nll: Negative Log Likelihood Function for Estimating Sigma and...

In philipshirk/nmmsims: Simulate & Analyze N-mixture Model Data

Description

function description

Usage

nll(par, K, n_dat, W = 20, y_dat, distance_sampling = TRUE)

Arguments

par	parameters to be guessed (in this case c(log(sigma), log(lambda))). The parameters are logged so that they're always positive.
K	The maximum possible true abundance, N. I've been using round(lambda * 10) as a default.
n_dat	matrix of observations at all sites (rows) and samples/replicates (columns)
W	Transect half-width (meters). If not set, it uses the maximum observed distance.
y_dat	vector of distances (meters) for all observations
distance_sampling	logical. Whether or not to incorporate distance data into likelihood.

Value

total negative log likelihood of the data given the parameters.

philipshirk/nmmsims documentation built on Feb. 26, 2020, 11:27 a.m.