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
ltg2amb(x, amb = ifelse(attr(x, "type") == "DNA", "N", "?"), gap = "-")
Arguments
- x
an object of class phyDat
.
- amb
character of the ambiguous state t replace the gaps.
- gap
gap parameter to replace.
Value
returns an object of class phyDat
.