primer_search: Query a pair of primers using ncbi's Primer-BLAST, if primers...

In primerTree: Visually Assessing the Specificity and Informativeness of Primer Pairs

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.

primerTree documentation built on April 5, 2022, 5:07 p.m.