MixSIAR: Bayesian Mixing Models in R

Creates and runs Bayesian mixing models to analyze biotracer data (i.e. stable isotopes, fatty acids), which estimate the proportions of source (prey) contributions to a mixture (consumer). 'MixSIAR' is not one model, but a framework that allows a user to create a mixing model based on their data structure and research questions, via options for fixed/ random effects, source data types, priors, and error terms. 'MixSIAR' incorporates several years of advances since 'MixSIR' and 'SIAR', and includes both GUI (graphical user interface) and script versions.

AuthorBrian Stock [cre, aut], Brice Semmens [aut], Eric Ward [ctb], Andrew Parnell [ctb], Andrew Jackson [ctb], Donald Phillips [ctb], Jon Moore [ctb], Stuart Bearhop [ctb], Richard Inger [ctb]
Date of publication2016-08-23 20:00:15
MaintainerBrian Stock <b1stock@ucsd.edu>
LicenseGPL-3
Version3.1.7
https://github.com/brianstock/MixSIAR

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Files

MixSIAR
MixSIAR/inst
MixSIAR/inst/CITATION
MixSIAR/inst/mixsiar_manual_3.1_small.pdf
MixSIAR/inst/example_scripts
MixSIAR/inst/example_scripts/mixsiar_script_stormpetrel.R
MixSIAR/inst/example_scripts/mixsiar_script_snail.R
MixSIAR/inst/example_scripts/mixsiar_script_geese.R
MixSIAR/inst/example_scripts/run_all_examples.R
MixSIAR/inst/example_scripts/mixsiar_script_palmyra.R
MixSIAR/inst/example_scripts/mixsiar_script_cladocera.R
MixSIAR/inst/example_scripts/mixsiar_script_lake.R
MixSIAR/inst/example_scripts/mixsiar_script_isopod.R
MixSIAR/inst/example_scripts/mixsiar_script_killerwhale.R
MixSIAR/inst/example_scripts/mixsiar_script_wolves.R
MixSIAR/inst/extdata
MixSIAR/inst/extdata/lake_consumer.csv
MixSIAR/inst/extdata/cladocera_sources.csv
MixSIAR/inst/extdata/isopod_sources.csv
MixSIAR/inst/extdata/cladocera_discrimination.csv
MixSIAR/inst/extdata/killerwhale_sources.csv
MixSIAR/inst/extdata/check.png
MixSIAR/inst/extdata/wolves_consumer.csv
MixSIAR/inst/extdata/wolves_sources.csv
MixSIAR/inst/extdata/palmyra_sources.csv
MixSIAR/inst/extdata/geese_consumer.csv
MixSIAR/inst/extdata/killerwhale_discrimination.csv
MixSIAR/inst/extdata/stormpetrel_sources.csv
MixSIAR/inst/extdata/isopod_discrimination.csv
MixSIAR/inst/extdata/snail_sources.csv
MixSIAR/inst/extdata/stormpetrel_consumer.csv
MixSIAR/inst/extdata/palmyra_discrimination.csv
MixSIAR/inst/extdata/stormpetrel_discrimination.csv
MixSIAR/inst/extdata/snail_discrimination.csv
MixSIAR/inst/extdata/isopod_consumer.csv
MixSIAR/inst/extdata/palmyra_consumer.csv
MixSIAR/inst/extdata/lake_discrimination.csv
MixSIAR/inst/extdata/cladocera_consumer.csv
MixSIAR/inst/extdata/red_x.png
MixSIAR/inst/extdata/snail_consumer.csv
MixSIAR/inst/extdata/lake_sources.csv
MixSIAR/inst/extdata/geese_sources.csv
MixSIAR/inst/extdata/killerwhale_consumer.csv
MixSIAR/inst/extdata/wolves_discrimination.csv
MixSIAR/inst/extdata/geese_discrimination.csv
MixSIAR/inst/doc
MixSIAR/inst/doc/wolves_ex.html
MixSIAR/inst/doc/wolves_ex.Rmd
MixSIAR/inst/doc/geese_ex.Rmd
MixSIAR/inst/doc/killerwhale_ex.R
MixSIAR/inst/doc/isopod_ex.Rmd
MixSIAR/inst/doc/lake_ex.Rmd
MixSIAR/inst/doc/killerwhale_ex.html
MixSIAR/inst/doc/lake_ex.html
MixSIAR/inst/doc/cladocera_ex.R
MixSIAR/inst/doc/cladocera_ex.Rmd
MixSIAR/inst/doc/cladocera_ex.html
MixSIAR/inst/doc/isopod_ex.R
MixSIAR/inst/doc/geese_ex.html
MixSIAR/inst/doc/isopod_ex.html
MixSIAR/inst/doc/lake_ex.R
MixSIAR/inst/doc/geese_ex.R
MixSIAR/inst/doc/wolves_ex.R
MixSIAR/inst/doc/killerwhale_ex.Rmd
MixSIAR/tests
MixSIAR/tests/testthat.R
MixSIAR/tests/testthat
MixSIAR/tests/testthat/test_run_model.R
MixSIAR/tests/testthat/test_load_source_data.R
MixSIAR/tests/testthat/test_calc_area.R
MixSIAR/tests/testthat/test_ex5_killerwhale.R
MixSIAR/tests/testthat/test_ex1_wolves.R
MixSIAR/tests/testthat/test_ex7_stormpetrel.R
MixSIAR/tests/testthat/test_ex3_lake.R
MixSIAR/tests/testthat/test_ex8_cladocera.R
MixSIAR/tests/testthat/test_ex2_geese.R
MixSIAR/tests/testthat/test_ex6_snail.R
MixSIAR/tests/testthat/test_ex4_palmyra.R
MixSIAR/tests/testthat/test_ex9_isopod.R
MixSIAR/tests/testthat/test_load_discr_data.R
MixSIAR/tests/testthat/test_load_mix_data.R
MixSIAR/NAMESPACE
MixSIAR/NEWS.md
MixSIAR/R
MixSIAR/R/plot_data_one_iso.R MixSIAR/R/build_source_win.R MixSIAR/R/create_mixsiar_envir.R MixSIAR/R/calc_area.R MixSIAR/R/plot_continuous_var.R MixSIAR/R/load_mix_data.R MixSIAR/R/run_model.R MixSIAR/R/load_source_data.R MixSIAR/R/plot_data_two_iso.R MixSIAR/R/plot_prior.R MixSIAR/R/load_discr_data.R MixSIAR/R/build_mix_win.R MixSIAR/R/mixsiar_gui.R MixSIAR/R/plot_data.R MixSIAR/R/output_JAGS.R MixSIAR/R/write_JAGS_model.R
MixSIAR/vignettes
MixSIAR/vignettes/wolves_ex.Rmd
MixSIAR/vignettes/geese_ex.Rmd
MixSIAR/vignettes/isopod_ex.Rmd
MixSIAR/vignettes/lake_ex.Rmd
MixSIAR/vignettes/cladocera_ex.Rmd
MixSIAR/vignettes/killerwhale_ex.Rmd
MixSIAR/README.md
MixSIAR/MD5
MixSIAR/build
MixSIAR/build/vignette.rds
MixSIAR/DESCRIPTION
MixSIAR/man
MixSIAR/man/output_JAGS.Rd MixSIAR/man/plot_prior.Rd MixSIAR/man/load_source_data.Rd MixSIAR/man/run_model.Rd MixSIAR/man/plot_data_one_iso.Rd MixSIAR/man/plot_continuous_var.Rd MixSIAR/man/mixsiar.Rd MixSIAR/man/plot_data.Rd MixSIAR/man/write_JAGS_model.Rd MixSIAR/man/build_source_win.Rd MixSIAR/man/calc_area.Rd MixSIAR/man/mixsiar_gui.Rd MixSIAR/man/plot_data_two_iso.Rd MixSIAR/man/load_mix_data.Rd MixSIAR/man/build_mix_win.Rd MixSIAR/man/load_discr_data.Rd

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