Moore Notes 12 12 12

Group Call

• Participants: Katie, Jonathan, Stephen, Josh, Guillaume

• Progress report due 1/15 (2 page update)
  • Assigning sections
  • Summaries due to Katie by 1/10

• Josh update on beta diversity
  • Running now on cluster (same 16S data as submitted alpha diversity paper)
  • Preliminary maps by next Wednesday

• Guillaume update on duplicate assignments of sequences in SFams
  • Doesn't seem like a sequence can be assigned to two families in current code
  • But ~120 duplicate sequences did get different assignments
  • Fix: keep older assignment, adjust newer families accordingly (new HMMs, trees, alignments)
  • Solution: going forward duplicates will be dropped before clustering and classification into existing families

• Jonathan wants to go beyond constructing families
  • Initiated project several years ago to have diverse, automatically updated families
  • Can some one else take on this responsibility?
    • Looking around for groups that are doing regular updates
    • People are doing this for genomes
    • Use their family definitions, add our HMMs, trees
    • What about metagenomes?
    • In original CAMERA proposal
  • Good to tie our work to familiar and commonly used families
  • Stephen: advantage of SFams is that we could integrate family-specific membership thresholds for metagenomics data

• Coordinating efforts with PhyloSIFT efforts (Aaron, E Matsen NSF grant)

• Plan some in person meetings in 2013