calcPresSpec: Calculate percentage of present species in each super taxon
In PhyloProfile: PhyloProfile

Description Usage Arguments Value Author(s) See Also Examples

Calculate percentage of present species in each super taxon

1	calcPresSpec(profileWithTax, taxaCount)

`profileWithTax`	data frame of main PhyloProfile input together with their taxonomy info (see ?profileWithTaxonomy)
`taxaCount`	number of species occur in each supertaxon (e.g. phylum or kingdom)

A data frame with

Vinh Tran tran@bio.uni-frankfurt.de

profileWithTaxonomy for a demo input data

# NOTE: for internal testing only - not recommended for outside using
data("profileWithTaxonomy", package="PhyloProfile")
taxaCount <- plyr::count(profileWithTaxonomy, "supertaxon")
taxaCount$freq <- 1
calcPresSpec(profileWithTaxonomy, taxaCount)