Hi everybody,
I am trying to perform metatranscriptomic analysis on gut samples. Whereas the 
host transcriptome was easy, the lack
of a reference genome for my mixed bacterial population is a problem.
Any suggestions how to do the alignment? Has anybody done metatranscriptomics 
on Galaxy before?
A recent paper from Leimena et al. (2013, BMC Genomics) claims they have done 
the alignment against the complete
NCBI prokaryotic genome database. This sounds like a good solution to me, but I 
struggle to get this running.
I am normally on the wet side of the work and my experience with programming 
and R is limited.

The aim is to compare the functional capacity of the bacterial communities in 
different closely related host species.

Thanks for help,

Sören Franzenburg
5130 Comstock Hall
Cornell University
14853 Ithaca, NY

The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:


To manage your subscriptions to this and other Galaxy lists,
please use the interface at:


To search Galaxy mailing lists use the unified search at:


Reply via email to