nesting.activity: Calculate the Proportion of Active Nests for a Set of Dates
In frousseu/rNest: Estimating Nesting Chronology and Breeding Phenology in Birds

Description Usage Arguments Details Value Note Author(s) References See Also

Calculate the proportion of active nests along the breeding season for a set of species, regions or years

1	nesting.activity(dat, dates = F, groups = F, by = "sp", n = T, chronology = F, ...)

`dat`	A `data.frame` containing observations for one or several nests or the output of the `active.nest` function with column names : nest_id, species_code, date, eggs, young and optionally status_code, longitude and latitude.
`dates`	Restricts the range of dates for which the nesting activity is calculated. A `vector` of length 2 with the dates given as a character string of the in the mm-dd format (ex: `dates = c("04-01","09-01")`).
`groups`	Used to compute the nesting phenology for different group of species based on habitat, phylogeny, feeding guild, etc. A named `list` of character vectors with the species code and the group ids as names (ex: `list(warblers = c("COYE", "YWAR"), hawks = c("BAEA" , "GOEA"))`). Species that are not part of a group will be returned as usual. If a species is part of more than one group, an error message will be returned.
`by`	Used to compute the nesting phenology based on species, years or regions. The three types of output are `"sp"`, `"year"` or `"region"`.
`n`	Gives the number of nests used to compute the proportion of active nests. If set to `TRUE`, the first line of the resulting `data.frame` gives the number of nests used.
`chronology`	Does the nesting chronology needs to be determined first? When set to `TRUE`, the `dat` argument has to be a `data.frame` with nests observations. When set to `FALSE`, the `dat` argument is assumed to be the output of the `active.nest` function.
`...`	Further arguments to be passed to the `chronology` or `active.nest` function.

To be described

A data.frame with the first column named date and the remaining columns named with either the species code, year or regions used according to the by argument. The first line of the data.frame optionaly (see argument n) contains the number of nests available for the calculation.

To be described

Francois Rousseu <francoisrousseu@hotmail.com>

To be described

active.nest, nesting.calendar

frousseu/rNest documentation built on May 16, 2019, 3:32 p.m.