- MoreArgs = "", quiet = TRUE)
-muscle(x, exec = "muscle", MoreArgs = "", quiet = TRUE)
-tcoffee(x, exec = "t_coffee", MoreArgs = "", quiet = TRUE)
+ MoreArgs = "", quiet = TRUE, original.ordering = TRUE)
+muscle(x, exec = "muscle", MoreArgs = "", quiet = TRUE,
+ original.ordering = TRUE)
+tcoffee(x, exec = "t_coffee", MoreArgs = "", quiet = TRUE,
+ original.ordering = TRUE)