forams (version 2.0-6)

she: SHE Analysis

Description

This function implements the SHE method in community abundance datasets.

Usage

she(df, method)

Value

S

richness values.

H

shannon diversity values.

E

equitability values.

N or L

number of specimens (N) or sites rank based on specimens frequency (L).

Arguments

df

a numerical data frame with samples as columns and taxa as rows.

method

the method to be used, ("abundance" or "frequency"), defaults to "abundance".

Author

Rodrigo Aluizio

Details

This method is intended to determine boundaries between abundance biozones, based in raw abundance (SHEbi) or in frequency (SHEbip) (Buzas et al. 1998, Wilson et al. 2010). The custom plot produces a line plot with points on a ln abscissa and uses the axis function, so a complete customization (i.e. side) of the axes is not possible at this moment.

References

Buzas, M.A. & Hayek, L.A.C. (1998). SHE analysis for biofacies identification. Journal of Foraminiferal Research 28 (3), 233-239.

Wilson, B., Dawe, R., Gopee, A., Grant, S., Kissoon, A., Young, T., Noon, C., McLean, A. & Singh, K. (2010). Determining Boundaries between Abundance Biozones Using Minimal Equipment. International Journal of Ecology 2010, 1-14.

Examples

data(LF)
MySHE <- she(LF, "abun")
plot(MySHE)