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Computing

Computing on Hyak (Slurm Updated)

1. Switching to Slurm
2. Loading R and R Packages
3. Example Runfiles
4. Helpful aliases
5. Hyak wiki 1
6. Hyak wiki 2

Other

1. Rstudio Server on CSDE
2. R Package Reproducibility and Reprex
3. Managing multiple local package versions
4. Quick way to update all local packages after R version bump

EpiModel Lab - Onboarding

About EpiModel

R Tutorials

1. R Programming - Coursera
2. Hadley Wickham - Advanced R
3. Hadley Wickham - R Packages

Software and Configurations

1. Required Software
2. Configuring RStudio for EpiModel Development
3. Create a Github Personal Access Token*

*Once you have your personal access token, from a console window you can type usethis::edit_r_environ() to open your .Renviron file. Then add this line: GITHUB_PAT= pasteYourTokenHere. Note that .Renviron is just a text file, so you can edit it directly as well.

EpiModel Development with Github and Rstudio

1. Guide to Github, RStudio, and Hyak
2. Working with Github Repositories
3. EpiModel Development Workflow
4. Note Regarding R Build Issue Workaround

Reproducible environments

1. renv overview for local and Hyak use

ergm Package Development with Github and (optionally) RStudio

1. ergm Development Workflow
2. Reverse Dependency checking with revdepcheck

Using Rpubs

1. Fixing embedded link errors
2. Publishing existing html files to Rpubs