This package is considered a duplicate. The official version of this package is found at:https://ianjonsen.r-universe.dev/bsam

Package: bsam 1.1.3

Ian Jonsen

bsam: Bayesian State-Space Models for Animal Movement

Tools to fit Bayesian state-space models to animal tracking data. Models are provided for location filtering, location filtering and behavioural state estimation, and their hierarchical versions. The models are primarily intended for fitting to ARGOS satellite tracking data but options exist to fit to other tracking data types. For Global Positioning System data, consider the 'moveHMM' package. Simplified Markov Chain Monte Carlo convergence diagnostic plotting is provided but users are encouraged to explore tools available in packages such as 'coda' and 'boa'.

Authors:Ian Jonsen [aut, cre], Sophie Bestley [ctb], Simon Wotherspoon [ctb], Michael Sumner [ctb], Joanna Mills Flemming [ctb]

bsam_1.1.3.tar.gz
bsam_1.1.3.tar.gz(r-4.5-noble)bsam_1.1.3.tar.gz(r-4.4-noble)
bsam_1.1.3.tgz(r-4.4-emscripten)bsam_1.1.3.tgz(r-4.3-emscripten)
bsam.pdf |bsam.html✨
bsam/json (API)
NEWS

# Install 'bsam' in R:

install.packages('bsam', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ianjonsen/bsam/issues

Uses libs:

jags– Just Another Gibbs Sampler for Bayesian MCMC
c++– GNU Standard C++ Library v3

Datasets:

ellie1 - Elephant seal Argos satellite data
ellie2 - Elephant seal Argos satellite data

jags cpp

3.19 score 31 scripts 608 downloads 12 mentions 13 exports 43 dependencies

Last updated 4 years agofrom:a43310ca05. Checks:OK: 1 NOTE: 1. Indexed: no.

Target	Result	Date
Doc / Vignettes	OK	Dec 03 2024
R-4.5-linux	NOTE	Dec 03 2024

Exports:dat4jags diag_ssm diagSSM fit_ssm fitSSM get_summary hssm map_ssm plot_fit plotSSM simulate ssm tpar

Dependencies:cli coda colorspace cpp11 dplyr expm fansi farver generics ggplot2 glue gridExtra gtable isoband labeling lattice lifecycle lubridate magrittr MASS Matrix mgcv msm munsell mvtnorm nlme pillar pkgconfig R6 RColorBrewer rjags rlang rworldxtra scales sp survival tibble tidyselect timechange utf8 vctrs viridisLite withr

Help page	Topics
Fit Bayesian state-space models to animal tracking data	bsam-package bsam
Correlated Random Walk Filter	dat4jags
Plot standard McMC convergence diagnostics to help determine lack of model convergence.	diag_ssm
Elephant seal Argos satellite data (1 individual)	ellie1
Elephant seal Argos satellite data (2 individuals)	ellie2
Fit Bayesian state-space models to animal movement data	fit_ssm
Deprecated functions.	diagSSM fitSSM plotSSM
Extract summary output and optionally export as a .csv file.	get_summary
Fits hierarchical state-space models to Argos data	hssm
Plot estimated track, behavioural states and observations on a map.	map_ssm
Plot the 1-D time-series of estimated location and behavioural states	plot_fit
Simulate from the DCRW model with Argos location errors	simulate
Fits state-space models to Argos data	ssm
ARGOS Error Fixed Parameters	tpar

Package: bsam 1.1.3

bsam: Bayesian State-Space Models for Animal Movement

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Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)