saunders: Dataset due to Saunders

In untb: Ecological Drift under the UNTB

Dataset due to Saunders

Description

A dataframe showing species inventories for a kelp holdfast (saunders) including a Boolean flag indicating whether the holdfast was in a sheltered or exposed location.

Also two data frames, one for the 20 exposed holdfasts (saunders.exposed) and one for the 20 sheltered holdfasts (saunders.sheltered).

Also three count objects, giving counts for all organisms (saunders.tot), all those from exposed locations (saunders.exposed.tot), and all those from sheltered locations only (saunders.sheltered.tot).

Usage

data(saunders)

Format

Dataset saunders is a dataframe with 40 observations on 177 variables. Each row corresponds to a holdfast. The first column is Boolean, indicating whether or not that holdfast was exposed (TRUE) or sheltered (FALSE). The other columns show species abundances for each of 176 species.

Summary datasets saunders.sheltered.tot, saunders.exposed.tot, and saunders.tot are objects of class count that are the species abundance for sheltered holdfasts, exposed holdfasts, and the entire dataset.

The user will probably be most interested in saunders.sheltered and saunders.exposed, which are the transpose of the appropriate rows of saunders. Thus these dataframes have 176 rows, one per species and 20 rows, one per holdfast.

Details

Kelp are large seaweeds classified in kingdom Chromista. Kelp grows in shallow oceans in kelp forests.

The holdfast is a root-like structure that anchors the kelp to the ocean floor. Fauna inhabiting kelp holdfasts, being “incredibly diverse” (Anderson et al 2005), are often used as indicators of environmental change.

The data was collected in New Zealand, from eight sites along the Leigh coastline from north of Leigh Harbour down to the southern end of Kawau Island (a stretch of roughly 20 km). Four sites were wave-exposed, four were sheltered (although two of the latter were arguably quite tidally-dominated). Each site had a spatial extent of roughly one hectare. They were collected from 5 - 10 November, 2003.

The saunders dataset must be arranged as it is because if it were transposed, the first row would be the (nonsensical) observation c(T,T,...,T,F,...,F).

Note

It is not entirely obvious how to derive the summary datasets from the saunders dataframe. Use function extractor() for this.

Source

Data supplied by Justine Saunders

References

• J. Saunders 2007. “Biodiversity of kelp holdfasts” (provisional title). PhD thesis (in preparation); School of Geography and Environmental Sciences, The University of Auckland

• M. J. Anderson and others 2005. “Consistency and variation in kelp holdfast assemblages: Spatial patterns of biodiversity for the major phyla at different taxonomic resolutions”. Journal of Experimental Marine Biology and Ecology. Volume 320, pages 35-56

See Also

extractor

Examples

data("saunders")

jj <- t(saunders)[-1,]
jj.exposed <- saunders[,1]
"saunders.tot" <- count(apply(jj,1,sum))
"saunders.exposed"   <- jj[, jj.exposed]
"saunders.sheltered" <- jj[,!jj.exposed]
"saunders.exposed.tot"   <- count(apply(saunders.exposed,1,sum))
"saunders.sheltered.tot" <- count(apply(saunders.sheltered,1,sum))


plot(saunders.sheltered.tot, uncertainty=TRUE, n=1)
preston(saunders.tot)
optimal.params.sloss(saunders.exposed)

untb documentation built on Sept. 11, 2024, 5:14 p.m.