├── .Rbuildignore ├── .bundle └── config ├── .editorconfig ├── .github └── workflows │ ├── README.md │ ├── pr-close-signal.yaml │ ├── pr-comment.yaml │ ├── pr-post-remove-branch.yaml │ ├── pr-preflight.yaml │ ├── pr-receive.yaml │ ├── sandpaper-main.yaml │ ├── sandpaper-version.txt │ ├── update-cache.yaml │ └── update-workflows.yaml ├── .gitignore ├── .zenodo.json ├── AUTHORS ├── CITATION ├── CODE_OF_CONDUCT.md ├── CONTRIBUTING.md ├── LICENSE.md ├── README.md ├── config.yaml ├── episodes ├── 00-introduction.Rmd ├── 01-r-basics.Rmd ├── 02-data-prelude.Rmd ├── 03-basics-factors-dataframes.Rmd ├── 04-bioconductor-vcfr.Rmd ├── 05-dplyr.Rmd ├── 06-data-visualization.Rmd ├── 07-r-help.Rmd ├── Ecoli_metadata.xlsx ├── data │ ├── SRR2584863_variants.csv │ └── combined_tidy_vcf.csv ├── exercise_solution.csv └── fig │ ├── New_R_Markdown.png │ ├── bioconductor_search.jpg │ ├── bioconductor_website_screenshot.jpg │ ├── new_project_window.png │ ├── oreilly_book_covers.png │ ├── rmd-03-unnamed-chunk-12-1.png │ ├── rmd-03-unnamed-chunk-15-1.png │ ├── rmd-03-unnamed-chunk-9-1.png │ ├── rstudio_dataframeview.png │ ├── rstudio_import_menu.png │ ├── rstudio_import_screen.png │ ├── rstudio_login_screen.png │ ├── rstudio_script_warning.png │ ├── rstudio_session_4pane_layout.png │ ├── rstudio_session_default.png │ ├── split_apply_combine.png │ ├── studio_contexthelp1.png │ ├── studio_contexthelp2.png │ └── variant_calling_workflow.png ├── genomics-r-intro.Rproj ├── index.md ├── instructors └── instructor-notes.md ├── learners ├── discuss.md ├── reference.md └── setup.md ├── profiles └── learner-profiles.md ├── renv ├── activate.R ├── profile └── profiles │ └── lesson-requirements │ ├── renv.lock │ └── renv │ └── .gitignore └── site └── README.md /.Rbuildignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/datacarpentry/genomics-r-intro/HEAD/.Rbuildignore 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