Joanne:
1. There is no mechanism for downloading reference sequences from Galaxy at this time. 2. I am not sure what you mean by 'Tablet'. 3. Megablast tool ('NGS: Mapping -> Megablast') will allow you to perform comparisons against nt, wgs, and htgs databases.
Thanks for using Galaxy,
anton galaxy team
Anton Nekrutenko http://nekrut.bx.psu.edu http://usegalaxy.org
On Jun 22, 2011, at 4:15 PM, Joanne Rampersad wrote:
Hi I have a few questions
- I am trying to use Bowtie to map my data using a reference genome.
the genome is available on Galaxy (Escherichia coli DH10B (20079)). Is there a way that I can download the file in fasta format to use as a reference in Tablet?
I can import the SAM output into Tablet if I do not give it a reference, but I would like to see it with the reference
- I have used the Sam to Bam converter and downloaded the file to my
computer then tried to import it into Tablet, but it gives an error. Does anyone have any advice on doing this?
- Does Galaxy have any tools for doing a blast search against a
reference genome or database?
Any help/instructions that you point me to is greatly appreciated.
Jo ___________________________________________________________ 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:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists, please use the interface at: