NEWS.md
Raw geomeans captions have been updated to clarify how 0s in the data are dealt with. They are replaced with NA. The methods vignette has been updated to include a section on how 0s are dealt with and misspellings corrected.
I revamped how to customize plots and palettes. I no longer use nwctrends.palette. Instead I use pkg_globals in the package environment. The user passes in nwctrends.options as a list with any of the plot options that they want to update (e.g. line color or line type or point type). See the new onLoad.R file and the nwctrends_options.R file. None .onLoad() is run whether the package is loaded via library() or via NWCTrends::.
Added some examples to NWCTrends_report.R.
I was overloading the inst/doc folder with non-vignette material. I moved the needed report files (Rmd and tex) to inst/report_files and the demo data to inst/extdata. The inst/doc folder now only has the two vignettes and the documentation PDFs.
I also updated the vignettes folder such that if install_local() or install_github() with build_vignettes=TRUE is used, the inst/doc created will match that on GitHub. Note, the user would have to accept inst/doc will be delected. It doesn’t delete the files in the repo, just re-creates inst/doc in the installed version in the user library.
I added a file local_build_instructions.txt to the repo to remind me how to build the vignettes and how to deal with devtools::check() deleting the inst/doc folder.
Added a data object nwctrends.pallete with red, blue, black, green and white defined (in a list). To change the colors, the user a new palette list to NWCTrends()
Added show.all.fracwild to NWCTrends_report() so that that can be changed from the main function.