[EMBOSS] vectorstrip on FASTQ files

Peter Rice pmr at ebi.ac.uk
Wed Aug 19 11:24:41 UTC 2009

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.



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