Online Appendix 3 - ML results, Excel file.

Data files and scripts for all biogeography, trait, and diversification rate analyses.

Example extinct dataset used in the linkage data removal component of the study.

All supplementary tables (same as Appendix 1 in paper).

642 species included

These are the the results of our 10,000 pseudoreplicate analyses described in the paper. They can be loaded into the R environment by placing them into the working directory...

The best maximum likelihood tree inferred from "Cyathea_alignment.nexus", using Garli with genthreshfortopoterm set to 1,000,000.

PAUP* files, including input .nex and tree files.

An R script that allows the user to repeat model fitting analyses performed in the manuscript using the pruned and renamed mammal tree.

File containing information on females in the study, including age (minimum age based on ringing data), condition (residuals from regression of weight on structural size; not...

The "expert" tree, derived from digitization of the phylogenies of Canidae published in the monographs of Wang and Tedford, using TreeRogue.

Branta 227638

dryad_ellis_data

All the markers which were newly sequenced for this study.

Alignment generated using a gap cost of 10

Example extant dataset used in the data removal component of the study.

FASTA format alignments for 151 protein-coding using three assembly methods: consensus, ambiguity (iupac), and allele phasing. Alleles for each individual are annotated as _h1...

Struthio fem R1716

3045 species included

Dromaius R1717 manual phalanx