ape (version 2.1-3)

base.freq: Base frequencies from DNA Sequences

Description

This function computes the relative frequencies (i.e. percentages) of the four DNA bases (adenine, cytosine, guanine, and thymidine) from a sample of sequences.

Usage

base.freq(x)

Arguments

x
a vector, a matrix, or a list which contains the DNA sequences.

Value

  • A numeric vector stoting the relative frequencies with names c("a", "c", "g", "t").

Details

The base frequencies are computed over all sequences in the sample. All missing or unknown sites are discarded from the computations.

See Also

GC.content, seg.sites, nuc.div, DNAbin