Agenda: - Make list of items, owners, and dates for stuff that needs to be done for the microbes demo - Quick discussion of PNNL proteomics data and owners for use cases - Dealing with uneven sampling of genomes On 9/10/2012 10:20 AM, Ben Bowen wrote:

Agenda Item: For the microbes-demo, list specific items we need to cross off and when they need to be done by. -------------- Email: [email protected] <mailto:[email protected]> Phone: (510) 214-6683 MS 977-221, Lawrence Berkeley Lab Web: ms.lbl.gov <http://ms.lbl.gov>

On Mon, Sep 10, 2012 at 10:07 AM, Michael Sneddon <[email protected] <mailto:[email protected]>> wrote:

One issue that came up last week is how we are going to deal with an uneven sampling of sequences in KBase in which certain sub-families will likely be vastly over/under represented. This came up in the context of visualizing/analyzing trees (where we would like to have some smart way to collapse internal nodes so that half the tree displayed to a user isn't just variants of e.coli). Talking briefly to Paramvir though, this seems to be a more general problem which will affect many aspects of data interpretation and visualization in kbase.

This discussion will probably also be related to figuring out how to set up the "kbase" pipeline for processing new sequences and adding the new annotations, trees, etc to the CDS. I'm not sure how high on the priority list this is now, but if there is time it might be worth discussing.

-michael

On Mon, Sep 10, 2012 at 9:25 AM, Gavin Price <[email protected] <mailto:[email protected]>> wrote:

Ready talk call in #: 1-866-740-1260 <tel:1-866-740-1260> code 4958182

If Paramvir isn't calling in, I have the operator code and will start the conf.

Please send any agenda items we need to discuss to me and I'll roll them up in an email slightly prior to the meeting.

-g

On 9/10/2012 9:19 AM, Paramvir Dehal wrote:

We should still have one. Gavin, can you collect agenda items and send out the reminder email?

Pavel, John-Marc and Bill are also at this conference.

On Mon, Sep 10, 2012 at 7:46 AM, Gavin Price<[email protected] <mailto:[email protected]>> wrote:

Not sure if we're having one since paramvir is at a conference.

-g

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