| plantTraits {cluster} | R Documentation |
This dataset constitutes a description of 136 plant species according to biological attributes (morphological or reproductive)
data(plantTraits)
A data frame with 136 observations on the following 31 variables.
pdiaslongindexdurflowheight1 < 2 < ... < 8.begflow1 < 2 < 3 < 4 < 5 < 6 < 7 < 8 < 9mycor0never < 1 sometimes< 2alwaysvegaer0never < 1 present but limited< 2important.vegsoutvegaer above.autopoll0never < 1rare < 2 often< the rule3insects0 < ... < 4.wind0 < ... < 4.lign0:1,
indicating if plant is woody.piqrossemiros0:
no; 1: yes).leafysumanwinanmonocarppolycarpseasaesseashivseasvereveralweverpartielaioendozooepizooaquatwindglunspMost of factor attributes are not disjunctive. For example, a plant can be usually pollinated by insects but sometimes self-pollination can occured.
Vallet, Jeanne (2005) Structuration de communautés végétales et analyse comparative de traits biologiques le long d'un gradient d'urbanisation. Mémoire de Master 2 'Ecologie-Biodiversité-Evolution'; Université Paris Sud XI, 30p.+ annexes (in french)
data(plantTraits)
## Calculation of a dissimilarity matrix
library(cluster)
dai.b <- daisy(plantTraits,
type = list(ordratio = 4:11, symm = 12:13, asymm = 14:31))
## Hierarchical classification
agn.trts <- agnes(dai.b, method="ward")
plot(agn.trts, which.plots = 2, cex= 0.6)
plot(agn.trts, which.plots = 1)
cutree6 <- cutree(agn.trts, k=6)
cutree6
## Principal Coordinate Analysis
cmdsdai.b <- cmdscale(dai.b, k=6)
plot(cmdsdai.b[, 1:2], asp = 1, col = cutree6)