{"id":21134223,"url":"https://github.com/cometsong/mbiome_seqrun_qc","last_synced_at":"2026-05-21T10:07:24.769Z","repository":{"id":56482541,"uuid":"143462201","full_name":"cometsong/mbiome_seqrun_qc","owner":"cometsong","description":"List of sequencer runs; QC and run Info from each run, modular display of all existing (uploaded) types of info and statistics.","archived":false,"fork":false,"pushed_at":"2020-11-04T20:55:14.000Z","size":3118,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"devel","last_synced_at":"2025-03-14T12:44:27.958Z","etag":null,"topics":["16s","16s-rrna","flask","microbiome","mwgs","ngs-pipeline","python3","qc","sequencing"],"latest_commit_sha":null,"homepage":"","language":"Python","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/cometsong.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}},"created_at":"2018-08-03T18:47:46.000Z","updated_at":"2020-11-05T15:45:41.000Z","dependencies_parsed_at":"2022-08-15T19:31:40.439Z","dependency_job_id":null,"html_url":"https://github.com/cometsong/mbiome_seqrun_qc","commit_stats":null,"previous_names":[],"tags_count":34,"template":false,"template_full_name":null,"purl":"pkg:github/cometsong/mbiome_seqrun_qc","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cometsong%2Fmbiome_seqrun_qc","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cometsong%2Fmbiome_seqrun_qc/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cometsong%2Fmbiome_seqrun_qc/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cometsong%2Fmbiome_seqrun_qc/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/cometsong","download_url":"https://codeload.github.com/cometsong/mbiome_seqrun_qc/tar.gz/refs/heads/devel","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/cometsong%2Fmbiome_seqrun_qc/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":33297229,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-05-21T02:57:32.698Z","status":"ssl_error","status_checked_at":"2026-05-21T02:57:31.990Z","response_time":62,"last_error":"SSL_read: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":["16s","16s-rrna","flask","microbiome","mwgs","ngs-pipeline","python3","qc","sequencing"],"created_at":"2024-11-20T06:25:18.344Z","updated_at":"2026-05-21T10:07:24.752Z","avatar_url":"https://github.com/cometsong.png","language":"Python","funding_links":[],"categories":[],"sub_categories":[],"readme":"\u003ch2 align='center'\u003e\nNGS Sequencer Run QC\u003cbr/\u003e:microbe: :dna: :mag: :dart: :heavy_check_mark:\n\u003c/h2\u003e\n\n### Features \n\n - Shows list of all uploaded sequencer run \"names\".\n - Each run shows (downloadable) CSV files from sequencing core group.\n - If one CSV is present, basic details are parsed into JSON file and displayed\n      in table at top of page.\n - Modular display of other QC details, IFF they're uploaded to the run's folder.\n   - Link to list of FastQC results\n   - Analysis of FastQC results\n   - Distribution of reads graph image\n   - Comparison of sequence assemblies on 'positive control' samples\n   - Post-analysis read counts after each step in workflow, e.g. assembly, dechimera, ...\n\n---\n\n### Sequencer Run QC Screenshots\n\n\u003e **List of Run QC pages** \u003cbr/\u003e\n\u003e\u003cimg style='vertical-align:middle; position:relative; left:2em;' width=\"300\" \n  src=\"https://github.com/cometsong/mbiome_seqrun_qc/raw/docs/screenshots/run_qc-run_list.png\"\u003e\u003cbr/\u003e\n\u003e\n\u003e **Base Page of Sequencer Run** \u003cbr/\u003e\n\u003e\u003cimg style='vertical-align:middle; position:relative; left:2em;' width=\"300\" \n  src=\"https://github.com/cometsong/mbiome_seqrun_qc/raw/docs/screenshots/run_qc-run01.png\"\u003e\u003cbr/\u003e\n\u003e\n\u003e **Run QC page with Read Distributions** \u003cbr/\u003e\n\u003e\u003cimg style='vertical-align:middle; position:relative; left:2em;' width=\"300\" \n  src=\"https://github.com/cometsong/mbiome_seqrun_qc/raw/docs/screenshots/run_qc-run02-read_dist.png\"\u003e\u003cbr/\u003e\n\u003e\n\u003e **Run QC page with 16S Read Counts** \u003cbr/\u003e\n\u003e\u003cimg style='vertical-align:middle; position:relative; left:2em;' width=\"300\"\n  src=\"https://github.com/cometsong/mbiome_seqrun_qc/raw/docs/screenshots/run_qc-run03-read_counts.png\"\u003e\u003cbr/\u003e\n\u003e\n\u003e **Run QC page with Control Assembly Comparison** \u003cbr/\u003e\n\u003e\u003cimg style='vertical-align:middle; position:relative; left:2em;' width=\"300\" \n  src=\"https://github.com/cometsong/mbiome_seqrun_qc/raw/docs/screenshots/run_qc-run04-pos-ctrl.png\"\u003e\u003cbr/\u003e\n\n---\n\n## Resources\n\n - [Issue Tracker](https://github.com/cometsong/mbiome_seqrun_qc/issues)\n - [Code](https://github.com/cometsong/mbiome_seqrun_qc)\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcometsong%2Fmbiome_seqrun_qc","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fcometsong%2Fmbiome_seqrun_qc","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcometsong%2Fmbiome_seqrun_qc/lists"}