{"id":61309,"name":"progeny","description":"R package for Pathway RespOnsive GENe activity inference","url":"https://github.com/saezlab/progeny","last_synced_at":"2025-09-08T12:29:22.487Z","repository":{"id":24996621,"uuid":"67710487","full_name":"saezlab/progeny","owner":"saezlab","description":"R package for Pathway RespOnsive GENe activity inference","archived":false,"fork":false,"pushed_at":"2023-01-30T10:01:10.000Z","size":50183,"stargazers_count":108,"open_issues_count":3,"forks_count":21,"subscribers_count":17,"default_branch":"master","last_synced_at":"2025-08-29T01:48:23.156Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"https://saezlab.github.io/progeny/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"apache-2.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/saezlab.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}},"created_at":"2016-09-08T14:29:06.000Z","updated_at":"2025-08-28T09:23:38.000Z","dependencies_parsed_at":"2023-02-16T06:16:02.969Z","dependency_job_id":null,"html_url":"https://github.com/saezlab/progeny","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/saezlab/progeny","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab","download_url":"https://codeload.github.com/saezlab/progeny/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":274184775,"owners_count":25237261,"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":"saezlab","name":"Saez Lab","uuid":"9979042","kind":"organization","description":"Institute for Computational Biomedicine - Julio Saez-Rodriguez's group","email":"pub.saez@uni-heidelberg.de","website":"saezlab.org","location":"Germany","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/9979042?v=4","repositories_count":241,"last_synced_at":"2024-04-16T01:19:34.095Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/saezlab","funding_links":[],"total_stars":1577,"followers":222,"following":0,"created_at":"2022-11-07T05:25:47.219Z","updated_at":"2024-04-16T01:20:36.600Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab/repositories"},"packages":[{"id":8420356,"name":"progeny","ecosystem":"bioconductor","description":"Pathway RespOnsive GENes for activity inference from gene expression","homepage":"https://github.com/saezlab/progeny ","licenses":"Apache License (== 2.0) | file LICENSE","normalized_licenses":["Apache-2.0"],"repository_url":"https://github.com/saezlab/progeny","keywords_array":["FunctionalPrediction","GeneExpression","GeneRegulation","Software","SystemsBiology"],"namespace":null,"versions_count":5,"first_release_published_at":"2023-10-12T14:52:56.463Z","latest_release_published_at":"2025-05-07T02:32:54.716Z","latest_release_number":"1.30.0","last_synced_at":"2025-08-28T21:40:21.105Z","created_at":"2023-10-12T14:52:56.265Z","updated_at":"2025-08-29T04:52:43.682Z","registry_url":"https://bioconductor.org/packages/progeny","install_command":null,"documentation_url":"https://bioconductor.org/packages/release/bioc/vignettes/progeny/inst/doc/progeny.pdf","metadata":{},"repo_metadata":{"id":24996621,"uuid":"67710487","full_name":"saezlab/progeny","owner":"saezlab","description":"R package for Pathway RespOnsive GENe activity inference","archived":false,"fork":false,"pushed_at":"2023-01-30T10:01:10.000Z","size":50183,"stargazers_count":108,"open_issues_count":3,"forks_count":21,"subscribers_count":17,"default_branch":"master","last_synced_at":"2025-08-29T01:48:23.156Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"https://saezlab.github.io/progeny/","language":"R","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"apache-2.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/saezlab.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}},"created_at":"2016-09-08T14:29:06.000Z","updated_at":"2025-08-28T09:23:38.000Z","dependencies_parsed_at":"2023-02-16T06:16:02.969Z","dependency_job_id":null,"html_url":"https://github.com/saezlab/progeny","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/saezlab/progeny","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab","download_url":"https://codeload.github.com/saezlab/progeny/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":272630967,"owners_count":24967104,"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":"2025-08-29T02:00:10.610Z","response_time":87,"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_record":{"login":"saezlab","name":"Saez Lab","uuid":"9979042","kind":"organization","description":"Institute for Computational Biomedicine - Julio Saez-Rodriguez's group","email":"pub.saez@uni-heidelberg.de","website":"saezlab.org","location":"Germany","twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/9979042?v=4","repositories_count":241,"last_synced_at":"2024-04-16T01:19:34.095Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/saezlab","funding_links":[],"total_stars":1577,"followers":222,"following":0,"created_at":"2022-11-07T05:25:47.219Z","updated_at":"2024-04-16T01:20:36.600Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/saezlab/repositories"},"tags":[]},"repo_metadata_updated_at":"2025-08-29T04:52:43.682Z","dependent_packages_count":2,"downloads":41765,"downloads_period":"total","dependent_repos_count":0,"rankings":{"downloads":33.73801916932908,"dependent_repos_count":0.0,"dependent_packages_count":0.0,"stargazers_count":null,"forks_count":null,"docker_downloads_count":null,"average":11.24600638977636},"purl":"pkg:bioconductor/progeny","advisories":[],"docker_usage_url":"https://docker.ecosyste.ms/usage/bioconductor/progeny","docker_dependents_count":null,"docker_downloads_count":null,"usage_url":"https://repos.ecosyste.ms/usage/bioconductor/progeny","dependent_repositories_url":"https://repos.ecosyste.ms/api/v1/usage/bioconductor/progeny/dependencies","status":null,"funding_links":[],"critical":null,"issue_metadata":{"last_synced_at":"2025-08-28T21:49:41.598Z","issues_count":53,"pull_requests_count":11,"avg_time_to_close_issue":25021471.34,"avg_time_to_close_pull_request":3134080.5454545454,"issues_closed_count":50,"pull_requests_closed_count":11,"pull_request_authors_count":7,"issue_authors_count":40,"avg_comments_per_issue":1.660377358490566,"avg_comments_per_pull_request":0.6363636363636364,"merged_pull_requests_count":11,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":7,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":1221964.25,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":4,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":7,"past_year_avg_comments_per_issue":1.0,"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/saezlab%2Fprogeny/issues","maintainers":[{"login":"mschubert","count":6,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/mschubert"},{"login":"christianholland","count":4,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/christianholland"},{"login":"PauBadiaM","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/PauBadiaM"},{"login":"deeenes","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/deeenes"},{"login":"alberto-valdeolivas","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/alberto-valdeolivas"},{"login":"adugourd","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/adugourd"}],"active_maintainers":[]},"versions_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/progeny/versions","version_numbers_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/progeny/version_numbers","dependent_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/progeny/dependent_packages","related_packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/packages/progeny/related_packages","maintainers":[{"uuid":"aurelien.dugourd@bioquant.uni-heidelberg.de","login":null,"name":"Aurélien Dugourd","email":"aurelien.dugourd@bioquant.uni-heidelberg.de","url":null,"packages_count":1,"html_url":null,"role":null,"created_at":"2023-11-20T17:11:23.170Z","updated_at":"2023-11-20T17:11:23.170Z","packages_url":"https://packages.ecosyste.ms/api/v1/registries/bioconductor.org/maintainers/aurelien.dugourd@bioquant.uni-heidelberg.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":1403346,"full_name":"saezlab/progeny","default_branch":"master","committers":[{"name":"Igor Bulanov","email":"bulanov.ig@phystech.edu","login":"ibulanov","count":130},{"name":"mschubert","email":"mschu.dev@gmail.com","login":"mschubert","count":37},{"name":"Alberto Valdeolivas","email":"alvaldeolivas@gmail.com","login":"alberto-valdeolivas","count":36},{"name":"adugourd","email":"aurelien.dugourd@bioquant.uni-heidelberg.de","login":"adugourd","count":15},{"name":"Nitesh Turaga","email":"nitesh.turaga@gmail.com","login":"nturaga","count":12},{"name":"PauBadiaM","email":"pau.badia@uni-heidelberg.de","login":"PauBadiaM","count":9},{"name":"deeenes","email":"turei.denes@gmail.com","login":"deeenes","count":5},{"name":"Christian Holland","email":"cholland2408@gmail.com","login":"christianholland","count":4},{"name":"vobencha","email":"vobencha@gmail.com","login":"vobencha","count":2},{"name":"Igor Bulanov","email":"38611430+IgorBulanov","login":"IgorBulanov","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":"Julio Saez-Rodriguez","email":"julio.saez@uni-heidelberg.de","login":"saezrodriguez","count":1},{"name":"Jan Gleixner","email":"jan.gleixner@gmail.com","login":"jan-glx","count":1},{"name":"Federico Marini","email":"marinif@uni-mainz.de","login":"federicomarini","count":1}],"total_commits":259,"total_committers":15,"total_bot_commits":0,"total_bot_committers":0,"mean_commits":17.266666666666666,"dds":0.4980694980694981,"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":"2025-05-23T13:28:07.978Z","last_synced_commit":"cad6be0514c3248b9465e48f1cfd2f6a4c3dfb6f","created_at":"2023-10-25T13:16:04.099Z","updated_at":"2025-05-23T13:28:11.089Z","commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:16.827Z","repositories_count":5483146,"commits_count":854228848,"contributors_count":31137076,"owners_count":908396,"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":"saezlab/progeny","html_url":"https://github.com/saezlab/progeny","last_synced_at":"2025-08-28T21:49:41.598Z","status":"error","issues_count":53,"pull_requests_count":11,"avg_time_to_close_issue":25021471.34,"avg_time_to_close_pull_request":3134080.5454545454,"issues_closed_count":50,"pull_requests_closed_count":11,"pull_request_authors_count":7,"issue_authors_count":40,"avg_comments_per_issue":1.660377358490566,"avg_comments_per_pull_request":0.6363636363636364,"merged_pull_requests_count":11,"bot_issues_count":0,"bot_pull_requests_count":0,"past_year_issues_count":7,"past_year_pull_requests_count":0,"past_year_avg_time_to_close_issue":1221964.25,"past_year_avg_time_to_close_pull_request":null,"past_year_issues_closed_count":4,"past_year_pull_requests_closed_count":0,"past_year_pull_request_authors_count":0,"past_year_issue_authors_count":7,"past_year_avg_comments_per_issue":1.0,"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,"created_at":"2024-05-17T00:09:06.202Z","updated_at":"2025-09-03T06:18:13.635Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/saezlab%2Fprogeny/issues","issue_labels_count":{"enhancement":8},"pull_request_labels_count":{"update":1},"issue_author_associations_count":{"NONE":42,"MEMBER":6,"COLLABORATOR":3,"CONTRIBUTOR":1},"pull_request_author_associations_count":{"COLLABORATOR":6,"MEMBER":3,"CONTRIBUTOR":2},"issue_authors":{"mschubert":6,"yesitsjess":3,"enblacar":3,"HocheolJang426":2,"messersc":2,"Caary":2,"christianholland":2,"blinggi":1,"AndreaGuarracino":1,"asumann":1,"shengqh":1,"jperales":1,"Vernonjustice":1,"Tommaso12":1,"CB-postech":1,"bhagwataditya":1,"polarbearsmall":1,"AGordonRobertson":1,"alberto-valdeolivas":1,"jadeshi":1,"ojziff":1,"DarioS":1,"millersan":1,"cf98":1,"xyn0813":1,"frisalonza":1,"Semple-bio":1,"SSSJe":1,"FFriis":1,"nirajkhe":1,"Noralii":1,"michelegentili93":1,"taraurselmann":1,"pswaminath":1,"TiphaineCMartin":1,"XjtuZhangKun-lab":1,"imkeller":1,"Gesmira":1,"federicomarini":1},"pull_request_authors":{"PauBadiaM":3,"christianholland":2,"deeenes":2,"adugourd":1,"jan-glx":1,"federicomarini":1,"alberto-valdeolivas":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-09-08T00:00:17.013Z","repositories_count":10162540,"issues_count":31970808,"pull_requests_count":100211919,"authors_count":10727842,"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":6},"past_year_pull_request_author_associations_count":{},"past_year_issue_authors":{"FFriis":1,"Noralii":1,"SSSJe":1,"taraurselmann":1,"TiphaineCMartin":1,"XjtuZhangKun-lab":1},"past_year_pull_request_authors":{},"maintainers":[{"login":"mschubert","count":6,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/mschubert"},{"login":"christianholland","count":4,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/christianholland"},{"login":"PauBadiaM","count":3,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/PauBadiaM"},{"login":"alberto-valdeolivas","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/alberto-valdeolivas"},{"login":"deeenes","count":2,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/deeenes"},{"login":"adugourd","count":1,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/adugourd"}],"active_maintainers":[]},"events":{"total":{"IssuesEvent":3,"WatchEvent":14,"IssueCommentEvent":3,"ForkEvent":3},"last_year":{"IssuesEvent":3,"WatchEvent":14,"IssueCommentEvent":3,"ForkEvent":3}},"keywords":[],"dependencies":[{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2022-08-07T11:01:31.652Z","updated_at":"2022-08-07T11:01:31.652Z","repository_link":"https://github.com/saezlab/progeny/blob/master/DESCRIPTION","dependencies":[{"id":595257760,"package_name":"R","ecosystem":"cran","requirements":"\u003e= 3.6.0","direct":true,"kind":"depends","optional":false},{"id":595257767,"package_name":"Biobase","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257770,"package_name":"stats","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257772,"package_name":"dplyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257774,"package_name":"tidyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257776,"package_name":"ggplot2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257778,"package_name":"ggrepel","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257780,"package_name":"gridExtra","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257782,"package_name":"decoupleR","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257784,"package_name":"reshape2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":595257786,"package_name":"airway","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257788,"package_name":"biomaRt","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257790,"package_name":"BiocFileCache","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257792,"package_name":"broom","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257794,"package_name":"Seurat","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257796,"package_name":"SingleCellExperiment","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257798,"package_name":"DESeq2","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257800,"package_name":"BiocStyle","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257802,"package_name":"knitr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257804,"package_name":"readr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257806,"package_name":"readxl","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257808,"package_name":"pheatmap","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257810,"package_name":"tibble","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257812,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":595257814,"package_name":"testthat","ecosystem":"cran","requirements":"\u003e= 2.1.0","direct":true,"kind":"suggests","optional":false}]}],"score":18.05746617750493,"created_at":"2025-09-08T10:44:25.160Z","updated_at":"2025-10-07T08:24:01.852Z","avatar_url":"https://github.com/saezlab.png","language":"R","category":null,"sub_category":null,"monthly_downloads":0,"funding_links":[],"readme_doi_urls":["https://doi.org/10.1093/bioadv/vbac016","https://doi.org/10.1016/j.bbagrm.2019.194431","https://doi.org/10.1186/s13059-020-1949-z","https://doi.org/10.1038/s41467-017-02391-6"],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":["bioconductor-package","bioconductor","ontology","bioinformatics","gene","computational-biology","core-services","u24ca289073","core-package","tracking"],"project_url":"https://science.ecosyste.ms/api/v1/projects/61309","html_url":"https://science.ecosyste.ms/projects/61309"}