primer_search {primerTree}

Query a pair of primers using ncbi's Primer-BLAST, if primers contain iupac

Description

ambiguity codes, enumerate all possible combinations and combine the results.

Usage

primer_search(
  forward,
  reverse,
  num_aligns = 500,
  num_permutations = 25,
  ...,
  .parallel = FALSE,
  .progress = "none"
)

Arguments

forward

forward primer to search by 5'-3' on plus strand

reverse

reverse primer to search by 5'-3' on minus strand

num_aligns

number of alignment results to keep

num_permutations

the number of primer permutations to search, if the degenerate bases cause more than this number of permutations to exist, this number will be sampled from all possible permutations.

...

additional arguments passed to Primer-Blast

.parallel

if 'TRUE', perform in parallel, using parallel backend provided by foreach

.progress

name of the progress bar to use, see 'create_progress_bar'

Value

httr response object of the query, pass to parse_primer_hits to parse the results.