Description Usage Arguments Value Examples

View source: R/Sample_quadrats.R

This function allows to sample quadratic subplots from a spatially-explicit
community. The output format are a sites x species abundance table and a
sites x xy-coordinates table. The sites x species abundance is
a classical data format used in community ecology. The table generated
can be for instance be further analysed with the package `vegan`

.

1 2 3 4 5 6 7 8 9 10 11 12 | ```
sample_quadrats(
comm,
n_quadrats = 20,
quadrat_area = 0.01,
plot = TRUE,
method = "random",
avoid_overlap = F,
x0 = 0,
y0 = 0,
delta_x = 0.1,
delta_y = 0.1
)
``` |

`comm` |
Community object from which the samples are generated |

`n_quadrats` |
Number of sampling quadrats |

`quadrat_area` |
Area of the sampling quadrats |

`plot` |
Should the sampling design be plotted? (logical) |

`method` |
Available methods are |

`avoid_overlap` |
For the random sampling try to generate a design without overlap of quadrats (logical) |

`x0, y0` |
Lower left corner of the first quadrat in transect and grid sampling |

`delta_x` |
Distance between consecutive quadrats in transect and grid sampling in x-direction (the distance between the left sides is measured) |

`delta_y` |
Distance between consecutive quadrats in transect and grid sampling in y-direction (the distance between the lower sides is measured) |

A list with two items, `spec_dat`

and `xy_dat`

.
`spec_dat`

is a data.frame with sampling quadrats in rows and species abundances
in columns, and `xy_dat`

is a data.frame with sampling quadrats in rows
and the xy-coordinates of the quadrats (lower left corner) in columns.

1 2 3 4 5 6 | ```
library(vegan)
sim_com1 <- sim_poisson_community(100, 10000)
comm_mat1 <- sample_quadrats(sim_com1, n_quadrats = 100,
quadrat_area = 0.002, method = "grid")
specnumber(comm_mat1$spec_dat)
diversity(comm_mat1$spec_dat, index = "shannon")
``` |

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