write_fastq: Output the denoised sequence to a fastq format with...

In debar: A Post-Clustering Denoiser for COI-5P Barcode Data

Output the denoised sequence to a fastq format with placeholder phred scores.

Description

Output the denoised sequence to a fastq format with placeholder phred scores.

Usage

write_fastq(x, ...)

## S3 method for class 'DNAseq'
write_fastq(x, ..., outfile = "denoised.fastq",
  append = TRUE, keep_phred = TRUE, phred_placeholder = "#")

Arguments

x	a DNAseq class object.
...	additional arguments to be passed between methods.
outfile	The name of the file to output the data to. Default is "denoised.fasta".
append	Should the ccs consensus sequence be appended to the output file?(TRUE) Or overwrite the file?(FALSE) Default is TRUE.
keep_phred	Should the original PHRED scores be kept in the output? Default is TRUE.
phred_placeholder	The character to input for the phred score line. Default is '#'.

Value

a class object of code "DNAseq"

See Also

DNAseq

frame

adjust

debar documentation built on May 29, 2024, 2:02 a.m.