process.ch: Process release-recapture history data

In marked: Mark-Recapture Analysis for Survival and Abundance Estimation

Process release-recapture history data

Description

Creates needed constructs from the release-recapture history.

Usage

process.ch(ch, freq = NULL, all = FALSE)

Arguments

ch	Vector of character strings; each character string is composed of either a constant length sequence of single characters (01001) or the character string can be comma separated if more than a single character is used (1S,1W,0,2W). If comma separated, each string must contain a constant number of elements.
freq	Optional vector of frequencies for ch; if missing assumed to be a; if <0 indicates a loss on capture
all	FALSE is okay for cjs unless R code used to compute lnl instead of FORTRAN; must be true for js because it returns additional quantities needed for entry prob.

Value

nocc	number of capture occasions
freq	absolute value of frequency for each ch
first	vector of occasion numbers for first 1
last	vector of occasion numbers for last 1
loc	vector of indicators of a loss on capture if set to 1
chmat	capture history matrix
FtoL	1's from first (1) to last (1) and 0's elsewhere; only if all==TRUE
Fplus	1's from occasion after first (1) to nocc(last occasion); only if all==TRUE
Lplus	1's from occasion after last (1) to nocc; only if all==TRUE
L	1's from last (1) to nocc; only if all==TRUE

Author(s)

Jeff Laake

marked documentation built on Oct. 19, 2023, 5:06 p.m.