df2vegtable: Convert a data frame into a vegtable object.

In kamapu/vegtable: Handling Vegetation Data Sets

Convert a data frame into a vegtable object.

Description

Conversion of a data frame containing a cross table of abundance or cover of species in single plots.

This function coerces a data frame containing a vegetation cross table into a vegtable object. The input data frame x may include information on the layers or not.

Usage

df2vegtable(x, species, layer, ...)

## S4 method for signature 'data.frame,numeric,numeric'
df2vegtable(x, species, layer, ...)

## S4 method for signature 'data.frame,numeric,missing'
df2vegtable(x, species, layer, ...)

Arguments

x	A data frame formatted for a taxlist object.
species	Numeric or integer indicating the position of the column with species names.
layer	Numeric or integer indicating the position of the column with layers.
...	Further arguments passed from or to other methods.

Value

A vegtable object.

Author(s)

Miguel Alvarez [e-mail]

Examples

## Creating data set 'dune_veg'
library(vegan)

## Load data from vegan
data(dune)
data(dune.env)

## Conversion to vegtable
dune_veg <- data.frame(
  species = colnames(dune), t(dune),
  stringsAsFactors = FALSE, check.names = FALSE
)
dune_veg <- df2vegtable(dune_veg, species = 1)

summary(dune_veg)

## Adding environmental variables
dune.env$ReleveID <- as.integer(rownames(dune.env))
header(dune_veg) <- dune.env

summary(dune_veg)

kamapu/vegtable documentation built on Feb. 17, 2024, 8:25 a.m.