cubar (version 1.1.0)

slide_apply: apply a cub index to a sliding window

Description

slide_apply applies a function to a sliding window of codons.

Usage

slide_apply(seq, .f, step = 1, before = 0, after = 0, ...)

Value

data.table with start, center, end, and codon usage index columns

Arguments

seq

DNAString, the sequence

.f

function, the codon index calculation function to apply, for example, get_enc.

step

integer, the step size in number of codons

before

integer, the number of codons before the center of a window

after

integer, the number of codons after the center of a window

...

additional arguments to pass to the function .f

Examples

slide_apply(yeast_cds[[1]], get_enc, step = 1, before = 10, after = 10)