Moore Notes 4 15 09

Group Call

• Simulation stuff
  • Need the "drop box" at UCD - temporary solution: Use UO machine
  • Jess & Steve paper idea: effects of different components of the pipeline on measures
    • make communities and simulate metagenomic reads
    • what to assess: trees? more: pd? otus? AMPHORA? other methods?
    • how to keep it from spiraling out of control?
    • for PLoS Comp Bio review?
  • Make a piece of software to do simulations/comparisons (for the community to test their data)

• Bob Edgar's tools
  • Give him some simulated data sets
  • Try it a few times and see

• Openwetware notes
  • Sam's stuff is in 3 places: consolidate. what is the scope?
  • Use individual's home pages/lab notebooks that possibly link to other pages
    • Steve will put a link to the members page on our members only home page
    • These member pages will be our home pages with what we are doing and/or linking to project pages that give this information

• SARs
  • Bill Kunin collaboration
  • question: new function for SAR vs. linear vs. logistic?
    • has logistic been used in the literature? Helene says no.
    • James is working on mechanistic approach: maybe logit for distance decay?
  • testing
    • use Terry Erwin's estimates (large scale from small scale)

• Donying's plans for extending the collection of gene families
  • JG: Actinobacteria
  • Everyone will send their clade requests to Dongying and JE

• Need AMPHORA run on GOS
  • Steve will request from Srijak