bootsMean: Statistics from bootstrap replicates.
In MortenVinther/FishStomachs: Compilation of stomach contents data

bootsMean

R Documentation

Statistics from bootstrap replicates.

Description

Statistics from bootstrap replicates.

Usage

bootsMean(
  b,
  pointEst,
  by_prey_size = FALSE,
  n_rep = NA,
  do_Diri = FALSE,
  minPreyProportion = 0,
  Diri_min = 0.001,
  excl_diri = NA,
  Diri_max = 0.99,
  verbose = FALSE
)

Arguments

`b`	Bootstrap diet data set. List of elements of class STOMdiet.
`pointEst`	Diet data estimated without bootstrapping (point estimates of prey weights)
`by_prey_size`	Logical for calculating mean and variance by prey size. FALSE provides statistics by prey species.
`n_rep`	Selected replicates used. If n_rep is a number, 1:n_rep are used, If n_rep is a vector the provided replica numbers are used in the statistics. All replicates are uesed if n_rep is NA (default).
`do_Diri`	Logical for performing statistics assuming the replicates are Dirichlet distributed.
`minPreyProportion`	Lower level for average prey proportion to be kept as a named prey. If lower, the prey weight is allocated to "other" prey.
`Diri_min`	Value to be used in estimating the Dirichelt parameter in case of a zero proportion.
`excl_diri`	Combinations (year, quarter, pred_name, pred_size) where Dirichlet parameters are not estimated.
`Diri_max`	Maximum average proportion for one food item allowed for estimation of of Dirichlet parameters.
`verbose`	Show progress.

Value

Data set with mean and variance of diets and fit to Dirichlet distribution. Output includes

Variable	Contents
nboots	Number of bootstrap replicates.
year	Year.
quarter	Quarter of the year.
pred_name	Predator name.
pred_size	Predator size.
prey	Prey, prey name and size, if used.
prey_name	Prey name.
prey_size	Prey size.
n_prey_sp	Number of "preys" observed.
param	Estimated parameters assuming a Dirichlet distribution of bootstrap replicates.
phi	Estimated precision parameter (sum of param from the Dirichlet distribution).
mu	Estimated mean value from the Dirichlet distribution.
mean_w	Mean value of prey weights (proportions) from the bootstrap replicates.
sd_w	Standard deviation of prey weights (proportions).
prey_w	Prey weight (proportions) estimated without bootstrapping.
strata	Strata used for bootstrap.
n_stom	Number of stomachs available before bootstrap ( from the `pointEst` data).
n_sample	Number of samples available before bootstrap.