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 1.11.5 Index]