Aggregate data by given taxonomic rank
Aggregate data by given taxonomic rank
rankagg(data = NULL, datacol = NULL, rank = NULL, fxn = "sum")
data |
A data.frame. Column headers must have capitalized ranks (e.g., Genus, Tribe, etc.) (data.frame) |
datacol |
The data column (character) |
rank |
Taxonomic rank to aggregate by (character) |
fxn |
Arithmetic function or vector or functions (character) |
if (require(vegan)) {
data(dune.taxon, dune, package='vegan')
dat <- dune.taxon
dat$abundance <- colSums(dune)
rankagg(data=dat, datacol="abundance", rank="Genus")
rankagg(data=dat, "abundance", rank="Family")
rankagg(data=dat, "abundance", rank="Genus", fxn="mean")
rankagg(data=dat, "abundance", rank="Subclass")
rankagg(data=dat, "abundance", rank="Subclass", fxn="sd")
}Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.