{"id":27809392,"url":"https://github.com/datasnakes/beRi","last_synced_at":"2025-05-01T11:01:43.038Z","repository":{"id":71022325,"uuid":"130276344","full_name":"datasnakes/beRi","owner":"datasnakes","description":"beRi \"beri environments for R installations\" is an R environment, R installation, and R package management system for R","archived":false,"fork":false,"pushed_at":"2019-10-28T23:09:56.000Z","size":47,"stargazers_count":14,"open_issues_count":8,"forks_count":0,"subscribers_count":5,"default_branch":"master","last_synced_at":"2025-04-15T07:08:38.933Z","etag":null,"topics":["biohackathon","cli","environment","hackathon","hackseq18","package-management","package-manager","python3","r"],"latest_commit_sha":null,"homepage":"https://datasnakes.github.io/get-beri/","language":"Python","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/datasnakes.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","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}},"created_at":"2018-04-19T21:51:25.000Z","updated_at":"2023-01-27T18:20:51.000Z","dependencies_parsed_at":"2023-05-20T18:34:14.836Z","dependency_job_id":null,"html_url":"https://github.com/datasnakes/beRi","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/datasnakes%2FbeRi","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/datasnakes%2FbeRi/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/datasnakes%2FbeRi/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/datasnakes%2FbeRi/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/datasnakes","download_url":"https://codeload.github.com/datasnakes/beRi/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":251864141,"owners_count":21656289,"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","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":["biohackathon","cli","environment","hackathon","hackseq18","package-management","package-manager","python3","r"],"created_at":"2025-05-01T11:00:48.085Z","updated_at":"2025-05-01T11:01:43.018Z","avatar_url":"https://github.com/datasnakes.png","language":"Python","funding_links":[],"categories":["Uncategorized"],"sub_categories":["Uncategorized"],"readme":"\u003cp align=\"center\"\u003e\u003ca href=\"https://www.datasnakes.org/get-beri/\"\u003e\u003cimg src=\"https://user-images.githubusercontent.com/20953530/43921054-48163858-9be0-11e8-8ddb-385e1cd9c056.jpg\" width=450\u003e\u003c/a\u003e\u003c/p\u003e\n\n\u003cp align=\"center\"\u003e\u003ci\u003eAre you a  bioinformatician who desires to manage R environments, install R, and install R packages using the command-line? Help develop \u003ca href=\"https://github.com/datasnakes/beRi\"\u003ebeRi\u003c/a\u003e!\u003c/i\u003e\u003c/p\u003e\n\n# beRi  [![Gitter chat](https://badges.gitter.im/CRANbeRi/Lobby.svg)](https://gitter.im/CRANbeRi/Lobby)\n\nbeRi \"beri environments for R installations\" is an R environment, R installation, and R package management system for R. \n\nThe project was initially conceptualized by [Robert Gilmore](https://github.com/grabear). Gilmore proposed the project to [hackseq18](https://www.hackseq.com/) where it was developed over 3 days by a great team of [developers](#hackseq18-team-members). It ultimately went on to win hackseq18.\n\n\u003cp align=\"center\"\u003e\u003ca href=\"https://twitter.com/hackseq/status/1051628032228655104\"\u003e\u003cimg src=\"https://i.imgur.com/tkZEmS8.png\" width=450\u003e\u003c/a\u003e\u003c/p\u003e\n\u003cbr\u003e\n\u003cp align=\"center\"\u003e\u003ca href=\"https://hackseq.github.io/hs18/2018/08/12/README.txt.html\"\u003e\u003cimg src=\"https://i.imgur.com/B9WCmSh.png\" width=450\u003e\u003c/a\u003e\u003c/p\u003e\n\n\n## What is beRi?\n\nbeRi is a suite of Python packages composed of the following components: (1) [renv](https://github.com/datasnakes/renv), a virtual environment manager for R; [rinse](https://github.com/datasnakes/rinse), an R installation and R version manager; and (3) [rut](https://github.com/datasnakes/rut), an R utility tool for installing packages, managing native R configuration files, and setting up local CRAN-like repositories. These packages will be developed in separate repositories as standalone command-line interfaces (CLIs). [beRi](https://github.com/datasnakes/beRi) will also be developed in a separate repository but will depend on the other three packages.\n\n## Why beRi?\n\nView our [isc proposal](https://github.com/datasnakes/beri-isc-proposal) to the R Consortium for beRi and learn more about why beRi is needed and how we plan to integrate it.\n\n## Dependencies\n\n*  R - [remotes](https://github.com/r-lib/remotes), [packrat](https://github.com/rstudio/packrat), [jetpack](https://github.com/datasnakes/jetpack), [checkpoint](https://github.com/RevolutionAnalytics/checkpoint)\n   \n* Python (3.6) - [click](https://github.com/pallets/click), [poetry](https://github.com/sdispater/poetry), [PyYaml](http://pyyaml.org/wiki/PyYAMLDocumentation)\n\n## hackseq18 team members\n\n* [Robert Gilmore](https://github.com/grabear) · **hackseq18 Team Lead \u0026 Project Manager**\n* [Kristen Bystrom](https://github.com/ksbystrom)\n* [Bruno Grande](https://github.com/scientificbruno) · **Lead Maintainer**\n* [Shaurita Hutchins](https://github.com/sdhutchins) · **Lead Maintainer**\n* [Michelle Lee](https://github.com/bitttyyyy)\n* [Santina Lin](https://github.com/santina) · **Lead Maintainer**\n* [Zhi Yuh Ou Yang](https://github.com/ZhiYuh)\n* [Hamid Younesy](https://github.com/hyounesy)\n\n## References\n\nIn order to create something valuable to the R community including RStudio and rOpenSci, it is critical that we develop something that has credibility and creates reproducible environments. Below are some useful links and packages that have acted as a guide for helping to create this package:\n\n  * https://cran.r-project.org/web/packages/startup/vignettes/startup-intro.html\n  * https://www.osc.edu/resources/getting_started/howto/howto_install_local_r_packages\n  * https://csgillespie.github.io/efficientR/r-startup.html\n  * https://www.r-bloggers.com/how-to-pimp-your-rprofile/\n  * https://github.com/HenrikBengtsson/startup\n  * https://github.com/jdblischak/workflowr\n  * https://rstudio.github.io/reticulate/\n  * https://rpy2.github.io/doc/latest/html/index.html\n  * https://github.com/talgalili/installr\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdatasnakes%2FbeRi","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdatasnakes%2FbeRi","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdatasnakes%2FbeRi/lists"}