{"id":17099076,"url":"https://github.com/dhimmel/het.io-dag-rcode","last_synced_at":"2025-03-23T18:12:54.453Z","repository":{"id":82487635,"uuid":"294411492","full_name":"dhimmel/het.io-dag-rcode","owner":"dhimmel","description":"R Code for Hetio Disease-Gene Prediction Study (PLOS Comp Bio, 2015)","archived":false,"fork":false,"pushed_at":"2020-09-10T14:06:33.000Z","size":210,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-01-28T23:50:07.617Z","etag":null,"topics":["hetio","hetio-dag","hetnets","plos-computational-biology"],"latest_commit_sha":null,"homepage":"https://doi.org/10.1371/journal.pcbi.1004259","language":"R","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/dhimmel.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}},"created_at":"2020-09-10T13:03:16.000Z","updated_at":"2020-09-10T14:06:36.000Z","dependencies_parsed_at":null,"dependency_job_id":"fa4c8eed-064b-4137-bb32-1a5b1d9c2c24","html_url":"https://github.com/dhimmel/het.io-dag-rcode","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/dhimmel%2Fhet.io-dag-rcode","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fhet.io-dag-rcode/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fhet.io-dag-rcode/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/dhimmel%2Fhet.io-dag-rcode/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/dhimmel","download_url":"https://codeload.github.com/dhimmel/het.io-dag-rcode/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":245144972,"owners_count":20568056,"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":["hetio","hetio-dag","hetnets","plos-computational-biology"],"created_at":"2024-10-14T15:08:56.426Z","updated_at":"2025-03-23T18:12:54.431Z","avatar_url":"https://github.com/dhimmel.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# R Code for Hetio Disease-Gene Prediction Study\n\nThis repository contains R code for the study:\n\n\u003e **Heterogeneous Network Edge Prediction: A Data Integration Approach to Prioritize Disease-Associated Genes**  \nDaniel S. Himmelstein, Sergio E. Baranzini  \n*PLOS Computational Biology* (2015-07-09) \u003chttps://doi.org/98q\u003e  \nDOI: [10.1371/journal.pcbi.1004259](https://doi.org/10.1371/journal.pcbi.1004259) · PMID: [26158728](https://www.ncbi.nlm.nih.gov/pubmed/26158728) · PMCID: [PMC4497619](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4497619)\n\n## Other resources\n\nDatasets related to this study are available at \u003chttps://github.com/dhimmel/het.io-dag-data\u003e.\nPredictions from this study can be viewed at \u003chttps://het.io/disease-genes/\u003e.\nPython code related to this study is available at \u003chttps://github.com/dhimmel/het.io-dag-pycode\u003e.\n\n## Documentation\n\nThis repository is provided for historical and archiving purposing.\nThere is not much documentation on how to use the code.\nWe are happy address specific questions via GitHub Issues.\n\n## History\n\nThis repository originally used mercurial and was hosted on BitBucket at `https://bitbucket.org/dhimmel/rhetio`.\nUnfortunately, BitBucket [deleted](https://community.atlassian.com/t5/Bitbucket-articles/What-to-do-with-your-Mercurial-repos-when-Bitbucket-sunsets/ba-p/1155380) mercurial repos in 2020 without an automated migration path.\nOn 2020-09-10, dhimmel realized this source code was no longer online.\n\nThe repo could not be retrieved from BitBucket, but dhimmel had a local copy.\nThe local copy matched the version archived by [Software Heritage](https://archive.softwareheritage.org/swh:1:dir:ba7e1b33e1a615b2d8e42b179e82568166e463c4;origin=https://bitbucket.org/dhimmel/rhetio;visit=swh:1:snp:1a4eadb899ff36036b41d3112cff08d7e2d3fabb;anchor=swh:1:rev:314c83bdf3012973d526fd02faa2e9bd3d1b261c;path=//).\nUsing the [hg-git](https://hg-git.github.io/) mercurial plugin, dhimmel pushed the repo to \u003chttps://github.com/dhimmel/het.io-dag-rcode\u003e.\n\nThe local repo was dirty, so dhimmel [committed](https://github.com/dhimmel/het.io-dag-rcode/commit/952bd5ccc0aebff3f4ca887babfe4404f15af8bd) and [reverted](https://github.com/dhimmel/het.io-dag-rcode/commit/e1b05928a4e7fbc5ac63abbc551b28d33075752f) those changes.\nGoing forward the plan is to switch to using git to manage this repository.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdhimmel%2Fhet.io-dag-rcode","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fdhimmel%2Fhet.io-dag-rcode","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fdhimmel%2Fhet.io-dag-rcode/lists"}