Thank you for getting back to me and for pointing out the live projects, which
definitely will provide some great resources for me.
On Mar 7, 2012, at 5:50 PM, Jennifer Jackson wrote:
> Hi Will,
> An short description of what the Metagenomics tools do is on each of the tool
> forms. One bit that many be confusing is that what is often called the "Fetch
> Taxonomic Ranks" tool on these forms has been renamed to be the "Fetch
> taxonomic representation" tool.
> In short, the "Find diagnostic hits" tool will pull out sequences that have
> hits with an assignment to the user specified taxonomic rank(s) set on the
> tool form. At this stage in the analysis, hits would have already been
> Rather than explaining these methods in an email, it would likely be more
> helpful if you were to review the associated paper and supplemental data.
> This includes a tutorial that demonstrates step-by-step the exact methods
> used for the published metagenomics analysis project using these exact tools.
> All of this is available in Galaxy as a live project that can be imported and
> experimented with.
> Supplemental home page:
> Raw data:
> http://main.g2.bx.psu.edu/library -> see "Windshield splatter"
> Hopefully this helps!
> Galaxy project
> On 2/15/12 5:08 PM, William Hsiao wrote:
>> Is there a more detailed explanation on what "Find Diagnostic hits" module
>> in Metagenomic analysis does? Does it take all the hits above user
>> specified cutoffs to one query and return the taxon name if and only if all
>> the hits have the same taxon (my understanding)? Or, does it look at the top
>> few hits or??? Thanks for providing some clarification on the method.
>> The Galaxy User list should be used for the discussion of
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> Jennifer Jackson
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: