R: Repeated counts of salamanders in streams

Salamanders {glmmTMB} | R Documentation

## Repeated counts of salamanders in streams

### Description

A dataset containing counts of salamanders with site covariates and sampling covariates. Each of 23 sites were sampled 4 times. When using this data, 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 mountian 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

  abreviated species name, possibly also life stage

count

  number of observed salamanders

### 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. http://dx.doi.org/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. http://dx.doi.org/10.5061/dryad.5m8f6

### Examples

    require("glmmTMB")
    data(Salamanders)

    zipm3 = glmmTMB(count~spp * mined + (1|site), zi=~spp * mined, Salamanders, family="poisson")

[Package glmmTMB version 0.2.2.0 Index]