S3 method for class 'splits'
unique(x, incomparables = FALSE, unrooted = TRUE, ...)
## S3 method for class 'phylo'
as.splits(x, ...)
## S3 method for class 'multiPhylo'
as.splits(x, ...)
## S3 method for class 'networx'
as.splits(x, ...)
## S3 method for class 'splits'
as.prop.part(x, ...)
## S3 method for class 'splits'
as.bitsplits(x)
## S3 method for class 'bitsplits'
as.splits(x, ...)
compatible(obj)k |
number of taxa. |
labels |
names of taxa. |
x |
An object of class phylo or multiPhylo. |
... |
Further arguments passed to or from other methods. |
zero.print |
character which should be printed for zeros. |
one.print |
character which should be printed for ones. |
maxp |
integer, default from |
recursive |
logical. If recursive = TRUE, the function recursively descends through lists (and pairlists) combining all their elements into a vector. |
incomparables |
only for compatibility so far. |
unrooted |
todo. |
obj |
an object of class splits. |
as.splits returns an object of class splits, which is mainly
a list of splits and some attributes. Often a splits object will
contain attributes confidences for bootstrap or Bayesian support
values and weight storing edge weights.
compatible return a lower triangular matrix where an 1 indicates that
two splits are incompatible.
The internal representation is likely to change.
Klaus Schliep klaus.schliep@gmail.com
(sp <- as.splits(rtree(5))) write.nexus.splits(sp) spl <- allCircularSplits(5) plot(as.networx(spl), "2D")
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