[Open-bio-l] Sanger FASTQ format and the Solexa/Illumina variants

Leighton Pritchard lpritc at scri.ac.uk
Fri Dec 18 13:54:53 EST 2009

I second Hilmar - congratulations to all the authors!  I think it's a very
important contribution that summarises the history and current usage of
FASTQ, and provides constructive suggestions for how to go forward with what
will be a central file format for many areas of biology.


On 18/12/2009 16:25, "Hilmar Lapp" <hlapp at drycafe.net> wrote:

> Congratulations! I'm delighted and truly pleased to see this come out
> of our community of member projects. Kudos to the team for taking this
> work all the way through to writing it up formally for publication &
> archival for everyone's benefit.
> -hilmar
> On Dec 18, 2009, at 10:30 AM, Peter Cock wrote:
>> Hi all,
>> I¹m delighted to announce an open access publication in Nucleic Acids
>> Research describing the FASTQ file format based on the conventions
>> agreed by the OBF projects (largely on this mailing list):
>>  The Sanger FASTQ file format for sequences with quality scores,
>>  and the Solexa/Illumina FASTQ variants.
>>  Peter J. A. Cock (Biopython), Christopher J. Fields (BioPerl),
>>  Naohisa Goto (BioRuby), Michael L. Heuer (BioJava)
>>  and Peter M. Rice (EMBOSS).
>>  Nucleic Acids Research, doi:10.1093/nar/gkp1137
>> This open access publication will hopefully serve as a reference
>> describing the original standard Sanger FASTQ, and the two variants
>> from Solexa/Illumina, and how to inter-convert between them.
>> Peter
>> P.S. This was also posted on the OBF news server:
>> http://news.open-bio.org/news/2009/12/nar-fastq-format/
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Dr Leighton Pritchard MRSC
D131, Plant Pathology Programme, SCRI
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