Fictional data for testing purposes from Phylocom (Webb et al. 2008)
Format
A list with three elements:
- phylo
Phylogeny with 32 tips
- sample
Community matrix with 6 sites (rows) and 25 species (columns).
- traits
Trait data; a data.frame with 32 species (rows) and 4 traits (columns)
References
Webb, C.O., Ackerly, D.D., and Kembel, S.W. 2008. Phylocom: software for the analysis of phylogenetic community structure and trait evolution. Version 4.0.1. http://www.phylodiversity.net/phylocom/.
Kembel, et al. Picante: R tools for integrating phylogenies and ecology, Bioinformatics 26: 1463–1464 doi:10.1093/bioinformatics/btq166
Examples
# Example phylogeny
phylocom$phy
#>
#> Phylogenetic tree with 32 tips and 31 internal nodes.
#>
#> Tip labels:
#> sp1, sp2, sp3, sp4, sp5, sp6, ...
#> Node labels:
#> A, B, C, D, E, F, ...
#>
#> Rooted; includes branch lengths.
# Example community
phylocom$comm
#> sp1 sp10 sp11 sp12 sp13 sp14 sp15 sp17 sp18 sp19 sp2 sp20 sp21 sp22
#> clump1 1 0 0 0 0 0 0 0 0 0 1 0 0 0
#> clump2a 1 2 2 2 0 0 0 0 0 0 1 0 0 0
#> clump2b 1 0 0 0 0 0 0 2 2 2 1 2 0 0
#> clump4 1 1 0 0 0 0 0 2 2 0 1 0 0 0
#> even 1 0 0 0 1 0 0 1 0 0 0 0 1 0
#> random 0 0 0 1 0 4 2 3 0 0 1 0 0 1
#> sp24 sp25 sp26 sp29 sp3 sp4 sp5 sp6 sp7 sp8 sp9
#> clump1 0 0 0 0 1 1 1 1 1 1 0
#> clump2a 0 0 0 0 1 1 0 0 0 0 2
#> clump2b 0 0 0 0 1 1 0 0 0 0 0
#> clump4 0 2 2 0 0 0 0 0 0 0 1
#> even 0 1 0 1 0 0 1 0 0 0 1
#> random 2 0 0 0 0 0 2 0 0 0 0