{"id":23673853,"url":"https://github.com/carpentries-incubator/quarto-project-example","last_synced_at":"2025-09-02T03:30:35.641Z","repository":{"id":62907656,"uuid":"428436257","full_name":"carpentries-incubator/quarto-project-example","owner":"carpentries-incubator","description":"Project Example for the Lesson: Introduction to Reproducible Publications with Quarto","archived":false,"fork":false,"pushed_at":"2024-02-13T20:54:08.000Z","size":2368,"stargazers_count":7,"open_issues_count":1,"forks_count":55,"subscribers_count":4,"default_branch":"main","last_synced_at":"2025-04-03T07:01:26.060Z","etag":null,"topics":["alpha","carpentries-incubator","english","open-science","project-management","qmd","quarto","r","reproducible-paper","rstudio","scientific-reproducibility"],"latest_commit_sha":null,"homepage":"https://github.com/carpentries-incubator/reproducible-publications-quarto","language":"JavaScript","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/carpentries-incubator.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE.md","code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION.md","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null},"funding":{"github":["carpentries"],"custom":["https://give.communityin.org/TheCarpentries"]}},"created_at":"2021-11-15T22:08:34.000Z","updated_at":"2025-01-26T19:36:59.000Z","dependencies_parsed_at":"2024-02-13T21:50:41.258Z","dependency_job_id":null,"html_url":"https://github.com/carpentries-incubator/quarto-project-example","commit_stats":null,"previous_names":["carpentries-incubator/project-example-reproducible-pubs-quarto","carpentries-incubator/reproducible-publications-with-rstudio-example"],"tags_count":2,"template":false,"template_full_name":null,"purl":"pkg:github/carpentries-incubator/quarto-project-example","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/carpentries-incubator%2Fquarto-project-example","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/carpentries-incubator%2Fquarto-project-example/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/carpentries-incubator%2Fquarto-project-example/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/carpentries-incubator%2Fquarto-project-example/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/carpentries-incubator","download_url":"https://codeload.github.com/carpentries-incubator/quarto-project-example/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/carpentries-incubator%2Fquarto-project-example/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273224864,"owners_count":25067178,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-02T02:00:09.530Z","response_time":77,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["alpha","carpentries-incubator","english","open-science","project-management","qmd","quarto","r","reproducible-paper","rstudio","scientific-reproducibility"],"created_at":"2024-12-29T12:56:59.678Z","updated_at":"2025-09-02T03:30:35.250Z","avatar_url":"https://github.com/carpentries-incubator.png","language":"JavaScript","funding_links":["https://github.com/sponsors/carpentries","https://give.communityin.org/TheCarpentries"],"categories":[],"sub_categories":[],"readme":"# Project Example for the Workshop: Introduction to Reproducible Publications with Quarto Workshop\n\n*Attention!* This is NOT the lesson repository. This is the GitHub repository for the project example used in the [Introduction to Reproducible Publications with Quarto](https://github.com/carpentries-incubator/reproducible-publications-quarto). Learners will be required to download the project example in order to follow along. \n\n**The project example folder is a simplified version of the original project available at: [https://osf.io/6mvq7](https://osf.io/6mvq7).**\n\nOur example uses an adapted version of the data paper: \n\nNitsch, F. J., Sellitto, M., \u0026 Kalenscher, T. (2021). Trier social stress test and food-choice: Behavioral, self-report \u0026 hormonal data. *Data in Brief*, 37, 107245. [https://doi.org/10.1016/j.dib.2021.107245](https://doi.org/10.1016/j.dib.2021.107245).\n\nThe data paper and its underlying data publicly available at [https://osf.io/6mvq7](https://osf.io/6mvq7) were adapted and used for educational purposes with the authors' permission.\n\n------------------------------\n## README\n\nThis directory contains the data and analysis scripts required to computationally reproduce some of the results and plots reported\nin [https://doi.org/10.1016/j.dib.2021.107245](https://doi.org/10.1016/j.dib.2021.107245).\n\nAll provided code was written in R (R version 4.0.0 (2020-04-24) -- \"Arbor Day\") and should work with more recent versions. \nIt requires the following packages to run the analysis code:\n- tidyverse - 1.3.2\n- stringi - 1.7.8\n- bayesFactor - 0.9.12-4.5\n- patchwork - 1.1.3\n- usethis - 2.2.2 \n\nThe structure of the directory is:\n\nroot:\n\n- `Reproducible-Publications-with-RStudio-Example.Rproj` # RStudio Project File\n- `code` #Contains all runnable R script files\n- `data` \n    - `processed`  # Contains processed data\n    - `raw`      # Contains raw data\n        - `foodchoice_data`  # Contains raw data from food choice task\n- `output` # Contain all generated output\n- `report`\n    - `DataPaper-ReproducibilityWorkshop_files`   # Rendered files  \n    - `fig`   # paper figures\n- `LICENSE.md`\n- `CITATION.md`\n- `README.md`\n- `_quarto.yml`\n\nTo repeat the analyses, \n1. Open the RStudio Project file.\n2. Open and run analysis scripts (in order)\n\nGraphic output is saved to output/plots\nData output is saved to output/data\nAnalysis results are saved in the environment / printed to the console\nPaper output is saved to paper/output\npaper/bin contains external files/code necessary for the proper formatting of the R Markdown paper output. \n\n**Note:** The `renv` branch has the same content as the `main` branch with the addition of having [renv](https://rstudio.github.io/renv/articles/renv.html) enabled for better reproducibility.\n\nPlease see citation.md for instructions on how to cite this workshop.\n\nPlease see License.md for instructions on how to re-use this material. \n\nEnjoy!\n\nPS: For questions, please email ucsbcarpentry (@) ucsb.edu.\n\nContributors:\n\n* Renata Curty (rcurty)\n* Torin White (torwhite)\n* Ian Lessing (ilessing)\n* Greg Janee (gjanee)\n* Julien Brun (brunj7)\n* kristi Liu (kristi-sara)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcarpentries-incubator%2Fquarto-project-example","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fcarpentries-incubator%2Fquarto-project-example","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcarpentries-incubator%2Fquarto-project-example/lists"}