hr-environ-stoch-phd

This repo contains the work for my Ph.D. in Biology at UBC Okanagan.

analysis contains all scripts used for analyses, including figure creation and model fitting. Scripts contain comments that explain the code, but they assume users have basic knowledge of R and that they will refer to help pages for packages and functions (which can be accessed with ?, e.g.: ?data.frame).
data contains all datasets not publicly available elsewhere. Movement data can be downloaded through Movebank following the scripts in the analysis folder (also see https://github.com/StefanoMezzini/tapirs).
figures contains all figures used in this thesis and any related presentations. The scripts used to create the figures can be found in the analysis/figures folder.
functions contains all custom functions sourced in analysis scripts.
issues contains all files related to issues with the thesis and repository. Please report any reproducibility issues as an issue on the repository.
models contains all model saved as .rds files, except for models which are too large to store on GitHub. All models can be fit using the scripts in the analysis/models folder.
talks contains all presentations and lectures given related to the thesis project. Scripts used to create the figures used can be found in the analysis/figures folder.
writing contains all files used to create the documents related to the thesis project, including the proposal and the final thesis document. Related manuscripts are in separate repositories:
- https://github.com/StefanoMezzini/env-var-review

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