Hi, I am not sure which report you are referring to, can you tell us the steps you use to get the NCBI-nr functional report? Thanks, Mark On Jun 23, 2011, at 5:37 PM, anthony bertagnolli wrote:

Hi Mark, thanks for the reply. I think i figured out what the problem was. However, I have a second question. I noticed that there is now an option to view the NCBI-nr functional report for selected taxa. This is very useful, and i've used it quite a bit. However, I was wondering if there would be a way to download this information for whole samples, rather than just select reference taxa from samples. This would be very useful to have as well, as dowloadiing the report for ever taxa in a given sample would be too time consuming. Thanks again for all the updates to the site, its really quite a nice tool.

-Anthony Bertagnolli

On Jun 15, 2011, at 4:35 PM, Mark D'Souza wrote:

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Hi,

Can you tell us the mg-rast IDs for the datasets you are viewing, we will check what is the problem.

Regards, Mark D'Souza -- for the MG-RAST team

[email protected] http://metagenomics.anl.gov/

If you need to respond to this email please address it to the mailing-list [email protected]

On Jun 14, 2011, at 7:40 PM, anthony bertagnolli wrote:

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Greetings, I've been using MG-RAST to analyze metagenome samples collected from marine environments, and I really like the latest version. However, I've found that when using the Data selection component to change the e-value cutt-off, % ID cuttoff, and min. alignment length, no changes are made to the corresponding data tables below. You would think that when moving from an e-value cutoff 1x10-5, from 0, or 1x10-5 to 1x10-10, you see a difference in the abundance of genes being classified (more stringent the cutt-off, the less reads assigned to a reference organism). However, this does not seem to the case. In fact, it appears as if nothing is occuring at all. Just wondering if maybe this might be a bug, and if it could be fixed. Thanks,

-Anthony bertagnolli