Description Usage Arguments Value

Generate data for a regural monitoring design. The counts follow a negative binomial distribution with given size paramters and the true mean mu depending on a year, period and site effect. All effects are independent fro each other and have, on the log-scale, a normal distribution with zero mean and given standard deviation.

1 2 3 4 5 6 | ```
generateData(intercept = 2, n.year = 24, n.period = 6, n.site = 20,
year.factor = FALSE, period.factor = FALSE, site.factor = FALSE,
trend = 0.01, sd.rw.year = 0.1, amplitude.period = 1,
mean.phase.period = 0, sd.phase.period = 0.2, sd.site = 1,
sd.rw.site = 0.02, sd.noise = 0.01, size = 2, n.run = 10,
as.list = FALSE, details = FALSE)
``` |

`intercept` |
the global mean on the log-scale |

`n.year` |
the number of years |

`n.period` |
the number of periods |

`n.site` |
the number of sites |

`year.factor` |
convert year to a factor. Defaults to FALSE |

`period.factor` |
convert period to a factor. Defaults to FALSE |

`site.factor` |
convert site to a factor. Defaults to FALSE |

`trend` |
the longterm linear trend on the log-scale |

`sd.rw.year` |
the standard deviation of the year effects on the log-scale |

`amplitude.period` |
the amplitude of the periodic effect on the log-scale |

`mean.phase.period` |
the mean of the phase of the periodic effect among years. Defaults to 0. |

`sd.phase.period` |
the standard deviation of the phase of the periodic effect among years |

`sd.site` |
the standard deviation of the site effects on the log-scale |

`sd.rw.site` |
the standard deviation of the random walk along year per site on the log-scale |

`sd.noise` |
the standard deviation of the noise effects on the log-scale |

`size` |
the size parameter of the negative binomial distribution |

`n.run` |
the number of runs with the same mu |

`as.list` |
return the dataset as a list rather than a data.frame. Defaults to FALSE |

`details` |
add variables containing the year, period and site effects. Defaults tot FALSE |

A `data.frame`

with five variables. `Year`

, `Month`

and `Site`

are factors identifying the location and time of monitoring. `Mu`

is the true mean of the negative binomial distribution in the original scale. `Count`

are the simulated counts.

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