simpleCJS: Analytical CJS model

In actel: Acoustic Telemetry Data Analysis

Analytical CJS model

Description

Computes an analytical CJS model for a presence/absence matrix.

Usage

simpleCJS(input, estimate = NULL, fixed.efficiency = NULL, silent = TRUE)

Arguments

input	A presence/absence matrix.
estimate	An estimate of the last array's efficiency, between 0 and 1.
fixed.efficiency	A vector of fixed efficiency estimates [0, 1]. length(fixed.efficiency) must match ncol(input).
silent	Logical: Should messages be printed? This argument is mainly intended for function calls running within actel's analyses.

Value

A list containing:

• absolutes A data frame with the absolute number of tags detected and missed,

• efficiency A vector of calculated array detection efficiencies,

• survival A matrix of calculated survivals,

• lambda A combined detection efficiency * survival estimate for the last array.

References

Perry et al (2012), 'Using mark-recapture models to estimate survival from telemetry data'. url: https://www.researchgate.net/publication/256443823_Using_mark-recapture_models_to_estimate_survival_from_telemetry_data

Examples

# prepare a dummy presence/absence matrix
x <- matrix(c(TRUE, TRUE, TRUE, TRUE, FALSE, TRUE, TRUE, TRUE, FALSE), ncol = 3)
colnames(x) <- c("Release", "Array1", "Array2")

# run CJS
simpleCJS(x)

actel documentation built on Oct. 19, 2023, 9:08 a.m.