forams-package {forams}

Foraminifera and Community Ecology Analyses

Description

SHE, FORAM Index and ABC Method analyses and custom plot functions for community data.

Details

Package:	forams
Type:	Package
Version:	2.0-6
Date:	2023-08-24
License:	GLP (>=2)
Depends:	methods, vegan, permute

This package always uses data frames with taxa as rows and sites or variables as columns. It also provides customizable plot functions to use with the objects resulting from the analyses, and randomly generated example datasets.

The analyses performed by this package are: SHE, FORAM Index and ABC Method.

Author(s)

Rodrigo Aluizio

Maintainer: Rodrigo Aluizio <[e-mail]>

References

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

Hallock, P., Lidz, B.H., Cockey-Burkhard, E.M. & Donnelly, K.B. (2003). Foraminifera as bioindicators in coral reef assessment and monitoring: The foram index. Environmental monitoring and assessment 81, 221-238.

Warwick, R.M. (1986). A new method for detecting pollution effects on marine macrobenthic communities. Marine Biology 92 (4), 557-562.

Warwick, R.M., & Clarke, K.R. (1994). Relearning the ABC: taxonomic changes and abundance/biomass relationships in disturbed benthic communities. Marine Biology 118 (4), 739-744.

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.

See Also

abc, fi, she

Examples

data(NB)
data(Factors)
data(LF)
# ABC
plot(abc(NB))
# FORAM Index
plot(fi(LF, Factors))
# SHE
plot(she(LF))