doamp_custom: Automatically extract potential amplicons from target...

In ong8181/rDoAMP: Extracting amplicons from target sequences using a user-specified primer set

Automatically extract potential amplicons from target sequences

Description

doamp_custom Automatically extract potential amplicons from target sequences

Usage

doamp_custom(
  target_fasta,
  F_primer,
  R_primer,
  n_mismatch = 0,
  output_dir = "rDoAMP_Out",
  save_parameter = TRUE,
  save_stat = TRUE,
  overwrite_output_dir = FALSE
)

Arguments

target_fasta	Character. Path to a FASTA file that contains target sequences
F_primer	Character. Forward primer sequence. Degenerate base allowed.
R_primer	Character. Reverse primer sequence. Degenerate base allowed.
n_mismatch	Numeric. The maximum number of primer-template mismatches allowed
output_dir	Character. Output directory name
save_parameter	Logical. If TRUE, parameters used in the analysis saved
save_stat	Logical. If TRUE, summary of the analysis saved
overwrite_output_dir	Logical. If TRUE, overwrite the contents of output directory.

ong8181/rDoAMP documentation built on Aug. 27, 2023, 10:15 a.m.