Hi Kristen,
Are these longer RNA sequences, such as transcripts? Then a tool like
BLAT (or BLAST) would be a good choice. Both are wrapped for Galaxy and
available in the Tool Shed for use with a local, cloud, or slipstream
Galaxy. A cloud is probably the simplest choice for many users - and if
the work is for research purposes, be sure to check out Amazon's grant
program.
http://usegalaxy.org/cloud
http://usegalaxy.org/toolshed
The public Main server at http://usegalaxy.org has mappers, but these
are tuned for NGS reads.
Other public Galaxy servers can offer mapping services, too. There are
50+ to review and what each offers changes over time. If you want to
look, here is the list:
https://wiki.galaxyproject.org/PublicGalaxyServers
Keeping questions on the mailing lists helps us with tracking and is
appreciated!
https://wiki.galaxyproject.org/MailingLists
Thanks,
Jen
Galaxy team
https://wiki.galaxyproject.org/Support
https://wiki.galaxyproject.org/BigPicture/Choices
On 3/5/14 8:43 AM, Kristin Kernohan wrote:
Hi Jennifer
I am wondering if there is a way on Galaxy to align to the genome a
file with many (~32000) fasta formatted sequences?
Thanks very much
Kristin
--
Jennifer Hillman-Jackson
http://galaxyproject.org
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