User:Carl Boettiger/Notebook/Comparative Phylogenetics/2010/03/18

From OpenWetWare
Jump to navigationJump to search
Owwnotebook icon.png Comparative Phylogenetics Report.pngMain project page
Resultset previous.pngPrevious entry      Next entryResultset next.png


  • A some point I'll want to think more seriously about incorporating geographic information into comparative analyses. At some level this data is more available than appropriate continuous traits, as illustrated in the example phylogenetics wiki from Prof. Roderic Page that I just came across.

Today's Goals

  • Repeating last night's bootstraps on the likelihood ratio. Need to clean up and incorporate my bootstrap codes first.
  • Should also explore the bootstrapping of the partitioning functions from yesterday.
  • Begin implementing stochastic partitioning and stochastic ancestral state painting/inference.

Bootstrapping Likelihood ratios

Preliminary bootstrap of the likelihood ratios of the Anoles data (click for larger). Red lines indicate where the true data falls.

LR boots.png

Compare to the earlier bootstraps of likelihoods directly:

Anoles boot.png