marked: Mark-Recapture Analysis for Survival and Abundance Estimation

Functions for fitting various models to capture-recapture data including fixed and mixed-effects Cormack-Jolly-Seber(CJS) for survival estimation and POPAN structured Jolly-Seber models for abundance estimation. Includes a CJS models that concurrently estimates and corrects for tag loss. Hidden Markov model (HMM) implementations of CJS and multistate models with and without state uncertainty.

Version: 1.1.10
Depends: R (≥ 2.15.0), lme4, methods, parallel
Imports: graphics, stats, utils, R2admb, truncnorm, coda, ggplot2, Matrix, numDeriv, expm, Rcpp (≥ 0.9.13), optimx (≥ 2013.8.6)
LinkingTo: Rcpp
Published: 2015-08-20
Author: Jeff Laake, Devin Johnson, Paul Conn
Maintainer: Jeff Laake <Jeff.Laake at>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: yes
SystemRequirements: ADMB version 11 ( for use.admb=TRUE; see readme.txt
Citation: marked citation info
Materials: NEWS
In views: Environmetrics
CRAN checks: marked results


Reference manual: marked.pdf
Vignettes: Using marked
Package source: marked_1.1.10.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
OS X Snow Leopard binaries: r-release: marked_1.1.10.tgz, r-oldrel: marked_1.1.8.tgz
OS X Mavericks binaries: r-release: marked_1.1.10.tgz
Old sources: marked archive