get_primer_position: Get primer position on sequence set

In vaulot/dvutils: A set of utilities

Description

Returns start end end of the primer. If there are more than one matches, return the first match and the number of matches

Usage

get_primer_position(
  primer_seq,
  target_seq,
  orientation = "fwd",
  mismatches = 0
)

Arguments

primer_seq	primer sequence
target_seq	target sequences (vector)
orientation	"fwd" or "rev"
mismatches	Number of mismatches allowed

Value

data frame with four columns:

• $id - row of sequences

• $start - start of match (NA if no match)

• $end - end of match (NA if no match)

• $n_matches - number of matches (NA if no match)

Examples

get_primer_position("ATT",c("ATTTTCGGG", "AGTTTCGGG"), orientation="fwd", mismatches=0)

vaulot/dvutils documentation built on Nov. 20, 2021, 11:01 a.m.