seg.sites {ape} | R Documentation |
This function gives the indices of segregating (polymorphic) sites in a sample of DNA sequences.
seg.sites(x)
x |
a matrix or a list which contains the DNA sequences. |
If the sequences are in a list, all the sequences must be of the same length.
A numeric vector giving the indices of the segregating sites.
The present version looks for the sites which are ``variable'' in the data in terms of different letters. This may give unexpected results if there are ambiguous bases in the data.
Emmanuel Paradis Emmanuel.Paradis@mpl.ird.fr
base.freq
, GC.content
,
theta.s
, nuc.div
data(woodmouse) y <- seg.sites(woodmouse) y length(y)