4 Find Segregating Sites in DNA Sequences
10 \item{x}{a matrix or a list which contains the DNA sequences.}
13 This function gives the indices of segregating (polymorphic) sites in
14 a sample of DNA sequences.
17 If the sequences are in a list, all the sequences must be of the same
21 A numeric vector giving the indices of the segregating sites.
23 \author{Emmanuel Paradis \email{Emmanuel.Paradis@mpl.ird.fr}}
25 The present version looks for the sites which are ``variable'' in the
26 data in terms of different \emph{letters}. This may give unexpected
27 results if there are ambiguous bases in the data.
30 \code{\link{base.freq}}, \code{\link{GC.content}},
31 \code{\link{theta.s}}, \code{\link{nuc.div}}
35 y <- seg.sites(woodmouse)