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isotracer: Isotopic Tracer Analysis Using MCMC

Implements Bayesian models to analyze data from tracer addition experiments. The implemented method was originally described in the article "A New Method to Reconstruct Quantitative Food Webs and Nutrient Flows from Isotope Tracer Addition Experiments" by López-Sepulcre et al. (2020) <doi:10.1086/708546>.

Version: 1.1.7
Depends: R (≥ 3.6.0)
Imports: coda, data.table, dplyr, latex2exp, magrittr, methods, pillar, purrr, Rcpp, rlang, rstan (≥ 2.26.0), rstantools, tibble, tidyr, tidyselect
LinkingTo: BH (≥ 1.72.0), Rcpp (≥ 1.0.4), RcppEigen (≥ 0.3.3.7.0), StanHeaders (≥ 2.26.0), rstan (≥ 2.26.0), RcppParallel
Suggests: bayesplot, covr, cowplot, ggdist, ggplot2, ggraph, gridBase, gridExtra, here, igraph, knitr, lattice, readxl, rmarkdown, testthat, tidygraph, viridisLite
Published: 2024-11-05
DOI: 10.32614/CRAN.package.isotracer
Author: Andrés López-Sepulcre ORCID iD [aut], Matthieu Bruneaux ORCID iD [aut, cre]
Maintainer: Matthieu Bruneaux <matthieu.bruneaux at gmail.com>
BugReports: https://gitlab.com/matthieu-bruneaux/isotracer/-/issues
License: GPL-3
URL: https://gitlab.com/matthieu-bruneaux/isotracer
NeedsCompilation: yes
SystemRequirements: GNU make
Citation: isotracer citation info
Materials: README NEWS
CRAN checks: isotracer results

Documentation:

Reference manual: isotracer.pdf
Vignettes: Case study: Trinidadian streams (Collins et al. 2016) (source)
Quick start (source)
Handling replication (source)
Setting steady-state compartments (source)
Defining pulse or drip events (source)
Including fixed effects of covariates (source)
Units and priors (source)
Prior predictive checks (source)
MCMC output format (source)
Post-run diagnostics and analyses (source)
Posterior predictive checks (source)
Calculating derived parameters (source)
How to simulate experiments (source)
Testing parameter identifiability (source)

Downloads:

Package source: isotracer_1.1.7.tar.gz
Windows binaries: r-devel: isotracer_1.1.7.zip, r-release: isotracer_1.1.7.zip, r-oldrel: isotracer_1.1.7.zip
macOS binaries: r-release (arm64): isotracer_1.1.7.tgz, r-oldrel (arm64): isotracer_1.1.7.tgz, r-release (x86_64): isotracer_1.1.7.tgz, r-oldrel (x86_64): isotracer_1.1.7.tgz
Old sources: isotracer archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=isotracer to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.