
plantTraits Plant Species Traits Data Description This dataset constitutes a description of 136 plant species according to biological attributes (morphological or reproductive)  Usage data(plantTraits)
 Format A data frame with 136 observations on the following 31 variables.   pdias

Diaspore mass (mg)  longindex

Seed bank longevity  durflow

Flowering duration  height

Plant height, an ordered factor with levels 1 < 2 < ... < 8.    begflow

Time of first flowering, an ordered factor with levels 1 < 2 < 3 < 4 < 5 < 6 < 7 < 8 < 9    mycor

Mycorrhizas, an ordered factor with levels 0never < 1 sometimes< 2always  vegaer

aerial vegetative propagation, an ordered factor with levels 0never < 1 present but limited< 2important.  vegsout

underground vegetative propagation, an ordered factor with 3 levels identical to vegaer above.  autopoll

selfing pollination, an ordered factor with levels 0never < 1rare < 2 often< the rule3  insects

insect pollination, an ordered factor with 5 levels 0 < ... < 4.  wind

wind pollination, an ordered factor with 5 levels 0 < ... < 4.  lign

a binary factor with levels 0:1, indicating if plant is woody.  piq

a binary factor indicating if plant is thorny.  ros

a binary factor indicating if plant is rosette.  semiros

semi-rosette plant, a binary factor (0: no; 1: yes).  leafy

leafy plant, a binary factor.  suman

summer annual, a binary factor.  winan

winter annual, a binary factor.  monocarp

monocarpic perennial, a binary factor.  polycarp

polycarpic perennial, a binary factor.  seasaes

seasonal aestival leaves, a binary factor.  seashiv

seasonal hibernal leaves, a binary factor.  seasver

seasonal vernal leaves, a binary factor.  everalw

leaves always evergreen, a binary factor.  everparti

leaves partially evergreen, a binary factor.  elaio

fruits with an elaiosome (dispersed by ants), a binary factor.  endozoo

endozoochorous fruits, a binary factor.  epizoo

epizoochorous fruits, a binary factor.  aquat

aquatic dispersal fruits, a binary factor.  windgl

wind dispersed fruits, a binary factor.  unsp

unspecialized mechanism of seed dispersal, a binary factor.   Details Most of factor attributes are not disjunctive. For example, a plant can be usually pollinated by insects but sometimes self-pollination can occured.  Source 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)  Examples 
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)


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