writeFastq: Append a sequence to a fastq file

In HLindsay/CrispRVariants: Tools for counting and visualising mutations in a target location

Description

Used by abifToFastq to write sanger sequences to fastq format As abifToFastq appends output to files, writeFastq checks that sequence names are unique. This function is faster with checking switched off.

Usage

writeFastq(outf, vals, allow_spaces = FALSE, check = TRUE)

Arguments

outf	Name of fastq file to append sequence
vals	A list containing entries named "seq" (sequence) and "quals" (quality scores, in ASCII format)
allow_spaces	Should spaces in the sequence name be substituted with underscores? TRUE or FALSE
check	Check whether reads with the same name already exist in the output fastq. (Default: TRUE)

Value

None. The sequences in "vals" are written to outf

Author(s)

Helen Lindsay

HLindsay/CrispRVariants documentation built on May 28, 2019, 12:40 p.m.