[Bioperl-l] Error converting FASTQ(ASCII-64 ) to Sanger(ASCII-33) using Bio:SeqIO

Peter biopython at maubp.freeserve.co.uk
Sat Jul 10 07:44:48 EDT 2010


On Sat, Jul 10, 2010 at 12:43 PM, Peter <biopython at maubp.freeserve.co.uk> wrote:
> On Fri, Jul 9, 2010 at 4:02 PM, Abhishek Pratap <abhishek.vit at gmail.com> wrote:
>> Hi (Chris)
>>
>> I feel I might be hitting a bug or missing something. I am trying to convert
>> a raw FASTQ from ASCII-64 to ASCII-33.  I am copying the actual code and IO
>> for more clarity. I think the quality line is missing and the read is
>> breaking into two lines.
>>
>> Any obvious mistakes ?
>>
>> Thanks!
>> -Abhi
>
> It looks like you are getting FASTQ out rather than FASTQ (notice in addition to
> missing the qualities, the record starts with ">" rather than "@".

Typo: FASTA out rather than FASTQ. The A and Q keys are too close together ;)

Peter



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