Code for: Drought may initiate western spruce budworm outbreaks, but multi-year periods of increased moisture availability promote widespread defoliation

Description of the project

This repository contains all code for Drought may initiate western spruce budworm outbreaks, but multi-year periods of increased moisture availability promote widespread defoliation.

Organization of the project

The project has the following structure:

• .gitignore

• CITATION.cff

• citationstyle.csl : A Citation Style Language file used to format references in the main text file.

• Code: This subdirectory contains all code written for this project. In order for the code to work, files should be run sequentially (i.e., 01-Data-Download.Rmd then 02-PreprocessingDouglasFir.Rmd ... 06-WSBxClimate-MainText.Rmd). All .R scripts are called internally by .Rmd files. For all R markdown files (.Rmd), the knit version is also included as a Microsoft Word document.

  • 01-Data-Download.Rmd: This code will download most of the data.
  • 02-PreprocessingDouglasFir.Rmd: This code performs basic preprocessing for the Douglas fir tree-ring series.
  • 03-PreprocessingPonderosaPine.Rmd: This code performs basic preprocessing for the ponderosa pine tree-ring series.
  • 04-IdentifyControlSites.Rmd: This code identifies the three ponderosa pine chronologies that most closely represent the climate patterns present in the growth patterns of Douglas fir at each site.
  • 05-StudyArea.Rmd: This code generates a study area map and characterizes the study area climate.
  • 06-WSBxClimate-MainText.Rmd: The code for reproducing the main text and results presented therein.
  • k1d.R: Code for performing multivariate event analysis from Gavin (2010).
  • references.bib: A BibTeX file containing all information for all references used in the project
  • Template.docx: A Microsoft Word document used to a style template for generating the main text file.
  • TreeRingfuncs.R: Some supplemental functions for manipulating tree-ring data.

• Data: This subdirectory contains data used in this project. Note that spatial data is too large to be stored on GitHub and needs to be downloaded and stored locally for all code to run.

• Documents

  • PublishedOutbreakHistory.xlsx - A table containing information on the start and ending of published outbreaks pulled from peer reviewed literature.

• License.md

• README.md

• WSBxClimate.Rproj

License

This project is licensed under the MIT License - see the LICENSE.md file for details

Citation

Please cite this work following the Citation.cff file