allSplits | R Documentation |
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(obj1, obj2 = NULL)
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. |
obj1, obj2 |
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
prop.part
, lento
,
as.networx
, distanceHadamard
,
read.nexus.splits
(sp <- as.splits(rtree(5))) write.nexus.splits(sp) spl <- allCircularSplits(5) plot(as.networx(spl))
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