Neigbourhood distance metrics {cati} R Documentation

Coefficient of variation, mean, minimum and standard deviation of the nearest neigbourhood distance.

Description

CVNND : Coefficient of variation of the nearest neigbourhood distance

MNND : Mean of the nearest neigbourhood distance

MinNND : Minimum of the nearest neigbourhood distance

SDNND : Standard deviation of the nearest neigbourhood distance

SDND : Standard deviation of the neigbourhood distance

MND : Mean of the neigbourhood distance

Usage

	CVNND(traits, div_range =  FALSE, na.rm = FALSE, scale.tr = TRUE,
method.dist = "euclidian")

MNND(traits, div_range =  FALSE, na.rm = FALSE, scale.tr = TRUE,
method.dist = "euclidian")

MinNND(traits, div_range =  FALSE, na.rm = FALSE, scale.tr = TRUE,
method.dist = "euclidian")

SDNND(traits, div_range =  FALSE, na.rm = FALSE, scale.tr = TRUE,
method.dist = "euclidian")

SDND(trait, div_range = FALSE, na.rm = FALSE)

MND(trait, div_range = FALSE, na.rm = FALSE)


Arguments

 traits Trait vector (uni-trait metric) or traits matrix (Multi-traits metric), traits in column. trait Trait vector div_range Does metric need to be divided by the range? Default is no. na.rm If div_range=TRUE, a logical value indicating whether NA values should be stripped before the computation proceeds. scale.tr Does traits need to be scale before multi-traits metric calculation? Default is yes. method.dist Method to calculate the distance in case of multi-traits metric (function dist). Default is euclidian.

Value

One value corresponding to the metric value.

References

Aiba, M., Katabuchi, M., Takafumi, H., Matsuzaki, S.S., Sasaki, T. & Hiura, T. 2013. Robustness of trait distribution metrics for community assembly studies under the uncertainties of assembly processes. Ecology, 94, 2873-2885. Jung, Vincent, Cyrille Violle, Cedric Mondy, Lucien Hoffmann, et Serge Muller. 2010. Intraspecific variability and trait-based community assembly: Intraspecific variability and community assembly. Journal of Ecology 98 (5): 1134-1140.

Examples

data(finch.ind)

CVNND(traits.finch[,1], na.rm = TRUE)
CVNND(traits.finch[,1], div_range =  TRUE, na.rm = TRUE)
CVNND(traits.finch, na.rm = TRUE)
CVNND(traits.finch, scale.tr = FALSE, na.rm = TRUE)
SDND(traits.finch[,1], na.rm = TRUE)



[Package cati version 0.99.4 Index]