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Get the target sequence for canonical seed definitions

dot-get_canonical_seed.Rd

Get the target sequence for canonical seed definitions

Usage

.get_canonical_seed(
  guide.seq,
  seed.name = c("mer7m8", "Full", "18mer", "15mer", "mer8", "mer6", "mer7A1"),
  allow_wobbles = FALSE
)

Arguments

guide.seq

The input RNA string as a character vector. Must be at least 8 characters long.

seed.name

The name of the canonical seed definition to return. Options: "mer7m8", "mer8", "mer6", "mer7A1", "Full", "18-mer", "15-mer"

allow_wobbles

If true, all positions for a G:U wobble are considered.

Value

A DNAString of the canonical seed sequence that is the search term.

Examples

guide.seq = "UUAUAGAGCAAGAACACUGUUUU"

canonical.seed.seq = SeedMatchR:::.get_canonical_seed(guide.seq,
seed.name = "mer7m8")