latag2n.phyDat: Replace leading and trailing alignment gaps with an ambiguous state
Description
Substitutes leading and trailing alignment gaps in aligned sequences into N
(i.e., A, C, G, or T) or ?. The gaps in the middle of the sequences are left
unchanged.
Usage
latag2n.phyDat(x, amb = ifelse(attr(x, "type") == "DNA", "N", "?"),
gap = "-", ...)
Value
returns an object of class phyDat.
Arguments
x
an object of class phyDat.
amb
character of the ambiguous state t replace the gaps.
gap
gap parameter to replace.
...
Further arguments passed to or from other methods.