Get primer binding position

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"