calcPresSpec {PhyloProfile} | R Documentation

## Calculate percentage of present species in each super taxon

### Description

Calculate percentage of present species in each super taxon

### Usage

    calcPresSpec(profileWithTax, taxaCount)

### Arguments

`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)

### Value

A data frame with

### Author(s)

Vinh Tran tran@bio.uni-frankfurt.de

### See Also

`profileWithTaxonomy` for a demo input data

### Examples

    # 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)

[Package PhyloProfile version 1.2.8 Index]