build_metaweb: Metaweb building
In alaindanet/SizeTrophicInteractions: What the Package Does (One Line, Title Case)

Description Usage Arguments Details Value

Metaweb building

build_metaweb(
  data,
  species,
  size,
  pred_win,
  beta_min,
  beta_max,
  fish_diet_shift,
  low_bound,
  upper_bound,
  fish,
  resource_diet_shift,
  class_method = "quantile",
  nb_class = 9,
  pred_win_method = "midpoint",
  na.rm = FALSE,
  replace_min_by_one = FALSE,
  fish_resource_method = "overlap"
)

`data`	a dataframe containing species and size variable
`species`	blabla
`size`	data.frame containing species and length.
`pred_win`	data.frame containing species and the predation window parameters (\alpha and \beta).
`beta_min`	column name containing beta_min parameters
`beta_max`	column name contains beta_max parameters
`class_method`	character percentile or quantile. Default to percentile.
`nb_class`	integer number of size class to create. Default to 9.
`pred_win_method`	character midpoint, overlap or no_overlap. Default to midpoint.
`na.rm`	logical. Should the NAs be removed ?
`replace_min_by_one`	logical. In the first class, replace low bound by 1.
`fish_resource_method`	character Either "overlap", "willem" or "midpoint"
`diet_shift`	data.frame containing species and the predation window.

class_method = "quantile" use the quantile function to create size class in nb_class . When class_method = "percentile", the range of the size distribution is divided by nb_class. The difference is that quantile start the first class at the minimum value of the size distribution while percentile begins at 0. It therefore gives slightly different results. When the predation window definition is defined as overlap or midpoint, there will be possibility of overlap between size class of a predator and a prey. It means that for trophic link established between a prey and a predator, the smallest predator of a given size class is smaller than the biggest prey fish. When pred_win_method is set to "no_overlap", the upper limit of the predation window of a predator size class is defined by the smallest predator of the size class, so there is no overlap between predator and prey. With midpoint option, the existence of a trophic link is defined by the middle of the predator size class.

matrix

alaindanet/SizeTrophicInteractions documentation built on Dec. 18, 2021, 11:32 p.m.