radish {aster} | R Documentation |

Data on life history traits for the
invasive California wild radish *Raphanus sativus*

data(radish)

A data frame with records for 286 plants. Data are already in “long” format; no need to reshape.

- resp
Response vector.

- varb
Categorical. Gives node of graphical model corresponding to each component of

`resp`

. See details below.- root
All ones. Root variables for graphical model.

- id
Categorical. Indicates individual plants.

- Site
Categorical. Experimental site where plant was grown. Two sites in this dataset.

- Block
Categorical. Block nested within site.

- Region
Categorical. Region from which individuals were obtained: northern, coastal California (N) or southern, inland California (S).

- Pop
Categorical. Wild population nested within region.

- varbFlowering
Indicator (zero or one). Shorthand for

`as.numeric(radish$varb == "Flowering")`

.- varbFlowers
Indicator (zero or one). Shorthand for

`as.numeric(radish$varb == "Flowers")`

.- fit
Indicator (zero or one). Shorthand for

`as.numeric(radish$varb == "Fruits")`

. So-called because the components of`outcome`

indicated are the best surrogate of Darwinian fitness in these data.

The levels of `varb`

indicate nodes of the graphical model to which
the corresponding elements of the response vector `resp`

belong.
This is the typical “long” format produced by the R `reshape`

function. For each individual, there are several response variables.
All response variables are combined in one vector `resp`

.
The variable `varb`

indicates which “original” variable
the number was for. The variable `id`

indicates which individual
the number was for. The levels of `varb`

, which are the names
of the “original” variables are

- Flowering
Indicator (zero or one). Bernoulli, One if individual survived to produce flowers.

- Flowers
Integer. Zero-truncated Poisson, number of flowers observed.

- Fruits
Integer. Poisson, number of fruits observed.

Graphical model is

*1 -> Flowering -> Flowers -> Fruits.*

Caroline Ridley

These data are a subset of data previously analyzed using fixed effect
aster methods (R function `aster`

) in the following.

Ridley, C. E. and Ellstrand, N. C. (2010).
Rapid evolution of morphology and adaptive life history in
the invasive California wild radish (*Raphanus sativus*) and
the implications for management.
*Evolutionary Applications*, **3**, 64–76.

These data are a subset of data previously analyzed using random effect
aster methods (R function `reaster`

) in the following.

Geyer, C. J., Ridley, C. E., Latta, R. G., Etterson, J. R.,
and Shaw, R. G. (2013)
Local Adaptation and Genetic Effects on Fitness: Calculations
for Exponential Family Models with Random Effects.
*Annals of Applied Statistics*, **7**, 1778–1795.
doi: 10.1214/13-AOAS653.

data(radish)

[Package *aster* version 1.1-2 Index]