slide_apply: apply a cub index to a sliding window

In cubar: Codon Usage Bias Analysis

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, ...)

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

Value

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

Examples

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

cubar documentation built on April 3, 2025, 8:58 p.m.