Hi Nikhil,

Have a look at https://toolshed.g2.bx.psu.edu/view/devteam/data_manager_fetch_genome_dbkeys_all_fasta to add a new genome/fasta. Once you have the genome entry, then you can use additional Data Manager to make tool specific (bwa, samtools, etc) indexes.


Thanks for using Galaxy,

Dan


On Apr 2, 2015, at 5:41 AM, Nikhil Joshi <najoshi@ucdavis.edu> wrote:

Of course this would be for a local install of galaxy.

On Thu, Apr 2, 2015 at 2:29 AM, Nikhil Joshi <najoshi@ucdavis.edu> wrote:
Hi all,

Is it possible to use a DataManager (or anything) to allow a user (or admin) to upload their genome of choice and have it be indexed and be used as a built-in/cached genome *without* having to go on the command-line? I.e., only using the Galaxy interface?

- Nik.

--
Nikhil Joshi
Bioinformatics Analyst/Programmer
UC Davis Bioinformatics Core
http://bioinformatics.ucdavis.edu/
najoshi -at- ucdavis -dot- edu
530.752.2698 (w)



--
Nikhil Joshi
Bioinformatics Analyst/Programmer
UC Davis Bioinformatics Core
http://bioinformatics.ucdavis.edu/
najoshi -at- ucdavis -dot- edu
530.752.2698 (w)
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