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.

`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

`0`

never <`1`

sometimes<`2`

always`vegaer`

aerial vegetative propagation, an ordered factor with levels

`0`

never <`1`

present but limited<`2`

important.`vegsout`

underground vegetative propagation, an ordered factor with 3 levels identical to

`vegaer`

above.`autopoll`

selfing pollination, an ordered factor with levels

`0`

never <`1`

rare <`2`

often< the rule`3`

`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.

Most 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)

[Package *cluster* version 2.0.8 Index]