base.freq {ape} | R Documentation |
This function computes the relative frequencies (i.e. proportions) of the four DNA bases (adenine, cytosine, guanine, and thymidine) from a sample of sequences.
base.freq(x, freq = FALSE)
x |
a vector, a matrix, or a list which contains the DNA sequences. |
freq |
a logical specifying whether to return the proportions (the default) or the absolute frequencies (counts). |
The base frequencies are computed over all sequences in the sample. All missing or unknown sites are discarded from the computations.
A numeric vector storing the relative frequencies with names
c("a", "c", "g", "t")
.
Emmanuel Paradis Emmanuel.Paradis@mpl.ird.fr
GC.content
, seg.sites
,
nuc.div
, DNAbin