Excellent CPB visiting weekend with perspective students Thurs evening - Sunday morning. Hosting students, etc doesn’t make for much of a research entry Friday. Catching up with many things today.
ESA registration. Topics, Abstract
Checking in with Alan
Data workshop: create & post advertisement, map out subject areas
Updated pubmed author alerts
Checking in with Peter & Graham on revisions
Bodega Phylogenetics Workshop planning– check in with Rich and Justen
Mentioned in Liam’s Comparative Phylogenetics Methods blog, to address reading in simmap trees. Liam’s keeping an impressively thorough but readable development log on his blog, worth following the progress on this particular challenge of reading in the full stochastic character mapping information from Newick format trees.
Contact Jeff for GTC, check AV equipment
CSGF reimbursements: ESA registration, Evolution, ievobio, SICB registration, hotels, flights. Bodega
DEEP lab meeting
Nick lured most of the Hastings lab to DEEP group meeting discussing Mumby, Hastings & Edwards 2007, but instead presented on some of the questions he is investigating in quantifying the phylogenetic diversity of zooxanthellae coral symbionts. First called our attention to a somewhat strange statistic of ‘flexibility’ summing weighted differences in substitutions across a fast and slow gene. Discussed more natural methods predicated on an ultrametric tree – Peter proposed a common metric of distance which Erik Matsen has a fast algorithm for calculating. Gives distances between tree distributions but not a baseline (is basically amount of work required to transform one distribution into the other through movements along the tree. Discussed whether there was a meaningful null baseline (such as equal splits of probability coming up from the root. Sebastian also proposed cumulative branch length as a possible metric, discussion was still in high swing when I had to leave for 5pm meeting.