{"id":46160843,"url":"https://github.com/fhdsl/sota2024_reportout","last_synced_at":"2026-03-02T11:01:12.157Z","repository":{"id":320224344,"uuid":"1073297672","full_name":"fhdsl/SOTA2024_ReportOut","owner":"fhdsl","description":"Materials associated with the Report Out for the State of the AnVIL 2024","archived":false,"fork":false,"pushed_at":"2025-11-14T16:35:31.000Z","size":15180,"stargazers_count":0,"open_issues_count":1,"forks_count":0,"subscribers_count":0,"default_branch":"main","last_synced_at":"2025-11-14T18:24:51.625Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"HTML","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/fhdsl.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null,"notice":null,"maintainers":null,"copyright":null,"agents":null,"dco":null,"cla":null}},"created_at":"2025-10-09T22:47:37.000Z","updated_at":"2025-11-14T16:35:35.000Z","dependencies_parsed_at":"2025-10-22T17:44:30.733Z","dependency_job_id":null,"html_url":"https://github.com/fhdsl/SOTA2024_ReportOut","commit_stats":null,"previous_names":["fhdsl/sota2024_reportout"],"tags_count":1,"template":false,"template_full_name":null,"purl":"pkg:github/fhdsl/SOTA2024_ReportOut","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fhdsl%2FSOTA2024_ReportOut","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fhdsl%2FSOTA2024_ReportOut/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fhdsl%2FSOTA2024_ReportOut/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fhdsl%2FSOTA2024_ReportOut/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/fhdsl","download_url":"https://codeload.github.com/fhdsl/SOTA2024_ReportOut/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fhdsl%2FSOTA2024_ReportOut/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":29999216,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-03-02T09:59:02.300Z","status":"ssl_error","status_checked_at":"2026-03-02T09:59:02.001Z","response_time":60,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":[],"created_at":"2026-03-02T11:01:06.769Z","updated_at":"2026-03-02T11:01:12.091Z","avatar_url":"https://github.com/fhdsl.png","language":"HTML","funding_links":[],"categories":[],"sub_categories":[],"readme":"# SOTA2024_ReportOut\n\n[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.17611423.svg)](https://doi.org/10.5281/zenodo.17611423)\n\nThis repository contains all of the code to reproduce the analysis done for the State of the AnVIL 2024 Poll.\n\n## Directory Structure:\n\n### data\n\nRaw data for this project is in a password protected, controlled access shared Google Drive because it contains some identifying information. This data is processed and de-identified and made available within the `wrangled_data` subdirectory.\n\n#### annotations\n\nThese are codebook files created by the analysts explaining the columns in the raw data as well as possible values and dictionaries to categorize certain columns (e.g., institution).\n\n* `codebook.txt`: codebook relating to raw data\n* `controlledAccessData_codebook.txt`: Controlled access data mentioned in the poll as well as whether AnVIL hosts it.\n* `institution_codebook.txt`: institutions and simplified categorization\n\n#### wrangled_data\n\n* `resultsTidy.rds`: wrangled data saved from `1_TidyData.Rmd` (with identifying information of email and raw institutional affiliation removed)\n* `resultsTidy_personas.rds`: wrangled data saved from `2_PersonaStats.Rmd`\n\n### analyses\n\n* `1_TidyData.Rmd`: Fetching of Raw Data and wrangling steps for later analysis to create a de-identified tidy data file.\n* `2_PersonaStats.Rmd`: Identification of personas and joining of persona categorization with tidy data.\n* `3_MainAnalysis.Rmd`: Main analysis and plotting driver\n* `4_Stats.Rmd`: Code to support all stated stats/general observations in the report out that aren't directly observed from plots/figures. Description of format for this:\n    * Chronological order of statements and sections aligning with layout of the preprint\n    * For each section, if there's a table that is used to support multiple statements, table is constructed within an expandable details section prior to any direct statements from the preprint\n    * For each statement, there's a section separator and the specific statement, followed by an expandable details section with code to show the support for the statement.\n* `5_PCA.Rmd`: Performs PCA analysis for all respondents after subsetting and wrangling the data\n\n### reports\n\nThis directory contains corresponding knit HTML files for each of the R Markdown files in the `analyses` directory and the figure creation R Markdown in the `figures` directory.  \n\n### resources\n\n* `scripts/shared_functions.R`: some functions used repeatedly in analysis or for plotting\n* `plots/`: plots from the main analysis saved as png files\n* `supplemental_material/`: Includes the complete poll, supplementary Table 1 (relation of study aims and poll questions), and supplementary Table 2 (raw responses translated to awareness and use)\n\n### figures\n\n* `figureCreation.Rmd`: Uses `patchwork` to combine plots from `3_MainAnalysis.Rmd`to make figure panels and adjusts aesthetics as necessary.\n* The figure panels themselves are saved as png files within this directory as well\n\n## Other notes:\n\n* Preprint information\n* A poster presented at the AnVIL Community Conference 2025\n* A companion website information\n* AnVIL Collection and other outreach information\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffhdsl%2Fsota2024_reportout","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Ffhdsl%2Fsota2024_reportout","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Ffhdsl%2Fsota2024_reportout/lists"}