Hello Soetkin,
Is your concern that the sequences will be in FASTA format (without
quality scores) instead of FASTQ format? If so, the Galaxy tool "NGS: QC
and manipulation -> Combine FASTA and QUAL into FASTQ" can create
placeholder quality values in a FASTQ file appropriate for use with NGS
mapping tools.
Hopefully this helps. If you would like further help, please explain the
issue in more detail and consider sending a small sample of the data
pasted into the email (10 or so entries) if that is relevant.
For reference:
http://wiki.g2.bx.psu.edu/Support#Public_mailing_list_Q_.26_A_discussions
Thanks for using Galaxy!
Jen
Galaxy team
On 11/15/11 1:56 AM, Soetkin Versteyhe wrote:
Dear all,
I would like to map (e.g. with Bowtie) collapsed sequences (tags)
instead of individual sequence reads. Does anyone know if this is
possible in Galaxy?
Thank you in advance.
Best regards,
*Soetkin Versteyhe, PhD**
*PostDoc**
*
University of Copenhagen
*Faculty of Health Sciences
*The Novo Nordisk Foundation*
*Center for Basic Metabolic Research*
Integrative Physiology
Blegdamsvej 3B *
*2200 København N
Denmark*
**
*PHONE +45 35337116*
*_soetkin.verste...@sund.ku.dk__
_http://sund.ku.dk
http://metabol.ku.dk <http://metabol.ku.dk/>*
**
*
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___________________________________________________________
The Galaxy User list should be used for the discussion of
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at usegalaxy.org. Please keep all replies on the list by
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