{"id":43566,"name":"bactmap","description":"A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences","url":"https://github.com/nf-core/bactmap","last_synced_at":"2025-09-05T09:53:04.762Z","repository":{"id":40294771,"uuid":"190996619","full_name":"nf-core/bactmap","owner":"nf-core","description":"A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences","archived":false,"fork":false,"pushed_at":"2025-06-03T11:01:29.000Z","size":76701,"stargazers_count":55,"open_issues_count":6,"forks_count":51,"subscribers_count":158,"default_branch":"master","last_synced_at":"2025-06-03T21:28:12.778Z","etag":null,"topics":["bacteria","bacterial","bacterial-genome-analysis","genomics","mapping","nextflow","nf-core","phylogeny","pipeline","tree","workflow"],"latest_commit_sha":null,"homepage":"https://nf-co.re/bactmap","language":"Nextflow","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/nf-core.png","metadata":{"files":{"readme":"README.md","changelog":"CHANGELOG.md","contributing":".github/CONTRIBUTING.md","funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","threat_model":null,"audit":null,"citation":"CITATIONS.md","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2019-06-09T11:11:37.000Z","updated_at":"2025-04-19T17:05:38.000Z","dependencies_parsed_at":"2023-09-23T11:14:18.904Z","dependency_job_id":"81e31f91-3c6e-4920-92b5-3282bbb92634","html_url":"https://github.com/nf-core/bactmap","commit_stats":{"total_commits":225,"total_committers":8,"mean_commits":28.125,"dds":0.3155555555555556,"last_synced_commit":"e83f8c5f0e7020d69649d5d2ad19f79e9b2302b7"},"previous_names":[],"tags_count":3,"template":false,"template_full_name":null,"purl":"pkg:github/nf-core/bactmap","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/nf-core","download_url":"https://codeload.github.com/nf-core/bactmap/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273740853,"owners_count":25159434,"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","status":"online","status_checked_at":"2025-09-05T02:00:09.113Z","response_time":402,"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"}},"owner":{"login":"nf-core","name":"nf-core","uuid":"35520196","kind":"organization","description":"A community effort to collect a curated set of analysis pipelines built using Nextflow.","email":"core@nf-co.re","website":"http://nf-co.re","location":null,"twitter":"nf_core","company":null,"icon_url":"https://avatars.githubusercontent.com/u/35520196?v=4","repositories_count":84,"last_synced_at":"2023-03-01T20:50:19.252Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/nf-core","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-12T16:29:01.932Z","updated_at":"2023-03-01T20:50:19.281Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/nf-core","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/nf-core/repositories"},"packages":[],"commits":{"id":1317721,"full_name":"nf-core/bactmap","default_branch":"master","committers":[{"name":"Anthony Underwood","email":"au3@sanger.ac.uk","login":null,"count":154},{"name":"Harshil Patel","email":"drpatelhh@gmail.com","login":null,"count":32},{"name":"avantonder","email":"avt@sanger.ac.uk","login":null,"count":20},{"name":"Alexandre Gilardet","email":"alexandre.gilardet@crick.ac.uk","login":null,"count":6},{"name":"thanhleviet","email":"thanh.le-viet@quadram.ac.uk","login":null,"count":5},{"name":"Phil Ewels","email":"phil.ewels@scilifelab.se","login":null,"count":3},{"name":"alexandregilardet","email":"63741852+alexandregilardet","login":"alexandregilardet","count":3},{"name":"Harshil Patel","email":"drpatelh","login":"drpatelh","count":2}],"total_commits":225,"total_committers":8,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":28.125,"dds":0.3155555555555556,"past_year_committers":[],"past_year_total_commits":0,"past_year_total_committers":0,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":0.0,"past_year_dds":0.0,"last_synced_at":"2024-08-06T15:23:41.451Z","last_synced_commit":"e83f8c5f0e7020d69649d5d2ad19f79e9b2302b7","created_at":"2023-06-15T18:12:50.197Z","updated_at":"2024-08-06T15:23:41.452Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-05T00:00:10.343Z","repositories_count":5480019,"commits_count":853389012,"contributors_count":31098138,"owners_count":906558,"icon_url":"https://github.com/github.png","host_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories"}},"issues_stats":{"full_name":"nf-core/bactmap","html_url":"https://github.com/nf-core/bactmap","last_synced_at":"2025-08-31T16:03:25.328Z","status":null,"issues_count":66,"pull_requests_count":76,"avg_time_to_close_issue":20117374.508196723,"avg_time_to_close_pull_request":2542810.0144927534,"issues_closed_count":61,"pull_requests_closed_count":69,"pull_request_authors_count":19,"issue_authors_count":12,"avg_comments_per_issue":0.5606060606060606,"avg_comments_per_pull_request":0.7894736842105263,"merged_pull_requests_count":37,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":41,"past_year_pull_requests_count":30,"past_year_avg_time_to_close_issue":829900.5,"past_year_avg_time_to_close_pull_request":226259.20833333334,"past_year_issues_closed_count":36,"past_year_pull_requests_closed_count":24,"past_year_pull_request_authors_count":12,"past_year_issue_authors_count":4,"past_year_avg_comments_per_issue":0.5609756097560976,"past_year_avg_comments_per_pull_request":0.26666666666666666,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":19,"created_at":"2023-06-15T18:13:11.833Z","updated_at":"2025-09-01T13:48:58.664Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/nf-core%2Fbactmap/issues","issue_labels_count":{"enhancement":39,"good first issue":21,"dsl2":9,"bug":3},"pull_request_labels_count":{},"issue_author_associations_count":{"CONTRIBUTOR":38,"COLLABORATOR":18,"NONE":8,"MEMBER":2},"pull_request_author_associations_count":{"MEMBER":33,"NONE":24,"CONTRIBUTOR":13,"COLLABORATOR":11},"issue_authors":{"avantonder":37,"antunderwood":18,"ikhanganin":2,"craigwindell":1,"jennahamlin":1,"JavariaAshraf":1,"maxulysse":1,"thanhleviet":1,"jen-reeve":1,"MostafaYA":1,"apeltzer":1,"creamerk":1},"pull_request_authors":{"nf-core-bot":30,"antunderwood":11,"avantonder":7,"project-defiant":5,"thanhleviet":3,"sgsutcliffe":3,"MareikeJaniak":3,"sainsachiko":3,"alexandregilardet":3,"drpatelh":2,"QuadjoLegend":2,"opetryk":2,"surangij":1,"adamd3":1,"CASTANYMIQUEL":1,"IsmaelHC1994":1,"CLAUDINLEO":1,"maxulysse":1,"KevinMenden":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-04T00:00:25.939Z","repositories_count":10073071,"issues_count":31246289,"pull_requests_count":95565944,"authors_count":10690374,"icon_url":"https://github.com/github.png","host_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories","owners_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/owners","authors_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors"},"past_year_issue_labels_count":{"enhancement":35,"good first issue":21,"bug":1},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"CONTRIBUTOR":37,"NONE":4},"past_year_pull_request_author_associations_count":{"NONE":22,"CONTRIBUTOR":6,"MEMBER":2},"past_year_issue_authors":{"avantonder":37,"ikhanganin":2,"JavariaAshraf":1,"jen-reeve":1},"past_year_pull_request_authors":{"avantonder":6,"project-defiant":5,"sgsutcliffe":3,"MareikeJaniak":3,"sainsachiko":3,"opetryk":2,"nf-core-bot":2,"QuadjoLegend":2,"surangij":1,"CLAUDINLEO":1,"CASTANYMIQUEL":1,"IsmaelHC1994":1},"maintainers":[{"login":"nf-core-bot","count":30,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/nf-core-bot"},{"login":"antunderwood","count":29,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/antunderwood"},{"login":"drpatelh","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/drpatelh"},{"login":"maxulysse","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/maxulysse"},{"login":"apeltzer","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/apeltzer"}],"active_maintainers":[{"login":"nf-core-bot","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/nf-core-bot"}]},"events":{"total":{"IssuesEvent":84,"WatchEvent":2,"DeleteEvent":26,"IssueCommentEvent":35,"PushEvent":25,"PullRequestReviewCommentEvent":21,"PullRequestReviewEvent":38,"PullRequestEvent":60,"ForkEvent":27,"CreateEvent":10},"last_year":{"IssuesEvent":84,"WatchEvent":2,"DeleteEvent":26,"IssueCommentEvent":35,"PushEvent":25,"PullRequestReviewCommentEvent":21,"PullRequestReviewEvent":38,"PullRequestEvent":60,"ForkEvent":27,"CreateEvent":10}},"keywords":["bacteria","bacterial","bacterial-genome-analysis","genomics","mapping","nextflow","nf-core","phylogeny","pipeline","tree","workflow"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/awsfulltest.yml","sha":null,"kind":"manifest","created_at":"2023-01-29T21:20:30.345Z","updated_at":"2023-01-29T21:20:30.345Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/.github/workflows/awsfulltest.yml","dependencies":[{"id":7232070386,"package_name":"conda-incubator/setup-miniconda","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/awstest.yml","sha":null,"kind":"manifest","created_at":"2023-01-29T21:20:30.357Z","updated_at":"2023-01-29T21:20:30.357Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/.github/workflows/awstest.yml","dependencies":[{"id":7232070387,"package_name":"conda-incubator/setup-miniconda","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/branch.yml","sha":null,"kind":"manifest","created_at":"2023-01-29T21:20:30.378Z","updated_at":"2023-01-29T21:20:30.378Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/.github/workflows/branch.yml","dependencies":[{"id":7232070388,"package_name":"mshick/add-pr-comment","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/ci.yml","sha":null,"kind":"manifest","created_at":"2023-01-29T21:20:30.389Z","updated_at":"2023-01-29T21:20:30.389Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/.github/workflows/ci.yml","dependencies":[{"id":7232070389,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/linting.yml","sha":null,"kind":"manifest","created_at":"2023-01-29T21:20:30.394Z","updated_at":"2023-01-29T21:20:30.394Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/.github/workflows/linting.yml","dependencies":[{"id":7232070390,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7232070391,"package_name":"actions/setup-node","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7232070392,"package_name":"mshick/add-pr-comment","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7232070393,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7232070394,"package_name":"actions/setup-python","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7232070395,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/linting_comment.yml","sha":null,"kind":"manifest","created_at":"2023-01-29T21:20:30.400Z","updated_at":"2023-01-29T21:20:30.400Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/.github/workflows/linting_comment.yml","dependencies":[{"id":7232070396,"package_name":"dawidd6/action-download-artifact","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7232070397,"package_name":"marocchino/sticky-pull-request-comment","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/bcftools/filter/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.356Z","updated_at":"2023-09-23T11:14:18.356Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/bcftools/filter/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/bcftools/mpileup/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.545Z","updated_at":"2023-09-23T11:14:18.545Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/bcftools/mpileup/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/bwa/index/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.574Z","updated_at":"2023-09-23T11:14:18.574Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/bwa/index/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/bwa/mem/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.582Z","updated_at":"2023-09-23T11:14:18.582Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/bwa/mem/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/fastp/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.596Z","updated_at":"2023-09-23T11:14:18.596Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/fastp/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/fastqc/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.607Z","updated_at":"2023-09-23T11:14:18.607Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/fastqc/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/fasttree/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.616Z","updated_at":"2023-09-23T11:14:18.616Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/fasttree/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/gubbins/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.629Z","updated_at":"2023-09-23T11:14:18.629Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/gubbins/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/iqtree/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.637Z","updated_at":"2023-09-23T11:14:18.637Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/iqtree/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/mash/sketch/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.644Z","updated_at":"2023-09-23T11:14:18.644Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/mash/sketch/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/multiqc/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.648Z","updated_at":"2023-09-23T11:14:18.648Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/multiqc/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/rapidnj/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.709Z","updated_at":"2023-09-23T11:14:18.709Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/rapidnj/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/rasusa/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.736Z","updated_at":"2023-09-23T11:14:18.736Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/rasusa/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/raxmlng/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.748Z","updated_at":"2023-09-23T11:14:18.748Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/raxmlng/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/samtools/flagstat/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.771Z","updated_at":"2023-09-23T11:14:18.771Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/samtools/flagstat/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/samtools/idxstats/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.791Z","updated_at":"2023-09-23T11:14:18.791Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/samtools/idxstats/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/samtools/index/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.809Z","updated_at":"2023-09-23T11:14:18.809Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/samtools/index/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/samtools/sort/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.838Z","updated_at":"2023-09-23T11:14:18.838Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/samtools/sort/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/samtools/stats/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.852Z","updated_at":"2023-09-23T11:14:18.852Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/samtools/stats/meta.yml","dependencies":[]},{"ecosystem":"cpan","filepath":"modules/nf-core/software/snpsites/meta.yml","sha":null,"kind":"manifest","created_at":"2023-09-23T11:14:18.873Z","updated_at":"2023-09-23T11:14:18.873Z","repository_link":"https://github.com/nf-core/bactmap/blob/master/modules/nf-core/software/snpsites/meta.yml","dependencies":[]}],"score":6.190315405853147,"created_at":"2025-09-04T15:51:18.677Z","updated_at":"2025-10-07T08:17:38.560Z","avatar_url":"https://github.com/nf-core.png","language":"Nextflow","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.5281/zenodo.4743799","https://doi.org/10.5281/zenodo.XXXXXX","https://dx.doi.org/10.1038/s41587-020-0439-x"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["pipelines","workflows","dsl2","nf-test","bioinformatics","metagenomics","synapse","sra","geo","fastq"],"project_url":"https://science.ecosyste.ms/api/v1/projects/43566","html_url":"https://science.ecosyste.ms/projects/43566","bibtex_url":"https://science.ecosyste.ms/projects/43566/export.bibtex","apalike_url":"https://science.ecosyste.ms/projects/43566/export.apalike"}