{"id":62089,"name":"ideal","description":"Interactive Differential Expression AnaLysis - DE made accessible and reproducible","url":"https://github.com/federicomarini/ideal","last_synced_at":"2025-09-08T12:37:48.601Z","repository":{"id":46664892,"uuid":"85059190","full_name":"federicomarini/ideal","owner":"federicomarini","description":"Interactive Differential Expression AnaLysis - DE made accessible and reproducible","archived":false,"fork":false,"pushed_at":"2025-05-02T07:11:09.000Z","size":27539,"stargazers_count":29,"open_issues_count":5,"forks_count":7,"subscribers_count":3,"default_branch":"devel","last_synced_at":"2025-05-26T03:10:49.922Z","etag":null,"topics":["bioconductor","differential-expression","r","reproducible-research","rna-seq","rna-seq-analysis","shiny","user-friendly"],"latest_commit_sha":null,"homepage":"https://federicomarini.github.io/ideal/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/federicomarini.png","metadata":{"files":{"readme":"README.md","changelog":"NEWS.md","contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","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,"zenodo":null}},"created_at":"2017-03-15T10:25:39.000Z","updated_at":"2025-05-02T07:00:37.000Z","dependencies_parsed_at":"2024-05-02T15:43:32.537Z","dependency_job_id":"4bdbd661-cc53-455d-b17a-a90c7817a2bf","html_url":"https://github.com/federicomarini/ideal","commit_stats":{"total_commits":448,"total_committers":11,"mean_commits":40.72727272727273,"dds":0.0691964285714286,"last_synced_commit":"e91e570dcf1b7d457fc498559296bf637fcaa082"},"previous_names":[],"tags_count":2,"template":false,"template_full_name":null,"purl":"pkg:github/federicomarini/ideal","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/federicomarini","download_url":"https://codeload.github.com/federicomarini/ideal/tar.gz/refs/heads/devel","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274186484,"owners_count":25237596,"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":"2025-09-08T02:00:09.813Z","response_time":121,"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":"federicomarini","name":"Federico Marini","uuid":"7447478","kind":"user","description":"Virchow Fellow, Bioinformatician @ Institute of Medical Biostatistics, Epidemiology and Informatics, Mainz (@imbeimainz)","email":"","website":null,"location":"Mainz","twitter":"FedeBioinfo","company":"University Medical Center, Mainz","icon_url":"https://avatars.githubusercontent.com/u/7447478?u=93145716f75f552688fc37dccec334ad4e5efe9b\u0026v=4","repositories_count":173,"last_synced_at":"2023-09-09T19:43:11.170Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/federicomarini","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-08T04:05:03.951Z","updated_at":"2023-09-09T19:43:11.781Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/federicomarini","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/federicomarini/repositories"},"packages":[{"id":8419670,"name":"ideal","ecosystem":"bioconductor","description":"Interactive Differential Expression AnaLysis","homepage":"https://github.com/federicomarini/ideal https://federicomarini.github.io/ideal/ ","licenses":"MIT + file LICENSE","normalized_licenses":["MIT"],"repository_url":"https://github.com/federicomarini/ideal","keywords_array":["DifferentialExpression","GUI","GeneExpression","GeneSetEnrichment","ImmunoOncology","QualityControl","RNASeq","ReportWriting","Sequencing","ShinyApps","Software","Visualization"],"namespace":null,"versions_count":5,"first_release_published_at":"2023-10-12T14:39:34.088Z","latest_release_published_at":"2025-05-02T08:19:46.964Z","latest_release_number":"2.2.0","last_synced_at":"2025-08-28T21:40:27.903Z","created_at":"2023-10-12T14:39:33.692Z","updated_at":"2025-08-28T21:40:27.903Z","registry_url":"https://bioconductor.org/packages/ideal","install_command":null,"documentation_url":"https://bioconductor.org/packages/release/bioc/vignettes/ideal/inst/doc/ideal.pdf","metadata":{},"repo_metadata":{"id":46664892,"uuid":"85059190","full_name":"federicomarini/ideal","owner":"federicomarini","description":"Interactive Differential Expression AnaLysis - DE made accessible and reproducible","archived":false,"fork":false,"pushed_at":"2024-05-02T14:25:54.000Z","size":25202,"stargazers_count":29,"open_issues_count":4,"forks_count":7,"subscribers_count":4,"default_branch":"devel","last_synced_at":"2024-07-06T08:44:27.006Z","etag":null,"topics":["bioconductor","differential-expression","r","reproducible-research","rna-seq","rna-seq-analysis","shiny","user-friendly"],"latest_commit_sha":null,"homepage":"https://federicomarini.github.io/ideal/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"other","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/federicomarini.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":"CODE_OF_CONDUCT.md","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":"2017-03-15T10:25:39.000Z","updated_at":"2024-05-02T14:25:57.000Z","dependencies_parsed_at":"2024-05-02T15:43:32.537Z","dependency_job_id":"4bdbd661-cc53-455d-b17a-a90c7817a2bf","html_url":"https://github.com/federicomarini/ideal","commit_stats":{"total_commits":448,"total_committers":11,"mean_commits":40.72727272727273,"dds":0.0691964285714286,"last_synced_commit":"e91e570dcf1b7d457fc498559296bf637fcaa082"},"previous_names":[],"tags_count":2,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/federicomarini","download_url":"https://codeload.github.com/federicomarini/ideal/tar.gz/refs/heads/devel","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":214749763,"owners_count":15779311,"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"},"owner_record":{"login":"federicomarini","name":"Federico Marini","uuid":"7447478","kind":"user","description":"Virchow Fellow, Bioinformatician @ Institute of Medical Biostatistics, Epidemiology and Informatics, Mainz (@imbeimainz)","email":"","website":null,"location":"Mainz","twitter":"FedeBioinfo","company":"University Medical Center, Mainz","icon_url":"https://avatars.githubusercontent.com/u/7447478?u=93145716f75f552688fc37dccec334ad4e5efe9b\u0026v=4","repositories_count":173,"last_synced_at":"2023-09-09T19:43:11.170Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/federicomarini","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2022-11-08T04:05:03.951Z","updated_at":"2023-09-09T19:43:11.781Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/federicomarini","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/federicomarini/repositories"},"tags":[{"name":"v1.13.2-revision","sha":"9bc18165a0692a7300292b57dc2dc7291da961c1","kind":"commit","published_at":"2020-09-28T16:43:17.000Z","download_url":"https://codeload.github.com/federicomarini/ideal/tar.gz/v1.13.2-revision","html_url":"https://github.com/federicomarini/ideal/releases/tag/v1.13.2-revision","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/tags/v1.13.2-revision","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/tags/v1.13.2-revision/manifests"},{"name":"v1.11.3-revision","sha":"05411230be48dbba16c39f4b071f38541e12bfa0","kind":"commit","published_at":"2020-03-18T10:39:11.000Z","download_url":"https://codeload.github.com/federicomarini/ideal/tar.gz/v1.11.3-revision","html_url":"https://github.com/federicomarini/ideal/releases/tag/v1.11.3-revision","dependencies_parsed_at":null,"dependency_job_id":null,"tag_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/tags/v1.11.3-revision","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/tags/v1.11.3-revision/manifests"}]},"repo_metadata_updated_at":"2024-08-10T03:15:18.886Z","dependent_packages_count":0,"downloads":19828,"downloads_period":"total","dependent_repos_count":0,"rankings":{"downloads":50.40899795501023,"dependent_repos_count":0.0,"dependent_packages_count":0.0,"stargazers_count":5.0359712230215825,"forks_count":8.396946564885496,"docker_downloads_count":null,"average":12.768383148583462},"purl":"pkg:bioconductor/ideal","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/bioconductor/ideal","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/bioconductor/ideal","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/bioconductor/ideal/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2024-08-10T03:15:17.486Z","issues_count":7,"pull_requests_count":5,"avg_time_to_close_issue":8535675.0,"avg_time_to_close_pull_request":567636.4,"issues_closed_count":3,"pull_requests_closed_count":5,"pull_request_authors_count":1,"issue_authors_count":6,"avg_comments_per_issue":5.0,"avg_comments_per_pull_request":0.0,"merged_pull_requests_count":5,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":1,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":1,"past_year_avg_comments_per_issue":3.0,"past_year_avg_comments_per_pull_request":null,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":0,"issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/issues","maintainers":[{"login":"federicomarini","count":5,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/federicomarini"}],"active_maintainers":[]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/ideal/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/ideal/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/ideal/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/ideal/related_packages","maintainers":[{"uuid":"marinif@uni-mainz.de","login":null,"name":"Federico Marini","email":"marinif@uni-mainz.de","url":null,"packages_count":7,"html_url":null,"role":null,"created_at":"2023-11-01T12:07:32.782Z","updated_at":"2023-11-01T12:07:32.782Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/maintainers/marinif@uni-mainz.de/packages"}],"registry":{"name":"bioconductor.org","url":"https://bioconductor.org","ecosystem":"bioconductor","default":true,"packages_count":2505,"maintainers_count":3164,"namespaces_count":0,"keywords_count":1086,"github":"Bioconductor","metadata":{"funded_packages_count":3},"icon_url":"https://github.com/Bioconductor.png","created_at":"2023-10-12T14:09:56.428Z","updated_at":"2025-09-08T06:51:28.460Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages","maintainers_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/maintainers","namespaces_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/namespaces"}}],"commits":{"id":1400102,"full_name":"federicomarini/ideal","default_branch":"devel","committers":[{"name":"Federico Marini","email":"marinif@uni-mainz.de","login":"federicomarini","count":462},{"name":"Nitesh Turaga","email":"nitesh.turaga@gmail.com","login":"nturaga","count":14},{"name":"J Wokaty","email":"jennifer.wokaty@sph.cuny.edu","login":"jwokaty","count":10},{"name":"vobencha","email":"vobencha@gmail.com","login":"vobencha","count":2},{"name":"Hervé Pagès","email":"hpages@fredhutch.org","login":"hpages","count":2},{"name":"vobencha","email":"valerie.obenchain@roswellpark.org","login":null,"count":2},{"name":"Herve Pages","email":"hpages@fhcrc.org","login":null,"count":2},{"name":"A Wokaty","email":"andres.wokaty@sph.cuny.edu","login":null,"count":2},{"name":"LiNk-NY","email":"mramos09@gmail.com","login":"LiNk-NY","count":1},{"name":"Kayla-Morrell","email":"kayla.morrell@roswellpark.org","login":"Kayla-Morrell","count":1},{"name":"Martin Morgan","email":"mtmorgan@fhcrc.org","login":null,"count":1}],"total_commits":499,"total_committers":11,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":45.36363636363637,"dds":0.07414829659318634,"past_year_committers":[{"name":"Federico Marini","email":"marinif@uni-mainz.de","login":"federicomarini","count":39},{"name":"J Wokaty","email":"jennifer.wokaty@sph.cuny.edu","login":"jwokaty","count":2},{"name":"A Wokaty","email":"andres.wokaty@sph.cuny.edu","login":null,"count":2}],"past_year_total_commits":43,"past_year_total_committers":3,"past_year_total_bot_commits":0,"past_year_total_bot_committers":0,"past_year_mean_commits":14.333333333333334,"past_year_dds":0.09302325581395354,"last_synced_at":"2025-05-23T11:34:46.236Z","last_synced_commit":"efa43e2de43c97fbbf019e9218e41a5fa9cbe3bb","created_at":"2023-10-15T00:10:58.146Z","updated_at":"2025-05-23T11:34:48.477Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:16.827Z","repositories_count":5480019,"commits_count":853389126,"contributors_count":31098155,"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":"federicomarini/ideal","html_url":"https://github.com/federicomarini/ideal","last_synced_at":"2025-08-31T08:25:03.090Z","status":null,"issues_count":9,"pull_requests_count":6,"avg_time_to_close_issue":15075417.4,"avg_time_to_close_pull_request":586357.8333333334,"issues_closed_count":5,"pull_requests_closed_count":6,"pull_request_authors_count":1,"issue_authors_count":7,"avg_comments_per_issue":4.222222222222222,"avg_comments_per_pull_request":0.0,"merged_pull_requests_count":6,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":2,"past_year_pull_requests_count":1,"past_year_avg_time_to_close_issue":236738.0,"past_year_avg_time_to_close_pull_request":679965.0,"past_year_issues_closed_count":1,"past_year_pull_requests_closed_count":1,"past_year_pull_request_authors_count":1,"past_year_issue_authors_count":2,"past_year_avg_comments_per_issue":1.5,"past_year_avg_comments_per_pull_request":0.0,"past_year_bot_issues_count":0,"past_year_bot_pull_requests_count":0,"past_year_merged_pull_requests_count":1,"created_at":"2023-10-15T00:11:20.724Z","updated_at":"2025-09-02T19:12:41.011Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/federicomarini%2Fideal/issues","issue_labels_count":{},"pull_request_labels_count":{},"issue_author_associations_count":{"NONE":10},"pull_request_author_associations_count":{"OWNER":7},"issue_authors":{"tamuanand":3,"clbenoit":2,"nicholas-owen":1,"mgalland":1,"Hoohm":1,"isaacvock":1,"bgruening":1},"pull_request_authors":{"federicomarini":7},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-03T00:00:08.273Z","repositories_count":10058116,"issues_count":30985287,"pull_requests_count":93679802,"authors_count":10684821,"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":{},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"NONE":3},"past_year_pull_request_author_associations_count":{"OWNER":2},"past_year_issue_authors":{"tamuanand":2,"isaacvock":1},"past_year_pull_request_authors":{"federicomarini":2},"maintainers":[{"login":"federicomarini","count":7,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/federicomarini"}],"active_maintainers":[{"login":"federicomarini","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/federicomarini"}]},"events":{"total":{"IssuesEvent":4,"IssueCommentEvent":4,"PushEvent":8},"last_year":{"IssuesEvent":4,"IssueCommentEvent":4,"PushEvent":8}},"keywords":["bioconductor","differential-expression","r","reproducible-research","rna-seq","rna-seq-analysis","shiny","user-friendly"],"dependencies":[{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2022-09-18T04:21:24.877Z","updated_at":"2022-09-18T04:21:24.877Z","repository_link":"https://github.com/federicomarini/ideal/blob/devel/DESCRIPTION","dependencies":[{"id":5234056798,"package_name":"topGO","ecosystem":"cran","requirements":"*","direct":true,"kind":"depends","optional":false},{"id":5234056799,"package_name":"DESeq2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056800,"package_name":"SummarizedExperiment","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056801,"package_name":"GenomicRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056802,"package_name":"IRanges","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056803,"package_name":"S4Vectors","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056804,"package_name":"ggplot2","ecosystem":"cran","requirements":"\u003e= 2.0.0","direct":true,"kind":"imports","optional":false},{"id":5234056805,"package_name":"heatmaply","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056806,"package_name":"plotly","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056807,"package_name":"pheatmap","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056808,"package_name":"pcaExplorer","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056809,"package_name":"IHW","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056810,"package_name":"gplots","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056811,"package_name":"UpSetR","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056812,"package_name":"goseq","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056813,"package_name":"stringr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056814,"package_name":"dplyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056815,"package_name":"limma","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056816,"package_name":"GOstats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056817,"package_name":"GO.db","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056818,"package_name":"AnnotationDbi","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056819,"package_name":"shiny","ecosystem":"cran","requirements":"\u003e= 0.12.0","direct":true,"kind":"imports","optional":false},{"id":5234056820,"package_name":"shinydashboard","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056821,"package_name":"shinyBS","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056822,"package_name":"DT","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056823,"package_name":"rentrez","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056824,"package_name":"rintrojs","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056825,"package_name":"rlang","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056826,"package_name":"ggrepel","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056827,"package_name":"knitr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056828,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056829,"package_name":"shinyAce","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056830,"package_name":"BiocParallel","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056831,"package_name":"grDevices","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056832,"package_name":"base64enc","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056833,"package_name":"methods","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":5234056834,"package_name":"testthat","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":5234056835,"package_name":"BiocStyle","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":5234056836,"package_name":"airway","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":5234056837,"package_name":"org.Hs.eg.db","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":5234056838,"package_name":"TxDb.Hsapiens.UCSC.hg38.knownGene","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":5234056839,"package_name":"DEFormats","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":5234056840,"package_name":"edgeR","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false}]},{"ecosystem":"actions","filepath":".github/workflows/R-CMD-check.yaml","sha":null,"kind":"manifest","created_at":"2023-02-04T07:01:29.678Z","updated_at":"2023-02-04T07:01:29.678Z","repository_link":"https://github.com/federicomarini/ideal/blob/devel/.github/workflows/R-CMD-check.yaml","dependencies":[{"id":7346193022,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7346193023,"package_name":"grimbough/bioc-actions/setup-bioc","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7346193024,"package_name":"r-lib/actions/setup-pandoc","ecosystem":"actions","requirements":"v2","direct":true,"kind":"composite","optional":false},{"id":7346193025,"package_name":"actions/cache","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7346193026,"package_name":"grimbough/bioc-actions/build-install-check","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7346193027,"package_name":"grimbough/bioc-actions/run-BiocCheck","ecosystem":"actions","requirements":"v1","direct":true,"kind":"composite","optional":false},{"id":7346193028,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"master","direct":true,"kind":"composite","optional":false}]}],"score":15.819156589013339,"created_at":"2025-09-08T11:18:23.885Z","updated_at":"2025-10-07T08:24:16.692Z","avatar_url":"https://github.com/federicomarini.png","language":"R","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1186/s12859-020-03819-5","https://doi.org/10.1002/cpz1.411"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["bioconductor-package","genomics","gene","u24ca289073","core-package","mass-spectrometry","metabolomics","proteomics","microbiome","bioinformatics"],"project_url":"https://science.ecosyste.ms/api/v1/projects/62089","html_url":"https://science.ecosyste.ms/projects/62089"}