MoreTreeTools: Tools for manipulating phylogenetic trees

Description Usage Arguments Details References

Generate a community matrix based on a phylogeny with phylogenetic signal.

1 2	genCommData(tree, focal, psi = 1, mean.incid, mean.abun = FALSE, nsites = 1)

`tree`	phylogenetic tree (ape class)
`focal`	numeric index, indicating which tip to perform cluster/dispersion
`psi`	scaling coefficient: larger the number the more pronounced the effect by a power law (hence 0 not allowed)
`mean.incid`	the mean incidence of species in the community
`mean.abun`	the mean abundance per site, if given output will be abundances
`nsites`	number of sites

Abundances/incidences for a commuity are generated clustering around a focal point in the phylogeny (clustering psi > 0) or diserpsing around a focal point (overdispersion psi < 0). Return either incidence or abundance data.

No references yet! https://github.com/DomBennett/MoreTreeTools.

DomBennett/MoreTreeTools documentation built on May 6, 2019, 2:51 p.m.