base.freq {ape}R Documentation

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, a data frame, or a list which contains the DNA sequences.

Details

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

Value

A table of relative frequencies with the names "a", "c", "g", and "t".

Author(s)

Emmanuel Paradis paradis@isem.univ-montp2.fr

See Also

GC.content, seg.sites, nuc.div


[Package ape version 1.7 Index]