get_binding_position: Get primer binding position

In alexpiper/taxreturn: An R package for retrieving and curating public DNA barcode reference data

Get primer binding position

Description

Get primer binding position

Usage

get_binding_position(
  primer,
  model,
  tryrc = TRUE,
  quiet = FALSE,
  min_score = 10,
  ...
)

Arguments

primer	A character string, DNAbin object or an object coercible to DNAbin
model	A profile hidden Markov model (a "PHMM" object) generated by the aphid R package to align the sequences to.
tryrc	Whether the reverse complement should also be aligned. The highest scoring complement is chosen.
quiet	Whether progress should be printed to the console.
min_score	Minimum score for the viterbi alignment.
...	aditional arguments to be passed to "Viterbi"

alexpiper/taxreturn documentation built on Sept. 14, 2024, 7:56 p.m.