{"id":23057315,"url":"https://github.com/applicativesystem/phylogenomics-apptainer","last_synced_at":"2025-08-15T06:32:34.914Z","repository":{"id":258485087,"uuid":"865613767","full_name":"applicativesystem/phylogenomics-apptainer","owner":"applicativesystem","description":"apptainer image for complete phylogenomics and evolutionary analysis","archived":false,"fork":false,"pushed_at":"2024-10-17T05:54:05.000Z","size":3,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2024-11-10T20:18:16.004Z","etag":null,"topics":["apptainer","apptainer-container","devops","devops-platform","devops-team","high-performance-computing","phylogenomics","phylogenomics-bioinformatics"],"latest_commit_sha":null,"homepage":"","language":null,"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/applicativesystem.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,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null}},"created_at":"2024-09-30T20:26:28.000Z","updated_at":"2024-10-17T05:54:08.000Z","dependencies_parsed_at":"2024-10-21T12:18:56.174Z","dependency_job_id":null,"html_url":"https://github.com/applicativesystem/phylogenomics-apptainer","commit_stats":null,"previous_names":["codecreatede/phylogenomics-apptainer","applicativesystem/phylogenomics-apptainer"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fphylogenomics-apptainer","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fphylogenomics-apptainer/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fphylogenomics-apptainer/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/applicativesystem%2Fphylogenomics-apptainer/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/applicativesystem","download_url":"https://codeload.github.com/applicativesystem/phylogenomics-apptainer/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":229897442,"owners_count":18141135,"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"}},"keywords":["apptainer","apptainer-container","devops","devops-platform","devops-team","high-performance-computing","phylogenomics","phylogenomics-bioinformatics"],"created_at":"2024-12-16T02:11:55.582Z","updated_at":"2024-12-16T02:11:56.019Z","avatar_url":"https://github.com/applicativesystem.png","language":null,"funding_links":[],"categories":[],"sub_categories":[],"readme":"# phylogenomics-apptainer \n\n- a apptainer for the phylogenomics\n- it contains all the applications combined in a single container for the phylogenomics.\n- it incldues orthofinder, astral, trimal, alignmentGO, raxml and clipkit. \n- all the applications required for the genome analysis and genome or gene based phylogenomics.  \n\n```\napptainer exec phylogenomics.def\n\nGiven an folder of the fasta file you can invoke the apptainer as\napptainer run phylogenomics.sif orthofinder PATH-FASTA-FOLDER\napptainer run phylogenomics.sif astral -h\napptainer run phylogenomics.sif trimal -h\napptainer run phylogenomics.sif alignmentGO -h\napptainer run clipkit -h\n\n```\nGaurav Sablok\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fapplicativesystem%2Fphylogenomics-apptainer","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fapplicativesystem%2Fphylogenomics-apptainer","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fapplicativesystem%2Fphylogenomics-apptainer/lists"}