{"id":34514631,"url":"https://github.com/waldronlab/ncbitaxon","last_synced_at":"2026-05-28T03:31:32.810Z","repository":{"id":254004117,"uuid":"845194351","full_name":"waldronlab/ncbitaxon","owner":"waldronlab","description":"Hosting the NCBI taxnomy","archived":false,"fork":false,"pushed_at":"2024-08-21T15:11:13.000Z","size":8,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":5,"default_branch":"devel","last_synced_at":"2024-09-05T15:59:22.025Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","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/waldronlab.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":"2024-08-20T19:11:08.000Z","updated_at":"2024-08-21T23:15:51.000Z","dependencies_parsed_at":"2024-08-20T21:38:01.613Z","dependency_job_id":null,"html_url":"https://github.com/waldronlab/ncbitaxon","commit_stats":null,"previous_names":["waldronlab/ncbitaxon"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/waldronlab/ncbitaxon","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/waldronlab%2Fncbitaxon","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/waldronlab%2Fncbitaxon/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/waldronlab%2Fncbitaxon/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/waldronlab%2Fncbitaxon/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/waldronlab","download_url":"https://codeload.github.com/waldronlab/ncbitaxon/tar.gz/refs/heads/devel","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/waldronlab%2Fncbitaxon/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":33593400,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-05-26T15:22:16.424Z","status":"online","status_checked_at":"2026-05-28T02:00:06.440Z","response_time":99,"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":[],"created_at":"2025-12-24T04:19:39.827Z","updated_at":"2026-05-28T03:31:32.805Z","avatar_url":"https://github.com/waldronlab.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# NCBI ontology\n\nThis repo contains the NCBI ontology.\n\nThis resource was created because a vignette in the waldronlab/BugSigDBStats repo needed to be run with a GHA. However, there were some memory-related issues when generating the ontology object in R. Documented [here](https://github.com/waldronlab/BugSigDBStats/blob/cded25c9f59ac0a01f5b8442060931070c546773/inst/scripts/semsim.Rmd#L26-L50). To circumvent this, the R object is created and hosted in this repo.\n\nThis data is used by the BugSigDBStats::getNcbiTaxonomyObo function and this function\nwas used for the BugSigDB paper [Figure 2](https://github.com/waldronlab/BugSigDBPaper/blob/3b4c917ebeafe2b02a0fa689cfea5ca03a534b6c/vignettes/Figure2.Rmd#L88-L92).\n\nThe onto.R file contains the code used to generate the data (R object).\n\n## Information about the original source\n\n[NCBI Organismal Classification](https://obofoundry.org/ontology/ncbitaxon.html)\n\n[Build for NCBITaxon Ontology](https://github.com/obophenotype/ncbitaxon)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fwaldronlab%2Fncbitaxon","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fwaldronlab%2Fncbitaxon","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fwaldronlab%2Fncbitaxon/lists"}