run_primersearch
From metacoder v0.3.3
by Zachary Foster
Execute EMBOSS Primersearch
Execute EMBOSS Primersearch
- Keywords
- internal
Usage
run_primersearch(seq_path, primer_path, mismatch = 5,
output_path = tempfile(), program_path = "primersearch", ...)Arguments
- seq_path
A character vector of length 1. The path to the fasta file containing reference sequences to search for primer matches in.
- primer_path
A character vector of length 1. The path to the file containing primer pairs to match. The file should be whitespace-delimited with 3 columns: primer name, first primer sequence, and second primer sequence.
- mismatch
An integer vector of length 1. The percentage of mismatches allowed.
- output_path
A character vector of length 1. Where the output of primersearch is saved.
- program_path
A character vector of length 1. The location of the primersearch binary. Ideally, it should be in your system's search path.
- ...
Additional arguments are passed to
primersearch.
Value
The command generated as a character vector of length 1.
See Also
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