[EMBOSS] vectorstrip on FASTQ files

[Peter Rice]

Peter C. wrote:
> Hi,
> 
> I'm trying to use vectorstrip on FASTQ files (as a simple way to
> remove adaptor or primer sequences). However, it seems that on output
> the FASTQ qualities are missing (all set to the double quote, ASCII
> 33, meaning PHRED quality 1 or random). Is this a known bug (or
> rather, a missing feature)?

It is a missing feature. vectorstrip was written before quality scores
became fashionable and, curiously, nobody has asked for them before.

We will certainly retain them in a future release.

regards,

Peter