v3.1.11

Major change

For MixSIAR to remain on CRAN, I had to remove the mixsiar_gui() function. mixsiar_gui() will now be found in the new GitHub-only package MixSIARgui.

devtools::install_github("brianstock/MixSIARgui", dependencies=T) # installs MixSIAR as dependency
library(MixSIARgui) # also loads MixSIAR
mixsiar_gui()

Minor improvements

• New website for documentation: http://brianstock.github.io/MixSIAR/
• Allow output_JAGS() to suppress diagnostic pdf plots with output_options$diag_save_ggmcmc = FALSE (Thanks Virginia! #219)
• Allow plot_data() to return the ggplot object so that it can be modified by the user (Thanks Eric! #220, #222)
• 2 tweaks to make it clearer which sources receive which weights when using an informative prior
  • source names appear in plots from plot_prior() function
  • warning message that asks users to confirm the informative prior matches their alpha vector
• Update/fix alligator ex
  • moved calc_eps() (#149)
  • add code to plot cont effect + random effects of individuals (mixsiar_script_alligator_length_ind.R, #180)

Bug fix

• Fix error when combining sources with > 9 sources (Thanks Eric! 4e06aea)

3.1.9

New features

• Example: alligator diet, model comparison table with LOO/WAIC weights
• Example: mantis shrimp diet, informative priors + combining sources
• Function: compare_models to perform model selection based on LOO/WAIC weights, via loo package
• Function: combine_sources to aggregate sources a posteriori
• Function: summary_stat to print summary of posterior after combining sources
• Function: plot_intervals to plot CI of posterior after combining sources

Minor improvements

• Updated manual
• Removed attach.jags call (now directly use jags.1$BUGSoutput$sims.list)
• Added epsilon (multiplicative error term) estimates to output (summary stats, posterior plots)
• Improved continuous effect output plots: 1) added 95% CI shading, 2) plot each level of fixed effect
• Added check/error message: if sources by factor, sources must match for all factor levels

Bug fixes

• Fixed bug #129 by using MCMCpack::rdirichlet instead of compositions::rDirichlet.rcomp
• Small changes to pass R CMD check
• Fixed bug with 1FE + 1RE: empty levels Heidelberger diagnostic (#100)
• Fixed bug with 1FE + 1RE: posterior density plots saved over themselves
• Added return value for output_JAGS function: now returns p.both if 1FE + 1RE

3.1.8

Empty release... Zenodo failed to mint a DOI.

v3.1.7

cran-comments update

v3.1.5

Changed "Isotopes" to "Tracers" in GUI

v3.1.4

Fixed bug #72, which was created when making changes to pass R CMD check for CRAN submission.

v3.1.3

Users should not notice any functional changes. Added:

1. Tests via testthat package (see "tests/testthat" folder)
2. Changes to pass R CMD check for submission to CRAN

v3.1.2

Two very minor changes:

• download latest release by default (instead of master)
• updated citation info

v3.1.1

• Tested package install on Windows, Mac, Linux
• Revised install instructions
• Couple minor bug fixes
• Added vignettes for script examples, see browseVignettes("MixSIAR")
• Revised manual

v3.1.0

Converted to R package structure, so can now run MixSIAR with:

library(MixSIAR)
mixsiar_gui()