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.


Reference manual

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install.packages("marked")

1.2.8 by Jeff Laake, 3 years ago


Browse source code at https://github.com/cran/marked


Authors: Jeff Laake <jefflaake@gmail.com> , Devin Johnson <devin.johnson@noaa.gov> , Paul Conn <paul.conn@noaa.gov> , example for simHMM from Jay Rotella


Documentation:   PDF Manual  


GPL (>= 2) license


Imports graphics, stats, utils, R2admb, truncnorm, coda, Matrix, numDeriv, expm, Rcpp, TMB, optimx, data.table, knitr, kableExtra, bookdown

Depends on lme4, methods, parallel

Suggests ggplot2

Linking to Rcpp

System requirements: ADMB version 11 <http://admb-project.org/> for use.admb=TRUE; see readme.txt


Imported by RWildbook.


See at CRAN