cjs.accumulate {marked}

Accumulates common capture history values

Description

To speed up compuation, animals with the same capture history and design matrix are accumulated and represented by a frequency. Computes starting values for Phi and p parameters from the list of design matrices and the summarized data list including ch matrix and first and last vectors. If any values are missing (NA) or abs(par)>5, they are set to 0.

Usage

cjs.accumulate(x, model_data, nocc, freq, chunk_size)

Arguments

x

data

model_data

list of design matrices, fixed parameters and time intervals all which can vary by animal

nocc

number of capture occasions

freq

frequency of each capture history before accumulation

chunk_size

size that determines number of pieces of data/design matrix that are handled. Smaller chunk_size requires more time but less memory. 1e7 is default set in cjs.

Value

modified model_data list that is accumulated

Author(s)

Jeff Laake