[Biopython-dev] [Bug 2848] SeqIO fastq routines reject valid quality socres

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2848





------- Comment #2 from biopython-bugzilla at maubp.freeserve.co.uk  2009-06-04 05:27 EST -------
Rereading that MAQ page, you are probably right about allowing 0-93 rather than
0-90 for PHRED scores.

Could you pull out a few valid FASTQ read showing this problem as a short
example file we can use for a unit test? (and attach it to this bug).

Also could you and explicitly confirm what type of FASTQ file you think you
have. i.e. Sanger style using PHRED scores and an offset of 33, rather than
Solexa/Illumina style using a different scaling and an offset of 64, or
something else.

Thanks

Peter


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