| Salamanders {glmmTMB} | R Documentation |
Repeated counts of salamanders in streams
Description
A data set containing counts of salamanders with site covariates and sampling covariates. Each of 23 sites was sampled 4 times. When using this data set, please cite Price et al. (2016) as well as the Dryad data package (Price et al. 2015).
Usage
data(Salamanders)Format
A data frame with 644 observations on the following 10 variables:
- site
name of a location where repeated samples were taken
- mined
factor indicating whether the site was affected by mountain top removal coal mining
- cover
amount of cover objects in the stream (scaled)
- sample
repeated sample
- DOP
Days since precipitation (scaled)
- Wtemp
water temperature (scaled)
- DOY
day of year (scaled)
- spp
abbreviated species name, possibly also life stage
- count
number of salamanders observed
References
Price SJ, Muncy BL, Bonner SJ, Drayer AN, Barton CD (2016) Effects of mountaintop removal mining and valley filling on the occupancy and abundance of stream salamanders. Journal of Applied Ecology 53 459–468. doi:10.1111/1365-2664.12585
Price SJ, Muncy BL, Bonner SJ, Drayer AN, Barton CD (2015) Data from: Effects of mountaintop removal mining and valley filling on the occupancy and abundance of stream salamanders. Dryad Digital Repository. doi:10.5061/dryad.5m8f6
Examples
require("glmmTMB")
data(Salamanders)
zipm3 = glmmTMB(count~spp * mined + (1|site), zi=~spp * mined, Salamanders, family="poisson")