{"id":13774296,"url":"https://github.com/JXing-Lab/nanopore-sv-evaluation","last_synced_at":"2025-05-11T06:32:46.689Z","repository":{"id":202008227,"uuid":"187123521","full_name":"JXing-Lab/nanopore-sv-evaluation","owner":"JXing-Lab","description":"Repository for the paper \"Evaluating nanopore sequencing data processing pipelines for structure variation identification\"","archived":false,"fork":false,"pushed_at":"2019-10-04T19:11:10.000Z","size":49,"stargazers_count":5,"open_issues_count":0,"forks_count":2,"subscribers_count":2,"default_branch":"master","last_synced_at":"2024-02-15T09:36:22.082Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","language":"Shell","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/JXing-Lab.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}},"created_at":"2019-05-17T01:10:00.000Z","updated_at":"2023-12-25T10:14:15.000Z","dependencies_parsed_at":null,"dependency_job_id":"e1cb0122-2740-4f5e-bf0b-fb63c5608a17","html_url":"https://github.com/JXing-Lab/nanopore-sv-evaluation","commit_stats":null,"previous_names":["jxing-lab/nanopore-sv-evaluation"],"tags_count":2,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JXing-Lab%2Fnanopore-sv-evaluation","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JXing-Lab%2Fnanopore-sv-evaluation/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JXing-Lab%2Fnanopore-sv-evaluation/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/JXing-Lab%2Fnanopore-sv-evaluation/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/JXing-Lab","download_url":"https://codeload.github.com/JXing-Lab/nanopore-sv-evaluation/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":225022080,"owners_count":17408553,"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":[],"created_at":"2024-08-03T17:01:25.435Z","updated_at":"2024-11-17T09:30:43.086Z","avatar_url":"https://github.com/JXing-Lab.png","language":"Shell","funding_links":[],"categories":["Variant Callers"],"sub_categories":["SV callers"],"readme":"[![DOI](https://zenodo.org/badge/187123521.svg)](https://zenodo.org/badge/latestdoi/187123521)\n\n# nanopore-sv-evaluation\n\nThis is the code repository for the paper \"Evaluating nanopore sequencing data processing pipelines for structure variation identification\".\n\n- scripts/download.sh: code for downloading the online data\n\n- scripts/simulation.sh: code for genreating simulation datasets\n\n- scripts/workflow.sh: code for running the aligners and SV callers\n\n- scripts/integration.sh: code for consensus call set generation\n\n- scripts/comparison.md: code for call set and true set comparisons\n\n- scripts/coverage.sh: code for subsetting the reads and coverages analysis\n\n- scripts/ML/gen_label.sh: code for generating labels for the random forest classifier\n\n- scripts/ML/random_forest.py: code for the random forest classifier training, predicting, and evaluating\n\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FJXing-Lab%2Fnanopore-sv-evaluation","html_url":"https://awesome.ecosyste.ms/projects/github.com%2FJXing-Lab%2Fnanopore-sv-evaluation","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FJXing-Lab%2Fnanopore-sv-evaluation/lists"}