{"id":18256421,"url":"https://github.com/baderlab/sc_variant_profiler","last_synced_at":"2025-10-14T07:41:25.434Z","repository":{"id":146738835,"uuid":"343565232","full_name":"BaderLab/sc_variant_profiler","owner":"BaderLab","description":"A variant calling pipeline for single-cell RNAseq data","archived":false,"fork":false,"pushed_at":"2021-03-01T21:53:36.000Z","size":16,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":4,"default_branch":"main","last_synced_at":"2025-02-14T17:42:38.447Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"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/BaderLab.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}},"created_at":"2021-03-01T21:42:17.000Z","updated_at":"2021-03-01T21:53:38.000Z","dependencies_parsed_at":null,"dependency_job_id":"f0c5cd50-37ae-49fa-9584-db47d54be138","html_url":"https://github.com/BaderLab/sc_variant_profiler","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/BaderLab%2Fsc_variant_profiler","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BaderLab%2Fsc_variant_profiler/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BaderLab%2Fsc_variant_profiler/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/BaderLab%2Fsc_variant_profiler/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/BaderLab","download_url":"https://codeload.github.com/BaderLab/sc_variant_profiler/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":247937420,"owners_count":21021252,"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":"2024-11-05T10:21:49.783Z","updated_at":"2025-10-14T07:41:20.381Z","avatar_url":"https://github.com/BaderLab.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"## sc_variant_profiler\nA variant calling pipeline for single-cell RNAseq data\n\nto split your main BAM file to single cell BAM files use:\n```bash\npython split_bam_to_cells.py\n```\n\nto use the pipeline in python environment run:\n\n```bash\npython main.py -h\n```\n\n### in order to run the pipeline in scinet hpc check out the bash files:\n\n```bash\n Variant_calling_bash_script.sh\n \n batch_Script_for_scinet.sh\n ```\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbaderlab%2Fsc_variant_profiler","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbaderlab%2Fsc_variant_profiler","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbaderlab%2Fsc_variant_profiler/lists"}