{"id":27111858,"url":"https://github.com/ctubbs750/cbs-db3-annotate","last_synced_at":"2026-05-02T06:36:29.275Z","repository":{"id":286505579,"uuid":"961600766","full_name":"ctubbs750/cbs-db3-annotate","owner":"ctubbs750","description":"Component in the cbs-db multi-repo designed to produce all CTCF Binding Site annotations included in the database.","archived":false,"fork":false,"pushed_at":"2025-04-06T21:14:04.000Z","size":305,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-04-09T22:02:37.192Z","etag":null,"topics":["annotation-tool","cbs-db3","ctcf-binding-sites","encode-ccres","python","shell-scripting","snakemake-pipeline"],"latest_commit_sha":null,"homepage":"","language":"Jupyter Notebook","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/ctubbs750.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":"2025-04-06T20:56:49.000Z","updated_at":"2025-04-06T21:14:07.000Z","dependencies_parsed_at":"2025-04-06T22:20:54.073Z","dependency_job_id":"b5a5acde-2a3f-487d-b752-41e07ae7297f","html_url":"https://github.com/ctubbs750/cbs-db3-annotate","commit_stats":null,"previous_names":["ctubbs750/cbs-db3-annotate"],"tags_count":0,"template":false,"template_full_name":"ctubbs750/snakemake-workflow-template","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ctubbs750%2Fcbs-db3-annotate","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ctubbs750%2Fcbs-db3-annotate/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ctubbs750%2Fcbs-db3-annotate/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/ctubbs750%2Fcbs-db3-annotate/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/ctubbs750","download_url":"https://codeload.github.com/ctubbs750/cbs-db3-annotate/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248119296,"owners_count":21050755,"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":["annotation-tool","cbs-db3","ctcf-binding-sites","encode-ccres","python","shell-scripting","snakemake-pipeline"],"created_at":"2025-04-07T01:25:04.531Z","updated_at":"2026-05-02T06:36:29.270Z","avatar_url":"https://github.com/ctubbs750.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# cbs-db3-annotate\n\n### Executing the pipeline\n\nTo execute the pipeline without HPC resources, execute the command:\n\n```snakemake --rerun-triggers mtime --use-conda --conda-prefix ~/snakemake_condas/ --use-conda --conda-prefix ~/snakemake_condas/ -c12 --rerun-incomplete -np```\n\n\nTo execute the pipeline with HPC resources, execute the command:\n```snakemake --rerun-triggers mtime --use-conda --conda-prefix ~/snakemake_condas/ --jobs 25 --cluster-config \"config/cluster.yaml\" --cluster \"sbatch --mem={resources.mem_mb} --time={resources.runtime} --cpus-per-task {threads} --output={cluster.output} --error={cluster.error} --account={cluster.account}\" -np```","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fctubbs750%2Fcbs-db3-annotate","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fctubbs750%2Fcbs-db3-annotate","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fctubbs750%2Fcbs-db3-annotate/lists"}