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.
Soetkin Versteyhe, PhD
University of Copenhagen
Faculty of Health Sciences
The Novo Nordisk Foundation
Center for Basic Metabolic Research
2200 Křbenhavn N
PHONE +45 35337116
Is your concern that the sequences will be in FASTA format (without
quality scores) instead of FASTQ format? If so, the Galaxy tool "NGS:
and manipulation -> Combine FASTA and QUAL into FASTQ" can create
placeholder quality values in a FASTQ file appropriate for use with
Hopefully this helps. If you would like further help, please explain
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.
Thanks for using Galaxy!