[Biopython-dev] [Bug 2767] Bio.SeqIO support for FASTQ and QUAL files

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Fri Feb 27 18:29:31 UTC 2009


biopython-bugzilla at maubp.freeserve.co.uk changed:

           What    |Removed                     |Added
Attachment #1244 is|0                           |1
           obsolete|                            |

------- Comment #7 from biopython-bugzilla at maubp.freeserve.co.uk  2009-02-27 13:29 EST -------
Created an attachment (id=1251)
 --> (http://bugzilla.open-bio.org/attachment.cgi?id=1251&action=view)
Read/write support for FASTQ and QUAL files, using the per-letter-annotation

Updated to:

* use the per-letter-annotation dictionary added by the patch on Bug 2507
* read and write the Solexa FASTQ variant (which I plan to call "fastq-solexa"
in Bio.SeqIO)
* automatically convert PHRED/Solexa qualities when writing a file in the other

This needs some more testing with real Solexa FASTQ files, but I expect to be
able to do that next with with some real data from a colleague.

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