Hi Jen,
Thank you for getting back to me and for pointing out the live projects, which
definitely will provide some great resources for me.
Cheers,
Will
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
> filtered.
>
> 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:
> http://main.g2.bx.psu.edu/u/aun1/p/windshield-splatter
> Raw data:
> http://main.g2.bx.psu.edu/library -> see "Windshield splatter"
>
> Hopefully this helps!
>
> Best,
>
> Jen
> Galaxy project
>
> On 2/15/12 5:08 PM, William Hsiao wrote:
>> Hi,
>>
>> 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.
>>
>> Cheers,
>>
>> Will
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> --
> Jennifer Jackson
> http://usegalaxy.org
> http://galaxyproject.org/wiki/Support
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