{"id":327684,"name":"Vivid Volcano: Empowering Non-Bioinformaticians to Analyze Pre-Processed Omics Data","description":"Vivid Volcano: Empowering Non-Bioinformaticians to Analyze Pre-Processed Omics Data - Published in JOSS (2025)","url":"https://github.com/datviser/vivid-volcano","last_synced_at":"2025-10-26T17:07:00.981Z","repository":{"id":271897899,"uuid":"876091328","full_name":"DatViseR/Vivid-Volcano","owner":"DatViseR","description":"A shiny app for custom analyzes of preprocessed omics data","archived":false,"fork":false,"pushed_at":"2025-09-11T08:06:53.000Z","size":32540,"stargazers_count":3,"open_issues_count":0,"forks_count":1,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-10-09T10:34:20.778Z","etag":null,"topics":["bioinformatics","genomics-visualization","gsea","life-sciences","omics","proteomics","rnaseq","volcano-plot"],"latest_commit_sha":null,"homepage":"","language":"HTML","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/DatViseR.png","metadata":{"files":{"readme":"README.html","changelog":null,"contributing":".github/CONTRIBUTING.md","funding":".github/FUNDING.yml","license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":"CITATION.html","codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2024-10-21T11:40:23.000Z","updated_at":"2025-10-06T13:55:33.000Z","dependencies_parsed_at":"2025-04-10T10:34:57.111Z","dependency_job_id":"a73e0b60-adb3-4e11-9e3f-ddc63554f95b","html_url":"https://github.com/DatViseR/Vivid-Volcano","commit_stats":null,"previous_names":["datviser/vivid-volcano"],"tags_count":7,"template":false,"template_full_name":null,"purl":"pkg:github/DatViseR/Vivid-Volcano","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/DatViseR","download_url":"https://codeload.github.com/DatViseR/Vivid-Volcano/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":281139043,"owners_count":26450141,"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":"2025-10-26T02:00:06.575Z","response_time":61,"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":"DatViseR","name":null,"uuid":"64078730","kind":"user","description":null,"email":"","website":null,"location":null,"twitter":null,"company":null,"icon_url":"https://avatars.githubusercontent.com/u/64078730?u=a9be3f255e34fb10e325614ea27e90890d4e5ae6\u0026v=4","repositories_count":3,"last_synced_at":"2023-10-20T03:12:37.812Z","metadata":{"has_sponsors_listing":false},"html_url":"https://github.com/DatViseR","funding_links":[],"total_stars":null,"followers":null,"following":null,"created_at":"2023-10-20T03:12:37.833Z","updated_at":"2023-10-20T03:12:37.833Z","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/DatViseR","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/DatViseR/repositories"},"packages":[],"commits":{"id":10934730,"full_name":"datviser/vivid-volcano","default_branch":"master","total_commits":341,"total_committers":7,"total_bot_commits":2,"total_bot_committers":1,"mean_commits":48.714285714285715,"dds":0.12023460410557185,"past_year_total_commits":341,"past_year_total_committers":7,"past_year_total_bot_commits":2,"past_year_total_bot_committers":1,"past_year_mean_commits":48.714285714285715,"past_year_dds":0.12023460410557185,"last_synced_at":"2025-10-09T10:34:46.676Z","last_synced_commit":"d744952c819354f119a2ff43f1ea3000daade755","created_at":"2025-09-05T07:49:57.476Z","updated_at":"2025-10-09T10:34:45.940Z","committers":[{"name":"DatViseR","email":"dzdzstepel@gmail.com","login":null,"count":300},{"name":"Tomasz Stępkowski","email":"64078730+DatViseR@users.noreply.github.com","login":null,"count":14},{"name":"DatViseR","email":"datviser@gmail.com","login":null,"count":12},{"name":"DatViseR","email":"DatViseR@gmail.com","login":null,"count":9},{"name":"DatViseR","email":"t.stepkowski@nencki.edu.pl","login":null,"count":3},{"name":"copilot-swe-agent[bot]","email":"198982749+Copilot@users.noreply.github.com","login":null,"count":2},{"name":"DatViseR","email":"datviser@smok.local","login":null,"count":1}],"past_year_committers":[{"name":"DatViseR","email":"dzdzstepel@gmail.com","login":null,"count":300},{"name":"Tomasz Stępkowski","email":"64078730+DatViseR@users.noreply.github.com","login":null,"count":14},{"name":"DatViseR","email":"datviser@gmail.com","login":null,"count":12},{"name":"DatViseR","email":"DatViseR@gmail.com","login":null,"count":9},{"name":"DatViseR","email":"t.stepkowski@nencki.edu.pl","login":null,"count":3},{"name":"copilot-swe-agent[bot]","email":"198982749+Copilot@users.noreply.github.com","login":null,"count":2},{"name":"DatViseR","email":"datviser@smok.local","login":null,"count":1}],"commits_url":"https://commits.ecosyste.ms/api/v1/hosts/GitHub/repositories/datviser%2Fvivid-volcano/commits","host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-10-26T00:00:38.633Z","repositories_count":6088159,"commits_count":922388587,"contributors_count":35990619,"owners_count":1109198,"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":"DatViseR/Vivid-Volcano","html_url":"https://github.com/DatViseR/Vivid-Volcano","last_synced_at":"2025-08-31T12:19:57.700Z","status":null,"issues_count":1,"pull_requests_count":7,"avg_time_to_close_issue":null,"avg_time_to_close_pull_request":30.4,"issues_closed_count":0,"pull_requests_closed_count":5,"pull_request_authors_count":2,"issue_authors_count":1,"avg_comments_per_issue":0.0,"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":7,"past_year_avg_time_to_close_issue":null,"past_year_avg_time_to_close_pull_request":30.4,"past_year_issues_closed_count":0,"past_year_pull_requests_closed_count":5,"past_year_pull_request_authors_count":2,"past_year_issue_authors_count":1,"past_year_avg_comments_per_issue":0.0,"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":5,"created_at":"2025-08-29T20:41:12.250Z","updated_at":"2025-08-31T12:19:57.701Z","repository_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano","issues_url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/repositories/DatViseR%2FVivid-Volcano/issues","issue_labels_count":{"bug":1,"enhancement":1},"pull_request_labels_count":{},"issue_author_associations_count":{"OWNER":1},"pull_request_author_associations_count":{"OWNER":5,"NONE":1},"issue_authors":{"DatViseR":1},"pull_request_authors":{"DatViseR":5,"Copilot":1},"host":{"name":"GitHub","url":"https://github.com","kind":"github","last_synced_at":"2025-10-26T00:00:12.178Z","repositories_count":11187467,"issues_count":34770786,"pull_requests_count":112651859,"authors_count":11041528,"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":{"bug":1,"enhancement":1},"past_year_pull_request_labels_count":{},"past_year_issue_author_associations_count":{"OWNER":1},"past_year_pull_request_author_associations_count":{"OWNER":5,"NONE":1},"past_year_issue_authors":{"DatViseR":1},"past_year_pull_request_authors":{"DatViseR":5,"Copilot":1},"maintainers":[{"login":"DatViseR","count":6,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/DatViseR"}],"active_maintainers":[{"login":"DatViseR","count":6,"url":"https://issues.ecosyste.ms/api/v1/hosts/GitHub/authors/DatViseR"}]},"events":{"total":{"CreateEvent":12,"IssuesEvent":1,"ReleaseEvent":7,"WatchEvent":8,"DeleteEvent":5,"PushEvent":129,"PullRequestEvent":13,"ForkEvent":1},"last_year":{"CreateEvent":12,"IssuesEvent":1,"ReleaseEvent":7,"WatchEvent":8,"DeleteEvent":5,"PushEvent":129,"PullRequestEvent":13,"ForkEvent":1}},"keywords":["bioinformatics","genomics-visualization","gsea","life-sciences","omics","proteomics","rnaseq","volcano-plot"],"dependencies":[{"ecosystem":"actions","filepath":".github/workflows/  draft-pdf.yml","sha":null,"kind":"manifest","created_at":"2025-04-10T10:34:55.835Z","updated_at":"2025-04-10T10:34:55.835Z","repository_link":"https://github.com/DatViseR/Vivid-Volcano/blob/master/.github/workflows/  draft-pdf.yml","dependencies":[{"id":22625471688,"package_name":"actions/checkout","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false},{"id":22625471689,"package_name":"openjournals/openjournals-draft-action","ecosystem":"actions","requirements":"master","direct":true,"kind":"composite","optional":false},{"id":22625471690,"package_name":"actions/upload-artifact","ecosystem":"actions","requirements":"v4","direct":true,"kind":"composite","optional":false}]},{"ecosystem":"cran","filepath":"DESCRIPTION","sha":null,"kind":"manifest","created_at":"2025-03-12T15:36:14.479Z","updated_at":"2025-03-12T15:36:14.479Z","repository_link":"https://github.com/DatViseR/Vivid-Volcano/blob/master/DESCRIPTION","dependencies":[{"id":22237800005,"package_name":"R","ecosystem":"cran","requirements":"\u003e= 4.4.0","direct":true,"kind":"depends","optional":false},{"id":22237800006,"package_name":"shiny","ecosystem":"cran","requirements":"\u003e= 1.6.0","direct":true,"kind":"imports","optional":false},{"id":22237800007,"package_name":"shinyjs","ecosystem":"cran","requirements":"\u003e= 2.0.0","direct":true,"kind":"imports","optional":false},{"id":22237800008,"package_name":"readr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800009,"package_name":"dplyr","ecosystem":"cran","requirements":"\u003e= 1.1.4","direct":true,"kind":"imports","optional":false},{"id":22237800010,"package_name":"ggplot2","ecosystem":"cran","requirements":"\u003e= 3.5.1","direct":true,"kind":"imports","optional":false},{"id":22237800011,"package_name":"ggtext","ecosystem":"cran","requirements":"\u003e= 0.1.2","direct":true,"kind":"imports","optional":false},{"id":22237800012,"package_name":"colourpicker","ecosystem":"cran","requirements":"\u003e= 1.3.0","direct":true,"kind":"imports","optional":false},{"id":22237800028,"package_name":"ggrepel","ecosystem":"cran","requirements":"\u003e= 0.9.6","direct":true,"kind":"imports","optional":false},{"id":22237800036,"package_name":"arrow","ecosystem":"cran","requirements":"\u003e= 17.0.0.1","direct":true,"kind":"imports","optional":false},{"id":22237800040,"package_name":"DT","ecosystem":"cran","requirements":"\u003e= 0.33","direct":true,"kind":"imports","optional":false},{"id":22237800041,"package_name":"plotly","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800042,"package_name":"Cairo","ecosystem":"cran","requirements":"\u003e= 1.6","direct":true,"kind":"imports","optional":false},{"id":22237800043,"package_name":"gt","ecosystem":"cran","requirements":"\u003e= 0.11.1","direct":true,"kind":"imports","optional":false},{"id":22237800045,"package_name":"shiny.semantic","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800071,"package_name":"semantic.dashboard","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800072,"package_name":"gridExtra","ecosystem":"cran","requirements":"\u003e= 2.3","direct":true,"kind":"imports","optional":false},{"id":22237800078,"package_name":"webshot2","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800079,"package_name":"shinyalert","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800080,"package_name":"tidyr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800081,"package_name":"htmltools","ecosystem":"cran","requirements":"\u003e= 0.5.8","direct":true,"kind":"imports","optional":false},{"id":22237800082,"package_name":"htmlwidgets","ecosystem":"cran","requirements":"\u003e= 1.6.4","direct":true,"kind":"imports","optional":false},{"id":22237800083,"package_name":"bslib","ecosystem":"cran","requirements":"\u003e= 0.8.0","direct":true,"kind":"imports","optional":false},{"id":22237800084,"package_name":"magrittr","ecosystem":"cran","requirements":"*","direct":true,"kind":"imports","optional":false},{"id":22237800085,"package_name":"testthat","ecosystem":"cran","requirements":"\u003e= 3.0.0","direct":true,"kind":"suggests","optional":false},{"id":22237800086,"package_name":"knitr","ecosystem":"cran","requirements":"\u003e= 1.49","direct":true,"kind":"suggests","optional":false},{"id":22237800087,"package_name":"rmarkdown","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false},{"id":22237800088,"package_name":"covr","ecosystem":"cran","requirements":"*","direct":true,"kind":"suggests","optional":false}]}],"score":3.044522437723423,"created_at":"2025-10-26T17:05:06.060Z","updated_at":"2025-10-26T17:07:00.998Z","avatar_url":"https://github.com/DatViseR.png","language":"HTML","category":null,"sub_category":null,"monthly_downloads":0,"total_dependent_repos":0,"total_dependent_packages":0,"readme":null,"funding_links":[],"readme_doi_urls":[],"works":{},"citation_counts":{},"total_citations":0,"keywords_from_contributors":[],"project_url":"https://ost.ecosyste.ms/api/v1/projects/327684","html_url":"https://ost.ecosyste.ms/projects/327684"}