marked: Mark-Recapture Analysis for Survival and Abundance Estimation

Functions for fitting various models to capture-recapture data including mixed-effects Cormack-Jolly-Seber(CJS) and multistate models and the multi-variate state model structure for survival estimation and POPAN structured Jolly-Seber models for abundance estimation. There are also Hidden Markov model (HMM) implementations of CJS and multistate models with and without state uncertainty and a simulation capability for HMM models.

Version:	1.2.8
Depends:	R (≥ 3.5.0), lme4, methods, parallel
Imports:	graphics, stats, utils, R2admb, truncnorm, coda, Matrix, numDeriv, expm, Rcpp (≥ 0.9.13), TMB, optimx (≥ 2013.8.6), data.table, knitr, kableExtra, bookdown
LinkingTo:	Rcpp
Suggests:	ggplot2
Published:	2023-10-19
DOI:	10.32614/CRAN.package.marked
Author:	Jeff Laake, Devin Johnson, Paul Conn, example for simHMM from Jay Rotella
Maintainer:	Jeff Laake <jefflaake at gmail.com>
License:	GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation:	yes
SystemRequirements:	ADMB version 11 <http://admb-project.org/> for use.admb=TRUE; see readme.txt
Citation:	marked citation info
Materials:	NEWS
In views:	Environmetrics
CRAN checks:	marked results

Documentation:

Reference manual:	marked.html , marked.pdf
Vignettes:	"marked Package Vignette" (source, R code)

Downloads:

Package source:	marked_1.2.8.tar.gz
Windows binaries:	r-devel: marked_1.2.8.zip, r-release: marked_1.2.8.zip, r-oldrel: marked_1.2.8.zip
macOS binaries:	r-release (arm64): marked_1.2.8.tgz, r-oldrel (arm64): marked_1.2.8.tgz, r-release (x86_64): marked_1.2.8.tgz, r-oldrel (x86_64): marked_1.2.8.tgz
Old sources:	marked archive

Reverse dependencies:

Reverse imports:

RWildbook

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